#=GENOME_DIFF	1.0
#=AUTHOR	breseq 0.25c 
#=CREATED	23:41:48 04 Mar 2015
#=REFSEQ	/data/savita/refseq/NC_007779.gbk
#=READSEQ	6_D16_AGTCAA_L001_R1_001.fastq
SNP	1	84	NC_007779	66457	A	frequency=1
SNP	2	90	NC_007779	97880	T	frequency=1
DEL	3	868	NC_007779	105358	3	frequency=1.864002e-01
SNP	4	100	NC_007779	167632	A	frequency=1
SNP	5	109	NC_007779	274547	G	frequency=1
DEL	6	853,872	NC_007779	274733	97240	frequency=1
SNP	7	136	NC_007779	547694	G	frequency=1
INS	8	137	NC_007779	547831	G	frequency=1	insert_position=1
SNP	9	139	NC_007779	556858	T	frequency=1
SNP	10	140	NC_007779	569996	C	frequency=1
DEL	11	854,877	NC_007779	654214	1199	frequency=1
SNP	12	165	NC_007779	749354	A	frequency=1
SNP	13	168	NC_007779	758300	A	frequency=9.922695e-02
SNP	14	169	NC_007779	758440	A	frequency=1
SNP	15	170	NC_007779	758450	A	frequency=1
SNP	16	185	NC_007779	887234	A	frequency=1
SNP	17	200	NC_007779	987574	T	frequency=1
SNP	18	215	NC_007779	1093686	C	frequency=1
SNP	19	217	NC_007779	1097580	T	frequency=1.865644e-01
SNP	20	226	NC_007779	1170573	T	frequency=1
SNP	21	230	NC_007779	1197797	T	frequency=4.149642e-01
SNP	22	231	NC_007779	1197809	T	frequency=3.862848e-01
SNP	23	232	NC_007779	1197822	C	frequency=3.158674e-01
SNP	24	233	NC_007779	1197824	G	frequency=3.148713e-01
SNP	25	234	NC_007779	1197854	T	frequency=1.208735e-01
SNP	26	235	NC_007779	1197857	C	frequency=1.209741e-01
SNP	27	236	NC_007779	1197860	G	frequency=9.759617e-02
SNP	28	237	NC_007779	1197869	T	frequency=4.274273e-02
SNP	29	238	NC_007779	1213001	C	frequency=4.014015e-02
SNP	30	239	NC_007779	1213013	C	frequency=3.633022e-02
SNP	31	240	NC_007779	1213026	T	frequency=2.071381e-02
SNP	32	241	NC_007779	1213028	A	frequency=2.070904e-02
DEL	33	856,882	NC_007779	1301041	1336	frequency=1
SNP	34	255	NC_007779	1318876	A	frequency=1
DEL	35	857,885	NC_007779	1413639	23060	frequency=1
SNP	36	313	NC_007779	1483588	A	frequency=1
DEL	37	316	NC_007779	1496775	1	frequency=1
SNP	38	331	NC_007779	1615814	A	frequency=1
DEL	39	391	NC_007779	1669599	1	frequency=1
SNP	40	421	NC_007779	1844073	A	frequency=1
SNP	41	435	NC_007779	1907281	A	frequency=7.917404e-03
SNP	42	437	NC_007779	1918872	A	frequency=1
SNP	43	439	NC_007779	1926746	A	frequency=2.071190e-02
SNP	44	443	NC_007779	1973476	A	frequency=1
SNP	45	449	NC_007779	2005401	T	frequency=1
SNP	46	468	NC_007779	2170094	A	frequency=1
DEL	47	859,892	NC_007779	2320795	1336	frequency=1
SNP	48	504	NC_007779	2406075	T	frequency=1
SNP	49	508	NC_007779	2416102	A	frequency=1
SNP	50	523	NC_007779	2538628	T	frequency=1
INS	51	897	NC_007779	2865274	GCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACG	frequency=1.437785e-01
SNP	52	561	NC_007779	2866111	G	frequency=1
SNP	53	582	NC_007779	3003330	A	frequency=1
SNP	54	590	NC_007779	3049815	T	frequency=1
SNP	55	634	NC_007779	3397813	G	frequency=1
SNP	56	653	NC_007779	3450056	A	frequency=3.959274e-02
DEL	57	862,905	NC_007779	3742936	1336	frequency=1
DEL	58	863,907	NC_007779	3746911	1199	frequency=1
DEL	59	693	NC_007779	3750122	1	frequency=9.594593e-01
SNP	60	694	NC_007779	3750123	T	frequency=4.043102e-02
DEL	61	864,910	NC_007779	3750591	1199	frequency=1
SNP	62	723	NC_007779	3898657	G	frequency=1
DEL	63	865,912	NC_007779	3958123	34	frequency=1
SNP	64	759	NC_007779	4090749	T	frequency=1
SNP	65	771	NC_007779	4165991	C	frequency=1
DEL	66	866,915	NC_007779	4310363	1199	frequency=1
SNP	67	807	NC_007779	4347492	A	frequency=1.566410e-02
DEL	68	810,811	NC_007779	4371271	2	frequency=1
SNP	69	836	NC_007779	4546535	A	frequency=1
RA	70	.	NC_007779	302	0	T	.	bias_e_value=506742	bias_p_value=0.109063	fisher_strand_p_value=1	frequency=1.694202e-02	genotype_quality=1368.4	ks_quality_p_value=0.0228149	log10_base_likelihood=-17.4839	log10_qual_likelihood_position_model=3.41301	log10_strand_likelihood_position_model=0.527288	new_cov=2/4	polymorphism_quality=12.2	quality=12.2	quality_position_model=1.23574e-15	ref_cov=149/199	reject=INDEL_HOMOPOLYMER	tot_cov=151/203
RA	71	.	NC_007779	847	0	A	C	bias_e_value=0.11264	bias_p_value=2.42428e-08	fisher_strand_p_value=1.12192e-09	frequency=2.806473e-02	genotype_quality=777.9	ks_quality_p_value=1	log10_base_likelihood=-7.64925	log10_qual_likelihood_position_model=12.6524	log10_strand_likelihood_position_model=8.95004	new_cov=0/8	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=186/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=186/19
RA	72	.	NC_007779	5595	0	G	T	bias_e_value=7.84792e-06	bias_p_value=1.68906e-12	fisher_strand_p_value=5.35211e-14	frequency=8.888865e-02	genotype_quality=1108.7	ks_quality_p_value=1	log10_base_likelihood=-19.2891	log10_qual_likelihood_position_model=25.089	log10_strand_likelihood_position_model=13.2907	new_cov=0/47	polymorphism_quality=14.0	quality=14.0	quality_position_model=Inf	ref_cov=170/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=170/209
RA	73	.	NC_007779	11143	0	G	T	bias_e_value=0.00617927	bias_p_value=1.32992e-09	fisher_strand_p_value=5.39684e-11	frequency=4.483604e-02	genotype_quality=1287.2	ks_quality_p_value=1	log10_base_likelihood=-12.5163	log10_qual_likelihood_position_model=24.9145	log10_strand_likelihood_position_model=10.2679	new_cov=0/29	polymorphism_quality=7.1	quality=7.1	quality_position_model=Inf	ref_cov=210/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=210/182
RA	74	.	NC_007779	17050	0	A	C	bias_e_value=1.59604e-10	bias_p_value=3.43505e-17	fisher_strand_p_value=8.05154e-19	frequency=7.564878e-02	genotype_quality=829.1	ks_quality_p_value=1	log10_base_likelihood=-9.27952	log10_qual_likelihood_position_model=34.0328	log10_strand_likelihood_position_model=18.0941	new_cov=0/48	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=151/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=151/135
RA	75	.	NC_007779	28427	0	C	A	bias_e_value=1009.07	bias_p_value=0.000217176	fisher_strand_p_value=1.82311e-05	frequency=3.225231e-02	genotype_quality=1071.4	ks_quality_p_value=1	log10_base_likelihood=-6.84997	log10_qual_likelihood_position_model=18.9218	log10_strand_likelihood_position_model=5.01041	new_cov=20/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=178/147	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=198/147
RA	76	.	NC_007779	29496	0	T	A	bias_e_value=16.222	bias_p_value=3.49135e-06	fisher_strand_p_value=2.13407e-07	frequency=3.905487e-02	genotype_quality=1145.5	ks_quality_p_value=1	log10_base_likelihood=-8.04157	log10_qual_likelihood_position_model=24.983	log10_strand_likelihood_position_model=6.67079	new_cov=0/15	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=205/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=205/122
RA	77	.	NC_007779	34111	1	.	T	bias_e_value=1693750	bias_p_value=0.364535	fisher_strand_p_value=0.137684	frequency=1.075268e-02	genotype_quality=1801.3	ks_quality_p_value=0.837967	log10_base_likelihood=-16.6618	log10_qual_likelihood_position_model=2.45245	log10_strand_likelihood_position_model=0.982161	new_cov=4/0	polymorphism_quality=11.3	quality=11.3	quality_position_model=2.5901e-15	ref_cov=208/160	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=212/160
RA	78	.	NC_007779	34112	0	T	.	bias_e_value=3250750	bias_p_value=0.699637	fisher_strand_p_value=1	frequency=1.822186e-02	genotype_quality=1497.8	ks_quality_p_value=0.333424	log10_base_likelihood=-20.5829	log10_qual_likelihood_position_model=3.63277	log10_strand_likelihood_position_model=0.528291	new_cov=4/3	polymorphism_quality=15.3	quality=15.3	quality_position_model=1.48932e-18	ref_cov=213/164	reject=INDEL_HOMOPOLYMER	tot_cov=217/167
RA	79	.	NC_007779	39910	0	G	T	bias_e_value=4177.55	bias_p_value=0.000899107	fisher_strand_p_value=8.68601e-05	frequency=4.866028e-02	genotype_quality=876.4	ks_quality_p_value=1	log10_base_likelihood=-5.92426	log10_qual_likelihood_position_model=21.5381	log10_strand_likelihood_position_model=4.32137	new_cov=0/28	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=88/192	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=88/220
RA	80	.	NC_007779	47305	0	G	T	bias_e_value=1.11186e-06	bias_p_value=2.39299e-13	fisher_strand_p_value=7.12733e-15	frequency=7.942390e-02	genotype_quality=1205.1	ks_quality_p_value=1	log10_base_likelihood=-24.0978	log10_qual_likelihood_position_model=30.6425	log10_strand_likelihood_position_model=14.3955	new_cov=0/44	polymorphism_quality=18.9	quality=18.9	quality_position_model=Inf	ref_cov=192/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=193/194
RA	81	.	NC_007779	50358	0	G	T	bias_e_value=6.35027e-06	bias_p_value=1.36673e-12	fisher_strand_p_value=4.30364e-14	frequency=6.582165e-02	genotype_quality=1105.5	ks_quality_p_value=0.999375	log10_base_likelihood=-14.2332	log10_qual_likelihood_position_model=24.1713	log10_strand_likelihood_position_model=13.3835	new_cov=0/43	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=190/160	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=190/204
RA	82	.	NC_007779	63418	1	.	T	bias_e_value=2987050	bias_p_value=0.642883	fisher_strand_p_value=1	frequency=1.047134e-02	genotype_quality=1875.3	ks_quality_p_value=0.285105	log10_base_likelihood=-16.7008	log10_qual_likelihood_position_model=2.38819	log10_strand_likelihood_position_model=0.429088	new_cov=2/2	polymorphism_quality=11.4	quality=11.4	quality_position_model=5.58194e-16	ref_cov=174/204	reject=INDEL_HOMOPOLYMER	tot_cov=176/206
RA	83	.	NC_007779	63419	0	T	.	bias_e_value=3491090	bias_p_value=0.751366	fisher_strand_p_value=0.59609	frequency=7.824898e-03	genotype_quality=1551.3	ks_quality_p_value=0.643908	log10_base_likelihood=-7.59899	log10_qual_likelihood_position_model=1.36626	log10_strand_likelihood_position_model=0.464545	new_cov=2/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.10755e-07	ref_cov=174/206	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=176/207
RA	84	.	NC_007779	66457	0	C	A	frequency=1	genotype_quality=1499.2	new_cov=200/171	quality=1499.2	ref_cov=0/0	tot_cov=200/171
RA	85	.	NC_007779	70602	0	G	T	bias_e_value=2.69259e-07	bias_p_value=5.79509e-14	fisher_strand_p_value=1.65406e-15	frequency=5.553913e-02	genotype_quality=1277.1	ks_quality_p_value=1	log10_base_likelihood=-10.7359	log10_qual_likelihood_position_model=30.7103	log10_strand_likelihood_position_model=14.7814	new_cov=0/37	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=221/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=221/167
RA	86	.	NC_007779	75070	1	.	G	bias_e_value=493096	bias_p_value=0.106126	fisher_strand_p_value=0.0668021	frequency=7.832527e-03	genotype_quality=1886.9	ks_quality_p_value=0.329952	log10_base_likelihood=-12.4558	log10_qual_likelihood_position_model=1.99644	log10_strand_likelihood_position_model=1.17521	new_cov=3/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=2.69434e-11	ref_cov=153/227	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=156/227
RA	87	.	NC_007779	75074	0	T	G	bias_e_value=1.07784e-37	bias_p_value=2.31977e-44	fisher_strand_p_value=2.18564e-46	frequency=1.579528e-01	genotype_quality=1053.8	ks_quality_p_value=1	log10_base_likelihood=-40.1129	log10_qual_likelihood_position_model=62.5066	log10_strand_likelihood_position_model=45.6604	new_cov=75/0	polymorphism_quality=35.0	quality=35.0	quality_position_model=Inf	ref_cov=41/230	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/230
RA	88	.	NC_007779	75079	0	C	T	bias_e_value=2.39137e-05	bias_p_value=5.1468e-12	fisher_strand_p_value=1.69262e-13	frequency=4.633379e-02	genotype_quality=1088.7	ks_quality_p_value=1	log10_base_likelihood=-10.796	log10_qual_likelihood_position_model=23.93	log10_strand_likelihood_position_model=12.7714	new_cov=17/0	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=43/240	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=60/241
RA	89	.	NC_007779	81158	0	C	A	bias_e_value=0.514372	bias_p_value=1.10705e-07	fisher_strand_p_value=5.53172e-09	frequency=3.434277e-02	genotype_quality=1250.6	ks_quality_p_value=1	log10_base_likelihood=-8.44941	log10_qual_likelihood_position_model=21.1768	log10_strand_likelihood_position_model=8.25714	new_cov=25/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=161/198	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/198
RA	90	.	NC_007779	97880	0	C	T	frequency=1	genotype_quality=1542.2	new_cov=207/173	quality=1542.2	ref_cov=0/0	tot_cov=207/173
RA	91	.	NC_007779	101246	0	T	G	bias_e_value=265.604	bias_p_value=5.71643e-05	fisher_strand_p_value=4.76663e-06	frequency=3.544807e-02	genotype_quality=809.1	ks_quality_p_value=0.897516	log10_base_likelihood=-17.2209	log10_qual_likelihood_position_model=9.73298	log10_strand_likelihood_position_model=5.32179	new_cov=8/0	polymorphism_quality=11.9	quality=11.9	quality_position_model=0.000689537	ref_cov=43/172	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=51/172
RA	92	.	NC_007779	107544	1	.	T	bias_e_value=2969370	bias_p_value=0.639078	fisher_strand_p_value=0.685144	frequency=1.739120e-02	genotype_quality=1643.8	ks_quality_p_value=0.411717	log10_base_likelihood=-26.4415	log10_qual_likelihood_position_model=4.81194	log10_strand_likelihood_position_model=0.611498	new_cov=4/2	polymorphism_quality=21.2	quality=21.2	quality_position_model=3.34476e-23	ref_cov=172/167	reject=INDEL_HOMOPOLYMER	tot_cov=176/169
RA	93	.	NC_007779	119384	0	T	G	bias_e_value=3.3716e-16	bias_p_value=7.25647e-23	fisher_strand_p_value=1.29573e-24	frequency=1.001320e-01	genotype_quality=1039.6	ks_quality_p_value=1	log10_base_likelihood=-16.0795	log10_qual_likelihood_position_model=41.0726	log10_strand_likelihood_position_model=23.8875	new_cov=62/0	polymorphism_quality=10.7	quality=10.7	quality_position_model=Inf	ref_cov=106/194	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=168/194
RA	94	.	NC_007779	134366	0	G	T	bias_e_value=0.0120132	bias_p_value=2.58553e-09	fisher_strand_p_value=1.10985e-10	frequency=4.150486e-02	genotype_quality=1425.5	ks_quality_p_value=0.972734	log10_base_likelihood=-8.72047	log10_qual_likelihood_position_model=25.0479	log10_strand_likelihood_position_model=9.95474	new_cov=0/31	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=223/188	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=223/219
RA	95	.	NC_007779	150535	0	G	A	bias_e_value=9482.77	bias_p_value=0.00204091	fisher_strand_p_value=0.000216216	frequency=3.527069e-02	genotype_quality=1266.4	ks_quality_p_value=1	log10_base_likelihood=-13.6631	log10_qual_likelihood_position_model=14.9236	log10_strand_likelihood_position_model=3.79043	new_cov=13/0	polymorphism_quality=8.3	quality=8.3	quality_position_model=Inf	ref_cov=154/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=167/154
RA	96	.	NC_007779	150537	0	A	C	bias_e_value=205108	bias_p_value=0.0441441	fisher_strand_p_value=0.00748932	frequency=2.137756e-02	genotype_quality=1221.6	ks_quality_p_value=1	log10_base_likelihood=-12.2526	log10_qual_likelihood_position_model=11.4425	log10_strand_likelihood_position_model=2.30669	new_cov=8/0	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=160/155	reject=POLYMORPHISM_STRAND	tot_cov=168/155
RA	97	.	NC_007779	150546	0	A	C	bias_e_value=66008	bias_p_value=0.0142065	fisher_strand_p_value=0.00196421	frequency=2.435398e-02	genotype_quality=1148.7	ks_quality_p_value=1	log10_base_likelihood=-6.05253	log10_qual_likelihood_position_model=15.0903	log10_strand_likelihood_position_model=2.8181	new_cov=10/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=150/142	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=160/142
RA	98	.	NC_007779	158557	0	G	T	bias_e_value=0.000616278	bias_p_value=1.32638e-10	fisher_strand_p_value=4.9051e-12	frequency=5.481291e-02	genotype_quality=1101.4	ks_quality_p_value=1	log10_base_likelihood=-10.5024	log10_qual_likelihood_position_model=26.1315	log10_strand_likelihood_position_model=11.3094	new_cov=0/31	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=193/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=193/162
RA	99	.	NC_007779	164601	0	T	C	bias_e_value=8276.38	bias_p_value=0.00178127	fisher_strand_p_value=0.000191574	frequency=4.775047e-02	genotype_quality=389.8	ks_quality_p_value=0.969431	log10_base_likelihood=-7.80952	log10_qual_likelihood_position_model=7.7522	log10_strand_likelihood_position_model=3.71766	new_cov=6/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=25/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=31/90
RA	100	.	NC_007779	167632	0	C	A	frequency=1	genotype_quality=1648.4	new_cov=193/215	quality=1648.4	ref_cov=0/0	tot_cov=193/215
RA	101	.	NC_007779	170275	0	C	A	bias_e_value=0.0562704	bias_p_value=1.21107e-08	fisher_strand_p_value=5.42222e-10	frequency=4.690123e-02	genotype_quality=1166.9	ks_quality_p_value=1	log10_base_likelihood=-11.6714	log10_qual_likelihood_position_model=20.9894	log10_strand_likelihood_position_model=9.4389	new_cov=30/0	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=155/181	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=185/181
RA	102	.	NC_007779	175694	0	T	G	bias_e_value=1.17572e-22	bias_p_value=2.53043e-29	fisher_strand_p_value=3.55844e-31	frequency=9.977436e-02	genotype_quality=1140.3	ks_quality_p_value=1	log10_base_likelihood=-30.1582	log10_qual_likelihood_position_model=45.0976	log10_strand_likelihood_position_model=30.4487	new_cov=64/0	polymorphism_quality=25.0	quality=25.0	quality_position_model=Inf	ref_cov=86/232	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/232
RA	103	.	NC_007779	193496	0	A	T	bias_e_value=183.986	bias_p_value=3.95981e-05	fisher_strand_p_value=2.87811e-06	frequency=3.689194e-02	genotype_quality=1175.9	ks_quality_p_value=1	log10_base_likelihood=-10.7243	log10_qual_likelihood_position_model=21.9261	log10_strand_likelihood_position_model=5.54089	new_cov=14/0	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=123/194	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/194
RA	104	.	NC_007779	194247	0	G	T	bias_e_value=4.9287e-05	bias_p_value=1.06077e-11	fisher_strand_p_value=3.57964e-13	frequency=8.346844e-02	genotype_quality=929.3	ks_quality_p_value=0.999132	log10_base_likelihood=-20.5763	log10_qual_likelihood_position_model=23.421	log10_strand_likelihood_position_model=12.4462	new_cov=0/35	polymorphism_quality=15.3	quality=15.3	quality_position_model=Inf	ref_cov=159/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=160/145
RA	105	.	NC_007779	194839	1	.	T	bias_e_value=4579910	bias_p_value=0.985704	fisher_strand_p_value=1	frequency=5.347252e-03	genotype_quality=1853.4	ks_quality_p_value=0.835745	log10_base_likelihood=-7.70571	log10_qual_likelihood_position_model=1.55485	log10_strand_likelihood_position_model=0.29988	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=9.09222e-08	ref_cov=185/187	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=186/188
RA	106	.	NC_007779	207536	0	G	T	bias_e_value=0.632452	bias_p_value=1.36119e-07	fisher_strand_p_value=6.87635e-09	frequency=4.300117e-02	genotype_quality=1106.9	ks_quality_p_value=1	log10_base_likelihood=-9.9538	log10_qual_likelihood_position_model=22.9312	log10_strand_likelihood_position_model=8.46411	new_cov=0/29	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=177/170	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=177/199
RA	107	.	NC_007779	215133	1	.	A	bias_e_value=3386150	bias_p_value=0.72878	fisher_strand_p_value=0.613369	frequency=8.620262e-03	genotype_quality=1711.1	ks_quality_p_value=0.588496	log10_base_likelihood=-12.3467	log10_qual_likelihood_position_model=1.66752	log10_strand_likelihood_position_model=0.437815	new_cov=1/2	polymorphism_quality=7.0	quality=7.0	quality_position_model=2.83659e-12	ref_cov=178/167	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=179/169
RA	108	.	NC_007779	218827	1	.	A	bias_e_value=4645960	bias_p_value=0.999919	fisher_strand_p_value=1	frequency=5.633354e-03	genotype_quality=1753.4	ks_quality_p_value=0.987313	log10_base_likelihood=-7.71813	log10_qual_likelihood_position_model=2.40026	log10_strand_likelihood_position_model=0.30684	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=6.7607e-07	ref_cov=154/199	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=155/200
RA	109	.	NC_007779	274547	0	A	G	frequency=1	genotype_quality=1661.7	new_cov=204/182	quality=1661.7	ref_cov=0/0	tot_cov=204/182
RA	110	.	NC_007779	308884	0	C	A	deleted=1	frequency=1	genotype_quality=3.7	new_cov=0/1	quality=3.7	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	111	.	NC_007779	376353	0	G	A	bias_e_value=4646050	bias_p_value=0.99994	fisher_strand_p_value=1	frequency=1.107788e-02	genotype_quality=1455.5	ks_quality_p_value=0.989086	log10_base_likelihood=-6.03622	log10_qual_likelihood_position_model=3.14453	log10_strand_likelihood_position_model=0.439123	new_cov=2/2	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.000337739	ref_cov=151/198	reject=EVALUE	tot_cov=153/200
RA	112	.	NC_007779	379236	1	.	G	bias_e_value=2193830	bias_p_value=0.472163	fisher_strand_p_value=0.435317	frequency=2.611923e-02	genotype_quality=1242.9	ks_quality_p_value=0.391727	log10_base_likelihood=-32.0657	log10_qual_likelihood_position_model=3.90165	log10_strand_likelihood_position_model=0.658769	new_cov=6/1	polymorphism_quality=26.9	quality=26.9	quality_position_model=9.54446e-30	ref_cov=176/85	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=182/86
RA	113	.	NC_007779	379237	0	G	.	bias_e_value=3732680	bias_p_value=0.80336	fisher_strand_p_value=0.594872	frequency=5.297279e-02	genotype_quality=1199.9	ks_quality_p_value=0.74403	log10_base_likelihood=-54.9285	log10_qual_likelihood_position_model=5.13804	log10_strand_likelihood_position_model=0.781696	new_cov=9/7	polymorphism_quality=49.9	quality=49.9	quality_position_model=2.25059e-51	ref_cov=184/102	reject=INDEL_HOMOPOLYMER	tot_cov=193/109
RA	114	.	NC_007779	379266	0	G	C	bias_e_value=33.2343	bias_p_value=7.1528e-06	fisher_strand_p_value=5.01785e-07	frequency=4.821634e-02	genotype_quality=905.3	ks_quality_p_value=0.914058	log10_base_likelihood=-7.85083	log10_qual_likelihood_position_model=26.4371	log10_strand_likelihood_position_model=6.29948	new_cov=19/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=115/143	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=135/143
RA	115	.	NC_007779	387560	0	A	C	bias_e_value=2.28229e-10	bias_p_value=4.91203e-17	fisher_strand_p_value=1.16132e-18	frequency=4.396534e-02	genotype_quality=1198.9	ks_quality_p_value=1	log10_base_likelihood=-9.69732	log10_qual_likelihood_position_model=34.2026	log10_strand_likelihood_position_model=17.935	new_cov=0/39	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=236/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=236/145
RA	116	.	NC_007779	387917	0	T	G	bias_e_value=449.877	bias_p_value=9.68241e-05	fisher_strand_p_value=7.56948e-06	frequency=4.479027e-02	genotype_quality=539.0	ks_quality_p_value=1	log10_base_likelihood=-11.2355	log10_qual_likelihood_position_model=11.9641	log10_strand_likelihood_position_model=5.13459	new_cov=2/8	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=140/20	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=142/28
RA	117	.	NC_007779	387919	0	A	G	bias_e_value=1.03149	bias_p_value=2.22e-07	fisher_strand_p_value=1.15436e-08	frequency=4.744244e-02	genotype_quality=565.8	ks_quality_p_value=0.997502	log10_base_likelihood=-12.7297	log10_qual_likelihood_position_model=8.16635	log10_strand_likelihood_position_model=7.93766	new_cov=0/8	polymorphism_quality=7.3	quality=7.3	quality_position_model=Inf	ref_cov=144/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=145/20
RA	118	.	NC_007779	407306	0	C	A	bias_e_value=7.68876e-10	bias_p_value=1.6548e-16	fisher_strand_p_value=4.03094e-18	frequency=1.207037e-01	genotype_quality=960.9	ks_quality_p_value=1	log10_base_likelihood=-29.1629	log10_qual_likelihood_position_model=30.5476	log10_strand_likelihood_position_model=17.3946	new_cov=50/0	polymorphism_quality=24.0	quality=24.0	quality_position_model=Inf	ref_cov=110/165	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=160/165
RA	119	.	NC_007779	417731	0	T	.	bias_e_value=685695	bias_p_value=0.147578	fisher_strand_p_value=0.128457	frequency=1.107216e-02	genotype_quality=1413.1	ks_quality_p_value=0.261487	log10_base_likelihood=-10.7211	log10_qual_likelihood_position_model=2.3909	log10_strand_likelihood_position_model=1.06714	new_cov=4/0	polymorphism_quality=5.3	quality=5.3	quality_position_model=3.17941e-09	ref_cov=192/165	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=196/165
RA	120	.	NC_007779	429744	1	.	T	bias_e_value=2563940	bias_p_value=0.55182	fisher_strand_p_value=0.219424	frequency=5.865097e-03	genotype_quality=1685.2	ks_quality_p_value=0.998755	log10_base_likelihood=-7.47099	log10_qual_likelihood_position_model=2.15682	log10_strand_likelihood_position_model=0.658716	new_cov=0/2	polymorphism_quality=2.0	quality=2.0	quality_position_model=1.58621e-06	ref_cov=181/158	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=181/160
RA	121	.	NC_007779	440767	0	G	T	bias_e_value=2.94321e-05	bias_p_value=6.33449e-12	fisher_strand_p_value=2.09803e-13	frequency=7.773638e-02	genotype_quality=1038.6	ks_quality_p_value=1	log10_base_likelihood=-19.117	log10_qual_likelihood_position_model=23.9277	log10_strand_likelihood_position_model=12.6782	new_cov=0/35	polymorphism_quality=13.8	quality=13.8	quality_position_model=Inf	ref_cov=183/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=183/158
RA	122	.	NC_007779	450507	0	T	G	bias_e_value=0.076067	bias_p_value=1.63714e-08	fisher_strand_p_value=7.43951e-10	frequency=5.190802e-02	genotype_quality=1016.9	ks_quality_p_value=0.999381	log10_base_likelihood=-6.86864	log10_qual_likelihood_position_model=29.9187	log10_strand_likelihood_position_model=9.12846	new_cov=28/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=128/159	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=156/159
RA	123	.	NC_007779	455713	1	.	T	bias_e_value=2166770	bias_p_value=0.46634	fisher_strand_p_value=0.248085	frequency=7.978439e-03	genotype_quality=1840.8	ks_quality_p_value=0.67417	log10_base_likelihood=-12.2897	log10_qual_likelihood_position_model=2.67677	log10_strand_likelihood_position_model=0.892717	new_cov=3/0	polymorphism_quality=6.9	quality=6.9	quality_position_model=1.01721e-10	ref_cov=187/186	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=190/186
RA	124	.	NC_007779	460529	0	T	.	bias_e_value=4598690	bias_p_value=0.989746	fisher_strand_p_value=1	frequency=8.013725e-03	genotype_quality=1505.1	ks_quality_p_value=0.860256	log10_base_likelihood=-7.70072	log10_qual_likelihood_position_model=1.28905	log10_strand_likelihood_position_model=0.411465	new_cov=2/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=6.37262e-08	ref_cov=191/180	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=193/181
RA	125	.	NC_007779	461003	0	T	.	bias_e_value=3082660	bias_p_value=0.66346	fisher_strand_p_value=1	frequency=7.843018e-03	genotype_quality=1538.0	ks_quality_p_value=0.301889	log10_base_likelihood=-7.32246	log10_qual_likelihood_position_model=3.0861	log10_strand_likelihood_position_model=0.411757	new_cov=2/1	polymorphism_quality=1.8	quality=1.8	quality_position_model=1.17582e-05	ref_cov=195/184	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=197/185
RA	126	.	NC_007779	468787	1	.	A	bias_e_value=4074550	bias_p_value=0.87694	fisher_strand_p_value=1	frequency=5.494118e-03	genotype_quality=1793.1	ks_quality_p_value=0.546886	log10_base_likelihood=-7.92929	log10_qual_likelihood_position_model=2.73007	log10_strand_likelihood_position_model=0.307454	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=8.99716e-07	ref_cov=205/157	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=206/158
RA	127	.	NC_007779	473021	0	C	A	bias_e_value=72.0987	bias_p_value=1.55173e-05	fisher_strand_p_value=1.05089e-06	frequency=3.635311e-02	genotype_quality=1093.4	ks_quality_p_value=1	log10_base_likelihood=-7.98191	log10_qual_likelihood_position_model=18.5567	log10_strand_likelihood_position_model=6.2009	new_cov=24/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=171/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=195/149
RA	128	.	NC_007779	474686	0	G	T	bias_e_value=0.00322668	bias_p_value=6.94457e-10	fisher_strand_p_value=2.74278e-11	frequency=5.425930e-02	genotype_quality=1049.2	ks_quality_p_value=1	log10_base_likelihood=-14.2636	log10_qual_likelihood_position_model=26.2697	log10_strand_likelihood_position_model=10.5618	new_cov=0/29	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=186/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/156
RA	129	.	NC_007779	497096	0	T	G	bias_e_value=14263.2	bias_p_value=0.00306978	fisher_strand_p_value=0.000341797	frequency=2.557373e-02	genotype_quality=1022.2	ks_quality_p_value=1	log10_base_likelihood=-6.70017	log10_qual_likelihood_position_model=16.4921	log10_strand_likelihood_position_model=3.50279	new_cov=2/11	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=200/102	reject=EVALUE,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=202/113
RA	130	.	NC_007779	497098	0	A	G	bias_e_value=157.913	bias_p_value=3.39867e-05	fisher_strand_p_value=2.44103e-06	frequency=2.869987e-02	genotype_quality=1107.9	ks_quality_p_value=1	log10_base_likelihood=-8.34152	log10_qual_likelihood_position_model=14.8325	log10_strand_likelihood_position_model=5.61243	new_cov=0/12	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=206/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=206/112
RA	131	.	NC_007779	500804	0	A	C	bias_e_value=3.30759e-08	bias_p_value=7.1187e-15	fisher_strand_p_value=1.91403e-16	frequency=3.258038e-02	genotype_quality=982.3	ks_quality_p_value=1	log10_base_likelihood=-6.54449	log10_qual_likelihood_position_model=26.0845	log10_strand_likelihood_position_model=15.7181	new_cov=0/28	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=206/64	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=206/93
RA	132	.	NC_007779	513848	0	A	C	bias_e_value=5.75674e-22	bias_p_value=1.23899e-28	fisher_strand_p_value=1.78273e-30	frequency=1.358218e-01	genotype_quality=885.4	ks_quality_p_value=1	log10_base_likelihood=-36.0651	log10_qual_likelihood_position_model=39.1975	log10_strand_likelihood_position_model=29.7489	new_cov=0/53	polymorphism_quality=30.9	quality=30.9	quality_position_model=Inf	ref_cov=190/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=190/101
RA	133	.	NC_007779	522430	1	.	T	bias_e_value=4301530	bias_p_value=0.92579	fisher_strand_p_value=0.727944	frequency=2.339172e-02	genotype_quality=1629.6	ks_quality_p_value=0.879701	log10_base_likelihood=-36.3607	log10_qual_likelihood_position_model=4.01245	log10_strand_likelihood_position_model=0.607732	new_cov=5/3	polymorphism_quality=31.2	quality=31.2	quality_position_model=5.17437e-34	ref_cov=177/157	reject=INDEL_HOMOPOLYMER	tot_cov=182/160
RA	134	.	NC_007779	522431	0	T	.	bias_e_value=1426490	bias_p_value=0.307014	fisher_strand_p_value=0.189649	frequency=1.461220e-02	genotype_quality=1388.6	ks_quality_p_value=0.475215	log10_base_likelihood=-14.1768	log10_qual_likelihood_position_model=1.69723	log10_strand_likelihood_position_model=0.898261	new_cov=1/4	polymorphism_quality=8.8	quality=8.8	quality_position_model=1.22213e-13	ref_cov=181/156	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=182/160
RA	135	.	NC_007779	524490	0	T	G	bias_e_value=1.04115e-06	bias_p_value=2.2408e-13	fisher_strand_p_value=6.66061e-15	frequency=8.689594e-02	genotype_quality=995.5	ks_quality_p_value=1	log10_base_likelihood=-20.5293	log10_qual_likelihood_position_model=35.7191	log10_strand_likelihood_position_model=14.1765	new_cov=34/0	polymorphism_quality=15.2	quality=15.2	quality_position_model=Inf	ref_cov=96/182	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/182
RA	136	.	NC_007779	547694	0	A	G	frequency=1	genotype_quality=1533.7	new_cov=173/193	quality=1533.7	ref_cov=0/0	tot_cov=173/193
RA	137	.	NC_007779	547831	1	.	G	frequency=1	genotype_quality=1424.2	new_cov=163/171	quality=1424.2	ref_cov=0/0	tot_cov=163/171
RA	138	.	NC_007779	556653	0	A	C	bias_e_value=9.30929e-17	bias_p_value=2.00358e-23	fisher_strand_p_value=3.49585e-25	frequency=7.865906e-02	genotype_quality=1036.4	ks_quality_p_value=1	log10_base_likelihood=-14.6884	log10_qual_likelihood_position_model=39.0362	log10_strand_likelihood_position_model=24.4588	new_cov=1/43	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=222/53	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=223/96
RA	139	.	NC_007779	556858	0	A	T	frequency=1	genotype_quality=1488.3	new_cov=215/156	quality=1488.3	ref_cov=0/0	tot_cov=215/156
RA	140	.	NC_007779	569996	0	G	C	frequency=1	genotype_quality=1512.3	new_cov=167/181	quality=1512.3	ref_cov=0/0	tot_cov=167/181
RA	141	.	NC_007779	584369	0	G	T	bias_e_value=1146820	bias_p_value=0.246823	fisher_strand_p_value=0.583758	frequency=6.985664e-03	genotype_quality=1824.1	ks_quality_p_value=0.113962	log10_base_likelihood=-5.59693	log10_qual_likelihood_position_model=2.05962	log10_strand_likelihood_position_model=0.489539	new_cov=2/1	polymorphism_quality=0.0	quality=0.0	quality_position_model=7.79153e-05	ref_cov=185/239	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=187/240
RA	142	.	NC_007779	589157	0	T	G	bias_e_value=7.58817e-07	bias_p_value=1.63315e-13	fisher_strand_p_value=4.80784e-15	frequency=7.082272e-02	genotype_quality=820.8	ks_quality_p_value=1	log10_base_likelihood=-11.7266	log10_qual_likelihood_position_model=39.5785	log10_strand_likelihood_position_model=14.318	new_cov=36/0	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=83/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=119/152
RA	143	.	NC_007779	593216	0	T	G	bias_e_value=5.97761e-09	bias_p_value=1.28652e-15	fisher_strand_p_value=3.30309e-17	frequency=4.958439e-02	genotype_quality=860.0	ks_quality_p_value=1	log10_base_likelihood=-6.96469	log10_qual_likelihood_position_model=27.9739	log10_strand_likelihood_position_model=16.484	new_cov=25/1	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=34/192	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=59/193
RA	144	.	NC_007779	596918	0	G	T	bias_e_value=13.8419	bias_p_value=2.97909e-06	fisher_strand_p_value=1.82581e-07	frequency=3.316593e-02	genotype_quality=1356.1	ks_quality_p_value=0.987146	log10_base_likelihood=-9.30209	log10_qual_likelihood_position_model=23.7805	log10_strand_likelihood_position_model=6.73854	new_cov=0/19	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=212/158	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=212/177
RA	145	.	NC_007779	598799	0	T	G	bias_e_value=6.16756e-33	bias_p_value=1.3274e-39	fisher_strand_p_value=1.39621e-41	frequency=2.273564e-01	genotype_quality=767.5	ks_quality_p_value=1	log10_base_likelihood=-52.207	log10_qual_likelihood_position_model=58.0727	log10_strand_likelihood_position_model=40.8551	new_cov=79/0	polymorphism_quality=47.1	quality=47.1	quality_position_model=Inf	ref_cov=38/168	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/168
RA	146	.	NC_007779	606687	1	.	T	bias_e_value=868611	bias_p_value=0.186945	fisher_strand_p_value=1	frequency=1.092911e-02	genotype_quality=1790.3	ks_quality_p_value=0.0457749	log10_base_likelihood=-16.9666	log10_qual_likelihood_position_model=2.42381	log10_strand_likelihood_position_model=0.453192	new_cov=3/1	polymorphism_quality=11.6	quality=11.6	quality_position_model=3.44823e-16	ref_cov=219/143	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=222/144
RA	147	.	NC_007779	606911	1	.	G	bias_e_value=138147	bias_p_value=0.0297325	fisher_strand_p_value=0.00729147	frequency=1.892757e-02	genotype_quality=1551.4	ks_quality_p_value=0.640488	log10_base_likelihood=-26.5236	log10_qual_likelihood_position_model=2.17797	log10_strand_likelihood_position_model=2.13718	new_cov=6/0	polymorphism_quality=21.3	quality=21.3	quality_position_model=2.10014e-24	ref_cov=135/176	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/176
RA	148	.	NC_007779	612991	0	C	G	bias_e_value=3.70033	bias_p_value=7.96397e-07	fisher_strand_p_value=4.4418e-08	frequency=3.620529e-02	genotype_quality=913.4	ks_quality_p_value=1	log10_base_likelihood=-8.71665	log10_qual_likelihood_position_model=14.4645	log10_strand_likelihood_position_model=7.35244	new_cov=0/10	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=188/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=188/47
RA	149	.	NC_007779	617601	0	C	A	bias_e_value=13.9619	bias_p_value=3.00493e-06	fisher_strand_p_value=1.81899e-07	frequency=3.487396e-02	genotype_quality=1038.5	ks_quality_p_value=1	log10_base_likelihood=-6.27466	log10_qual_likelihood_position_model=15.6305	log10_strand_likelihood_position_model=6.74017	new_cov=15/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=93/183	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/183
RA	150	.	NC_007779	617621	0	G	T	bias_e_value=300.868	bias_p_value=6.47539e-05	fisher_strand_p_value=4.89551e-06	frequency=3.648949e-02	genotype_quality=968.0	ks_quality_p_value=1	log10_base_likelihood=-6.83689	log10_qual_likelihood_position_model=12.5078	log10_strand_likelihood_position_model=5.3102	new_cov=11/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=75/165	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=86/165
RA	151	.	NC_007779	623841	1	.	G	bias_e_value=2342680	bias_p_value=0.504199	fisher_strand_p_value=1	frequency=1.069546e-02	genotype_quality=926.9	ks_quality_p_value=0.189194	log10_base_likelihood=-8.77243	log10_qual_likelihood_position_model=2.17214	log10_strand_likelihood_position_model=0.0188321	new_cov=2/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=1.60021e-08	ref_cov=181/4	reject=POLYMORPHISM_STRAND	tot_cov=183/4
RA	152	.	NC_007779	623856	1	.	A	bias_e_value=3962140	bias_p_value=0.852745	fisher_strand_p_value=1	frequency=8.657455e-03	genotype_quality=1125.6	ks_quality_p_value=0.50902	log10_base_likelihood=-8.05601	log10_qual_likelihood_position_model=1.82225	log10_strand_likelihood_position_model=0.256815	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=6.73543e-08	ref_cov=170/59	reject=POLYMORPHISM_STRAND	tot_cov=172/59
RA	153	.	NC_007779	634377	1	.	T	bias_e_value=1591200	bias_p_value=0.342463	fisher_strand_p_value=0.210621	frequency=6.430626e-03	genotype_quality=1541.6	ks_quality_p_value=0.500243	log10_base_likelihood=-7.98735	log10_qual_likelihood_position_model=1.90931	log10_strand_likelihood_position_model=0.676498	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.65655e-07	ref_cov=141/168	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/168
RA	154	.	NC_007779	645970	0	T	G	bias_e_value=2.38316e-20	bias_p_value=5.12913e-27	fisher_strand_p_value=7.80449e-29	frequency=1.437178e-01	genotype_quality=793.8	ks_quality_p_value=1	log10_base_likelihood=-41.8843	log10_qual_likelihood_position_model=39.3916	log10_strand_likelihood_position_model=28.1077	new_cov=43/0	polymorphism_quality=36.8	quality=36.8	quality_position_model=Inf	ref_cov=29/172	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/172
RA	155	.	NC_007779	646433	0	A	C	bias_e_value=0.0465494	bias_p_value=1.00185e-08	fisher_strand_p_value=4.44599e-10	frequency=2.942562e-02	genotype_quality=956.8	ks_quality_p_value=1	log10_base_likelihood=-8.75592	log10_qual_likelihood_position_model=16.6933	log10_strand_likelihood_position_model=9.35203	new_cov=0/11	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=218/30	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=218/41
RA	156	.	NC_007779	646440	0	C	A	bias_e_value=0.00229191	bias_p_value=4.93273e-10	fisher_strand_p_value=1.93925e-11	frequency=4.371643e-02	genotype_quality=988.4	ks_quality_p_value=0.990686	log10_base_likelihood=-19.5113	log10_qual_likelihood_position_model=14.4148	log10_strand_likelihood_position_model=10.7124	new_cov=0/11	polymorphism_quality=14.2	quality=14.2	quality_position_model=Inf	ref_cov=217/20	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=217/31
RA	157	.	NC_007779	660356	0	T	G	bias_e_value=1.11456e-21	bias_p_value=2.3988e-28	fisher_strand_p_value=3.48516e-30	frequency=1.040993e-01	genotype_quality=847.3	ks_quality_p_value=1	log10_base_likelihood=-12.0692	log10_qual_likelihood_position_model=42.24	log10_strand_likelihood_position_model=29.4578	new_cov=55/0	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=49/182	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/182
RA	158	.	NC_007779	667452	0	G	T	bias_e_value=386686	bias_p_value=0.0832239	fisher_strand_p_value=0.0162897	frequency=1.857090e-02	genotype_quality=1362.9	ks_quality_p_value=0.998	log10_base_likelihood=-6.48932	log10_qual_likelihood_position_model=13.9728	log10_strand_likelihood_position_model=1.92251	new_cov=7/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=174/157	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=181/157
RA	159	.	NC_007779	686495	0	A	C	bias_e_value=2.18204e-26	bias_p_value=4.69626e-33	fisher_strand_p_value=5.88369e-35	frequency=1.140394e-01	genotype_quality=1097.3	ks_quality_p_value=1	log10_base_likelihood=-38.1618	log10_qual_likelihood_position_model=56.054	log10_strand_likelihood_position_model=34.2304	new_cov=0/52	polymorphism_quality=33.0	quality=33.0	quality_position_model=Inf	ref_cov=236/42	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=236/94
RA	160	.	NC_007779	687133	0	A	C	bias_e_value=7.35896e-05	bias_p_value=1.58382e-11	fisher_strand_p_value=5.41583e-13	frequency=3.991604e-02	genotype_quality=1236.5	ks_quality_p_value=1	log10_base_likelihood=-10.3363	log10_qual_likelihood_position_model=31.3975	log10_strand_likelihood_position_model=12.2663	new_cov=0/26	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=234/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=234/132
RA	161	.	NC_007779	697558	1	.	T	bias_e_value=146898	bias_p_value=0.0316159	fisher_strand_p_value=0.107804	frequency=7.999420e-03	genotype_quality=1836.3	ks_quality_p_value=0.0465982	log10_base_likelihood=-12.3636	log10_qual_likelihood_position_model=1.97776	log10_strand_likelihood_position_model=0.967365	new_cov=3/0	polymorphism_quality=7.0	quality=7.0	quality_position_model=1.96401e-11	ref_cov=176/196	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=179/196
RA	162	.	NC_007779	702754	0	T	.	bias_e_value=3828250	bias_p_value=0.823929	fisher_strand_p_value=0.616446	frequency=7.664680e-03	genotype_quality=1560.5	ks_quality_p_value=0.760437	log10_base_likelihood=-7.59655	log10_qual_likelihood_position_model=1.48961	log10_strand_likelihood_position_model=0.434085	new_cov=2/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.39018e-07	ref_cov=189/198	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=192/199
RA	163	.	NC_007779	706282	0	T	G	bias_e_value=0.00521675	bias_p_value=1.12277e-09	fisher_strand_p_value=4.5238e-11	frequency=2.539730e-02	genotype_quality=922.2	ks_quality_p_value=1	log10_base_likelihood=-8.91009	log10_qual_likelihood_position_model=13.5874	log10_strand_likelihood_position_model=10.3445	new_cov=9/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=12/220	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=21/220
RA	164	.	NC_007779	706385	1	.	T	bias_e_value=2753470	bias_p_value=0.592612	fisher_strand_p_value=1	frequency=1.298714e-02	genotype_quality=1852.2	ks_quality_p_value=0.247154	log10_base_likelihood=-21.5433	log10_qual_likelihood_position_model=3.06811	log10_strand_likelihood_position_model=0.491237	new_cov=3/2	polymorphism_quality=16.3	quality=16.3	quality_position_model=3.90489e-20	ref_cov=195/185	reject=INDEL_HOMOPOLYMER	tot_cov=198/187
RA	165	.	NC_007779	749354	0	C	A	frequency=1	genotype_quality=1323.2	new_cov=154/172	quality=1323.2	ref_cov=0/0	tot_cov=155/172
RA	166	.	NC_007779	752693	0	A	C	bias_e_value=4.20137e-11	bias_p_value=9.04234e-18	fisher_strand_p_value=2.0537e-19	frequency=5.130148e-02	genotype_quality=1187.5	ks_quality_p_value=1	log10_base_likelihood=-6.96606	log10_qual_likelihood_position_model=41.2917	log10_strand_likelihood_position_model=18.6875	new_cov=0/37	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=236/89	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=236/126
RA	167	.	NC_007779	753547	0	T	A	bias_e_value=2.81194	bias_p_value=6.05196e-07	fisher_strand_p_value=3.32156e-08	frequency=4.158211e-02	genotype_quality=1074.7	ks_quality_p_value=1	log10_base_likelihood=-8.54113	log10_qual_likelihood_position_model=24.1071	log10_strand_likelihood_position_model=7.47866	new_cov=0/15	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=202/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=202/102
RA	168	.	NC_007779	758300	0	G	A	bias_e_value=1575010	bias_p_value=0.338979	fisher_strand_p_value=0.858395	frequency=9.922695e-02	genotype_quality=1188.0	ks_quality_p_value=0.120945	log10_base_likelihood=-91.2067	log10_qual_likelihood_position_model=10.3147	log10_strand_likelihood_position_model=0.874656	new_cov=20/15	polymorphism_quality=86.3	quality=86.3	quality_position_model=1.72982e-82	ref_cov=171/146	tot_cov=191/161
RA	169	.	NC_007779	758440	0	C	A	frequency=1	genotype_quality=1522.8	new_cov=172/204	quality=1522.8	ref_cov=0/1	tot_cov=172/206
RA	170	.	NC_007779	758450	0	T	A	bias_e_value=188453	bias_p_value=0.0405595	fisher_strand_p_value=0.0789749	frequency=1	genotype_quality=180.7	ks_quality_p_value=0.0856514	log10_base_likelihood=-688.218	log10_qual_likelihood_position_model=14.9257	log10_strand_likelihood_position_model=1.78528	new_cov=87/122	polymorphism_changed_to_consensus=1	polymorphism_quality=inf	quality=inf	quality_position_model=0	ref_cov=87/84	tot_cov=174/206
RA	171	.	NC_007779	759019	0	C	G	bias_e_value=4.84394e-13	bias_p_value=1.04253e-19	fisher_strand_p_value=2.15046e-21	frequency=6.831980e-02	genotype_quality=1074.3	ks_quality_p_value=0.997707	log10_base_likelihood=-28.6764	log10_qual_likelihood_position_model=26.1775	log10_strand_likelihood_position_model=20.6681	new_cov=1/18	polymorphism_quality=23.5	quality=23.5	quality_position_model=Inf	ref_cov=241/7	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=242/25
RA	172	.	NC_007779	796581	0	G	T	bias_e_value=1.08753e-06	bias_p_value=2.34061e-13	fisher_strand_p_value=6.9666e-15	frequency=6.672287e-02	genotype_quality=1093.5	ks_quality_p_value=1	log10_base_likelihood=-11.492	log10_qual_likelihood_position_model=26.2741	log10_strand_likelihood_position_model=14.157	new_cov=0/40	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=195/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=195/175
RA	173	.	NC_007779	817515	0	G	T	bias_e_value=1.00612e-13	bias_p_value=2.1654e-20	fisher_strand_p_value=4.31738e-22	frequency=1.062889e-01	genotype_quality=1226.7	ks_quality_p_value=0.999212	log10_base_likelihood=-37.8769	log10_qual_likelihood_position_model=37.1757	log10_strand_likelihood_position_model=21.3648	new_cov=0/55	polymorphism_quality=32.7	quality=32.7	quality_position_model=Inf	ref_cov=221/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=221/182
RA	174	.	NC_007779	827380	1	.	C	bias_e_value=2541590	bias_p_value=0.54701	fisher_strand_p_value=0.502544	frequency=5.988121e-03	genotype_quality=1583.7	ks_quality_p_value=0.429807	log10_base_likelihood=-8.26088	log10_qual_likelihood_position_model=1.85307	log10_strand_likelihood_position_model=0.528441	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=8.49743e-08	ref_cov=180/152	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=182/152
RA	175	.	NC_007779	835061	0	T	.	bias_e_value=2761090	bias_p_value=0.594251	fisher_strand_p_value=0.250222	frequency=7.537842e-03	genotype_quality=1574.5	ks_quality_p_value=0.992434	log10_base_likelihood=-6.74115	log10_qual_likelihood_position_model=4.16324	log10_strand_likelihood_position_model=0.838585	new_cov=0/3	polymorphism_quality=1.2	quality=1.2	quality_position_model=0.00202515	ref_cov=187/205	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=188/209
RA	176	.	NC_007779	845764	1	.	T	bias_e_value=4645760	bias_p_value=0.999877	fisher_strand_p_value=1	frequency=5.448341e-03	genotype_quality=1789.7	ks_quality_p_value=0.984328	log10_base_likelihood=-6.93557	log10_qual_likelihood_position_model=2.37996	log10_strand_likelihood_position_model=0.301269	new_cov=1/1	polymorphism_quality=1.4	quality=1.4	quality_position_model=4.16366e-06	ref_cov=193/172	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=194/173
RA	177	.	NC_007779	847616	0	T	C	bias_e_value=728.703	bias_p_value=0.000156834	fisher_strand_p_value=1.27848e-05	frequency=3.494072e-02	genotype_quality=926.0	ks_quality_p_value=1	log10_base_likelihood=-9.46245	log10_qual_likelihood_position_model=15.786	log10_strand_likelihood_position_model=4.90798	new_cov=12/1	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=84/187	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/188
RA	178	.	NC_007779	847618	0	A	C	bias_e_value=1823710	bias_p_value=0.392505	fisher_strand_p_value=0.128668	frequency=1.700878e-02	genotype_quality=876.3	ks_quality_p_value=1	log10_base_likelihood=-6.1527	log10_qual_likelihood_position_model=10.4158	log10_strand_likelihood_position_model=1.12707	new_cov=5/3	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=91/180	reject=EVALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/184
RA	179	.	NC_007779	856615	0	A	T	bias_e_value=1501410	bias_p_value=0.323138	fisher_strand_p_value=0.112939	frequency=7.609367e-03	genotype_quality=1584.3	ks_quality_p_value=0.858231	log10_base_likelihood=-6.21443	log10_qual_likelihood_position_model=1.83857	log10_strand_likelihood_position_model=0.947154	new_cov=0/3	polymorphism_quality=0.7	quality=0.7	quality_position_model=3.07421e-05	ref_cov=202/187	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=203/190
RA	180	.	NC_007779	868836	1	.	C	bias_e_value=1306410	bias_p_value=0.28117	fisher_strand_p_value=0.0804007	frequency=9.087563e-03	genotype_quality=1609.5	ks_quality_p_value=0.990647	log10_base_likelihood=-10.4599	log10_qual_likelihood_position_model=3.61027	log10_strand_likelihood_position_model=1.09474	new_cov=0/3	polymorphism_quality=5.0	quality=5.0	quality_position_model=1.1432e-07	ref_cov=187/140	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=187/143
RA	181	.	NC_007779	881118	0	T	.	bias_e_value=1058150	bias_p_value=0.227739	fisher_strand_p_value=0.0622793	frequency=1.342869e-02	genotype_quality=1473.5	ks_quality_p_value=0.957329	log10_base_likelihood=-13.2895	log10_qual_likelihood_position_model=3.09155	log10_strand_likelihood_position_model=1.41326	new_cov=5/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=8.73798e-11	ref_cov=190/177	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=195/177
RA	182	.	NC_007779	883947	0	C	A	bias_e_value=744.134	bias_p_value=0.000160155	fisher_strand_p_value=1.30899e-05	frequency=2.120209e-02	genotype_quality=1325.6	ks_quality_p_value=0.99923	log10_base_likelihood=-5.83481	log10_qual_likelihood_position_model=14.888	log10_strand_likelihood_position_model=4.88306	new_cov=13/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=148/213	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=161/213
RA	183	.	NC_007779	884196	0	T	G	bias_e_value=1024560	bias_p_value=0.220509	fisher_strand_p_value=0.0573161	frequency=1.121330e-02	genotype_quality=1381.1	ks_quality_p_value=0.995829	log10_base_likelihood=-7.10284	log10_qual_likelihood_position_model=6.34217	log10_strand_likelihood_position_model=1.24172	new_cov=0/4	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=179/169	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=179/173
RA	184	.	NC_007779	886224	1	.	T	bias_e_value=3894350	bias_p_value=0.838156	fisher_strand_p_value=0.501266	frequency=5.618095e-03	genotype_quality=1764.9	ks_quality_p_value=0.97366	log10_base_likelihood=-7.54607	log10_qual_likelihood_position_model=2.99447	log10_strand_likelihood_position_model=0.541891	new_cov=0/2	polymorphism_quality=2.0	quality=2.0	quality_position_model=7.51411e-06	ref_cov=165/189	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=165/191
RA	185	.	NC_007779	887234	0	C	A	frequency=1	genotype_quality=1099.0	new_cov=184/103	quality=1099.0	ref_cov=0/0	tot_cov=184/103
RA	186	.	NC_007779	889984	0	A	.	bias_e_value=4002070	bias_p_value=0.86134	fisher_strand_p_value=0.593781	frequency=7.576942e-03	genotype_quality=1592.9	ks_quality_p_value=0.879097	log10_base_likelihood=-6.9722	log10_qual_likelihood_position_model=2.49763	log10_strand_likelihood_position_model=0.468801	new_cov=2/1	polymorphism_quality=1.5	quality=1.5	quality_position_model=7.58598e-06	ref_cov=178/214	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=180/215
RA	187	.	NC_007779	894943	0	T	G	bias_e_value=1.18717e-08	bias_p_value=2.55508e-15	fisher_strand_p_value=6.68087e-17	frequency=5.900526e-02	genotype_quality=916.4	ks_quality_p_value=1	log10_base_likelihood=-7.04996	log10_qual_likelihood_position_model=43.8298	log10_strand_likelihood_position_model=16.1752	new_cov=42/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=95/165	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/165
RA	188	.	NC_007779	904838	0	C	A	bias_e_value=4.73978e-10	bias_p_value=1.02011e-16	fisher_strand_p_value=3.74958e-18	frequency=1.052470e-01	genotype_quality=1125.9	ks_quality_p_value=0.654806	log10_base_likelihood=-33.7653	log10_qual_likelihood_position_model=44.3345	log10_strand_likelihood_position_model=17.426	new_cov=47/0	polymorphism_quality=28.6	quality=28.6	quality_position_model=Inf	ref_cov=123/197	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=171/197
RA	189	.	NC_007779	911333	0	T	G	bias_e_value=4.07299e-06	bias_p_value=8.76604e-13	fisher_strand_p_value=2.71935e-14	frequency=4.791546e-02	genotype_quality=863.4	ks_quality_p_value=1	log10_base_likelihood=-7.13467	log10_qual_likelihood_position_model=22.2751	log10_strand_likelihood_position_model=13.5655	new_cov=21/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=44/187	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=65/187
RA	190	.	NC_007779	915697	0	G	T	bias_e_value=31.8296	bias_p_value=6.85047e-06	fisher_strand_p_value=4.40947e-07	frequency=4.155445e-02	genotype_quality=1037.2	ks_quality_p_value=0.993269	log10_base_likelihood=-8.45784	log10_qual_likelihood_position_model=15.9341	log10_strand_likelihood_position_model=6.35561	new_cov=0/20	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=160/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=160/158
RA	191	.	NC_007779	932754	1	.	A	bias_e_value=2666480	bias_p_value=0.573889	fisher_strand_p_value=1	frequency=8.695602e-03	genotype_quality=1706.2	ks_quality_p_value=0.234013	log10_base_likelihood=-12.4327	log10_qual_likelihood_position_model=1.60124	log10_strand_likelihood_position_model=0.365038	new_cov=2/1	polymorphism_quality=7.0	quality=7.0	quality_position_model=1.67183e-12	ref_cov=203/139	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=205/140
RA	192	.	NC_007779	935311	0	A	.	bias_e_value=3629110	bias_p_value=0.781069	fisher_strand_p_value=0.580513	frequency=8.465767e-03	genotype_quality=1410.7	ks_quality_p_value=0.717016	log10_base_likelihood=-7.60855	log10_qual_likelihood_position_model=1.55107	log10_strand_likelihood_position_model=0.496468	new_cov=1/2	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.81532e-07	ref_cov=200/151	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=201/153
RA	193	.	NC_007779	947970	0	C	A	bias_e_value=0.126797	bias_p_value=2.72896e-08	fisher_strand_p_value=1.27023e-09	frequency=4.120827e-02	genotype_quality=1259.8	ks_quality_p_value=1	log10_base_likelihood=-9.28796	log10_qual_likelihood_position_model=20.8883	log10_strand_likelihood_position_model=8.89612	new_cov=27/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=158/195	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=185/195
RA	194	.	NC_007779	954820	0	A	C	bias_e_value=1.44198e-05	bias_p_value=3.10348e-12	fisher_strand_p_value=1.00338e-13	frequency=4.386806e-02	genotype_quality=892.1	ks_quality_p_value=1	log10_base_likelihood=-5.82373	log10_qual_likelihood_position_model=27.9921	log10_strand_likelihood_position_model=12.9985	new_cov=0/36	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=158/104	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=158/141
RA	195	.	NC_007779	969494	0	C	A	bias_e_value=6.21075e-07	bias_p_value=1.3367e-13	fisher_strand_p_value=3.92281e-15	frequency=7.838488e-02	genotype_quality=1033.4	ks_quality_p_value=0.99708	log10_base_likelihood=-18.5913	log10_qual_likelihood_position_model=24.91	log10_strand_likelihood_position_model=14.4064	new_cov=38/0	polymorphism_quality=13.3	quality=13.3	quality_position_model=Inf	ref_cov=116/188	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/188
RA	196	.	NC_007779	975138	1	.	G	bias_e_value=1818430	bias_p_value=0.391369	fisher_strand_p_value=0.162245	frequency=6.211281e-03	genotype_quality=1596.7	ks_quality_p_value=0.789638	log10_base_likelihood=-7.75315	log10_qual_likelihood_position_model=0.81708	log10_strand_likelihood_position_model=0.789828	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=4.50169e-08	ref_cov=128/192	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/192
RA	197	.	NC_007779	984293	1	.	C	bias_e_value=2494040	bias_p_value=0.536775	fisher_strand_p_value=0.211847	frequency=5.988121e-03	genotype_quality=1590.2	ks_quality_p_value=0.988381	log10_base_likelihood=-7.83013	log10_qual_likelihood_position_model=3.74516	log10_strand_likelihood_position_model=0.673979	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=3.2097e-05	ref_cov=152/180	reject=POLYMORPHISM_STRAND	tot_cov=154/180
RA	198	.	NC_007779	986260	1	.	A	bias_e_value=3933150	bias_p_value=0.846507	fisher_strand_p_value=0.501565	frequency=6.701469e-03	genotype_quality=1910.0	ks_quality_p_value=0.996689	log10_base_likelihood=-8.02581	log10_qual_likelihood_position_model=2.83081	log10_strand_likelihood_position_model=0.539641	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.58656e-06	ref_cov=204/177	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=206/178
RA	199	.	NC_007779	987422	1	.	T	bias_e_value=1881080	bias_p_value=0.404852	fisher_strand_p_value=0.246394	frequency=5.780220e-03	genotype_quality=1665.3	ks_quality_p_value=0.546926	log10_base_likelihood=-8.02724	log10_qual_likelihood_position_model=1.87386	log10_strand_likelihood_position_model=0.608371	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.88602e-07	ref_cov=170/174	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=172/174
RA	200	.	NC_007779	987574	0	G	T	frequency=1	genotype_quality=1330.6	new_cov=137/189	quality=1330.6	ref_cov=0/0	tot_cov=137/189
RA	201	.	NC_007779	987916	0	T	G	bias_e_value=1.57921e-19	bias_p_value=3.39883e-26	fisher_strand_p_value=5.32736e-28	frequency=7.223463e-02	genotype_quality=938.6	ks_quality_p_value=1	log10_base_likelihood=-13.163	log10_qual_likelihood_position_model=37.1114	log10_strand_likelihood_position_model=27.2735	new_cov=30/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=Inf	ref_cov=16/214	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=46/214
RA	202	.	NC_007779	991407	0	G	T	bias_e_value=0.0131242	bias_p_value=2.82463e-09	fisher_strand_p_value=1.90156e-10	frequency=5.503988e-02	genotype_quality=1275.2	ks_quality_p_value=0.622642	log10_base_likelihood=-14.9477	log10_qual_likelihood_position_model=33.1691	log10_strand_likelihood_position_model=9.73864	new_cov=0/35	polymorphism_quality=9.6	quality=9.6	quality_position_model=Inf	ref_cov=190/194	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=190/229
RA	203	.	NC_007779	999606	0	A	T	bias_e_value=803657	bias_p_value=0.172966	fisher_strand_p_value=0.0413148	frequency=2.168560e-02	genotype_quality=863.5	ks_quality_p_value=1	log10_base_likelihood=-7.32188	log10_qual_likelihood_position_model=6.67266	log10_strand_likelihood_position_model=1.43991	new_cov=6/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=128/97	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=134/97
RA	204	.	NC_007779	999607	0	A	C	bias_e_value=288624	bias_p_value=0.0621186	fisher_strand_p_value=0.011336	frequency=2.066326e-02	genotype_quality=842.9	ks_quality_p_value=1	log10_base_likelihood=-7.49519	log10_qual_likelihood_position_model=9.55814	log10_strand_likelihood_position_model=2.17926	new_cov=9/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=125/97	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=134/97
RA	205	.	NC_007779	999613	0	A	T	bias_e_value=56927.8	bias_p_value=0.0122522	fisher_strand_p_value=0.00165556	frequency=4.619884e-02	genotype_quality=862.0	ks_quality_p_value=0.999538	log10_base_likelihood=-14.5033	log10_qual_likelihood_position_model=13.5131	log10_strand_likelihood_position_model=2.88073	new_cov=12/0	polymorphism_quality=9.1	quality=9.1	quality_position_model=Inf	ref_cov=125/97	reject=POLYMORPHISM_STRAND	tot_cov=137/97
RA	206	.	NC_007779	1002640	0	G	.	bias_e_value=3624400	bias_p_value=0.780056	fisher_strand_p_value=0.415731	frequency=1.693916e-02	genotype_quality=1508.7	ks_quality_p_value=0.998443	log10_base_likelihood=-17.1787	log10_qual_likelihood_position_model=4.19206	log10_strand_likelihood_position_model=0.725997	new_cov=2/4	polymorphism_quality=11.9	quality=11.9	quality_position_model=2.48787e-14	ref_cov=192/156	reject=INDEL_HOMOPOLYMER	tot_cov=194/160
RA	207	.	NC_007779	1005102	1	.	T	bias_e_value=3454100	bias_p_value=0.743405	fisher_strand_p_value=1	frequency=6.944656e-03	genotype_quality=1410.0	ks_quality_p_value=0.375606	log10_base_likelihood=-8.03682	log10_qual_likelihood_position_model=2.30027	log10_strand_likelihood_position_model=0.303644	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=2.46485e-07	ref_cov=129/157	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/158
RA	208	.	NC_007779	1005103	0	T	.	bias_e_value=1288520	bias_p_value=0.277319	fisher_strand_p_value=0.38069	frequency=1.705742e-02	genotype_quality=1135.9	ks_quality_p_value=0.205239	log10_base_likelihood=-14.5633	log10_qual_likelihood_position_model=2.73056	log10_strand_likelihood_position_model=0.700064	new_cov=1/4	polymorphism_quality=9.2	quality=9.2	quality_position_model=3.49974e-13	ref_cov=132/155	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/159
RA	209	.	NC_007779	1024818	1	.	T	bias_e_value=4344560	bias_p_value=0.935052	fisher_strand_p_value=1	frequency=5.208015e-03	genotype_quality=1899.9	ks_quality_p_value=0.661961	log10_base_likelihood=-7.85228	log10_qual_likelihood_position_model=1.44754	log10_strand_likelihood_position_model=0.302556	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=4.99916e-08	ref_cov=176/206	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=177/207
RA	210	.	NC_007779	1025430	0	G	T	bias_e_value=324.904	bias_p_value=6.9927e-05	fisher_strand_p_value=5.32006e-06	frequency=2.609634e-02	genotype_quality=1408.3	ks_quality_p_value=1	log10_base_likelihood=-6.31806	log10_qual_likelihood_position_model=18.8223	log10_strand_likelihood_position_model=5.29064	new_cov=1/17	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=222/156	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=224/174
RA	211	.	NC_007779	1058914	0	A	C	bias_e_value=2.81305e-09	bias_p_value=6.05436e-16	fisher_strand_p_value=1.52416e-17	frequency=6.583834e-02	genotype_quality=917.3	ks_quality_p_value=1	log10_base_likelihood=-10.9137	log10_qual_likelihood_position_model=34.8609	log10_strand_likelihood_position_model=16.817	new_cov=0/30	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=184/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=184/85
RA	212	.	NC_007779	1070901	0	A	.	bias_e_value=162540	bias_p_value=0.0349824	fisher_strand_p_value=0.251468	frequency=8.211136e-03	genotype_quality=1448.6	ks_quality_p_value=0.0225353	log10_base_likelihood=-7.80126	log10_qual_likelihood_position_model=2.4017	log10_strand_likelihood_position_model=0.819907	new_cov=3/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.90304e-06	ref_cov=192/170	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=195/170
RA	213	.	NC_007779	1072428	0	T	G	bias_e_value=0.0157307	bias_p_value=3.38562e-09	fisher_strand_p_value=1.43047e-10	frequency=3.911781e-02	genotype_quality=934.5	ks_quality_p_value=1	log10_base_likelihood=-6.13419	log10_qual_likelihood_position_model=22.5687	log10_strand_likelihood_position_model=9.84452	new_cov=27/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=108/160	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/160
RA	214	.	NC_007779	1079013	0	C	A	bias_e_value=0.00891638	bias_p_value=1.91901e-09	fisher_strand_p_value=7.9159e-11	frequency=6.631327e-02	genotype_quality=941.5	ks_quality_p_value=0.999268	log10_base_likelihood=-13.9305	log10_qual_likelihood_position_model=20.3087	log10_strand_likelihood_position_model=10.4025	new_cov=32/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=124/156	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=158/156
RA	215	.	NC_007779	1093686	0	T	C	frequency=1	genotype_quality=1854.0	new_cov=190/237	quality=1854.0	ref_cov=0/1	tot_cov=190/238
RA	216	.	NC_007779	1093704	0	G	T	bias_e_value=6.74167	bias_p_value=1.45097e-06	fisher_strand_p_value=8.39018e-08	frequency=3.596306e-02	genotype_quality=1579.7	ks_quality_p_value=1	log10_base_likelihood=-7.81296	log10_qual_likelihood_position_model=29.8174	log10_strand_likelihood_position_model=7.16462	new_cov=0/28	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=184/215	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=184/245
RA	217	.	NC_007779	1097580	0	C	T	bias_e_value=73296.4	bias_p_value=0.0157751	fisher_strand_p_value=0.409966	frequency=1.865644e-01	genotype_quality=1205.1	ks_quality_p_value=0.00541124	log10_base_likelihood=-248.133	log10_qual_likelihood_position_model=21.1965	log10_strand_likelihood_position_model=1.18037	new_cov=43/46	polymorphism_quality=243.4	quality=243.4	quality_position_model=1.88247e-228	ref_cov=168/219	tot_cov=211/265
RA	218	.	NC_007779	1097764	1	.	A	bias_e_value=2548570	bias_p_value=0.548512	fisher_strand_p_value=0.528576	frequency=2.746582e-03	genotype_quality=2977.4	ks_quality_p_value=0.410496	log10_base_likelihood=-7.24705	log10_qual_likelihood_position_model=1.87241	log10_strand_likelihood_position_model=0.414351	new_cov=0/2	polymorphism_quality=1.7	quality=1.7	quality_position_model=7.63445e-07	ref_cov=276/450	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=276/452
RA	219	.	NC_007779	1107993	0	T	.	bias_e_value=4198340	bias_p_value=0.903582	fisher_strand_p_value=0.595188	frequency=7.611275e-03	genotype_quality=1566.8	ks_quality_p_value=0.998592	log10_base_likelihood=-6.55236	log10_qual_likelihood_position_model=2.89965	log10_strand_likelihood_position_model=0.466229	new_cov=2/1	polymorphism_quality=1.0	quality=1.0	quality_position_model=5.54963e-05	ref_cov=178/212	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=180/213
RA	220	.	NC_007779	1116582	0	G	C	bias_e_value=8.09897e-28	bias_p_value=1.74309e-34	fisher_strand_p_value=2.16179e-36	frequency=1.799793e-01	genotype_quality=693.4	ks_quality_p_value=0.969682	log10_base_likelihood=-71.7268	log10_qual_likelihood_position_model=33.5944	log10_strand_likelihood_position_model=35.6652	new_cov=0/43	polymorphism_quality=66.7	quality=66.7	quality_position_model=0.000325713	ref_cov=179/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=179/55
RA	221	.	NC_007779	1121089	0	T	.	bias_e_value=3053350	bias_p_value=0.657152	fisher_strand_p_value=1	frequency=9.364128e-03	genotype_quality=1286.9	ks_quality_p_value=0.29666	log10_base_likelihood=-7.6448	log10_qual_likelihood_position_model=2.65133	log10_strand_likelihood_position_model=0.406731	new_cov=1/2	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.8709e-06	ref_cov=152/165	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=153/167
RA	222	.	NC_007779	1148417	0	C	A	bias_e_value=0.000354694	bias_p_value=7.63384e-11	fisher_strand_p_value=3.26178e-12	frequency=9.362745e-02	genotype_quality=1168.3	ks_quality_p_value=0.847533	log10_base_likelihood=-27.824	log10_qual_likelihood_position_model=38.4736	log10_strand_likelihood_position_model=11.7656	new_cov=51/1	polymorphism_quality=22.6	quality=22.6	quality_position_model=Inf	ref_cov=183/168	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=234/169
RA	223	.	NC_007779	1155150	0	T	G	bias_e_value=29585.5	bias_p_value=0.0063675	fisher_strand_p_value=0.000780789	frequency=2.080345e-02	genotype_quality=804.8	ks_quality_p_value=1	log10_base_likelihood=-8.3399	log10_qual_likelihood_position_model=7.22426	log10_strand_likelihood_position_model=3.11737	new_cov=4/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=21/181	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=25/182
RA	224	.	NC_007779	1158848	0	T	G	bias_e_value=7.51247e-22	bias_p_value=1.61686e-28	fisher_strand_p_value=2.33551e-30	frequency=9.864569e-02	genotype_quality=1087.3	ks_quality_p_value=1	log10_base_likelihood=-21.0449	log10_qual_likelihood_position_model=45.6431	log10_strand_likelihood_position_model=29.6316	new_cov=64/0	polymorphism_quality=15.8	quality=15.8	quality_position_model=Inf	ref_cov=84/218	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/218
RA	225	.	NC_007779	1164944	0	T	G	bias_e_value=4.27963e-09	bias_p_value=9.21076e-16	fisher_strand_p_value=2.34418e-17	frequency=7.653666e-02	genotype_quality=780.9	ks_quality_p_value=1	log10_base_likelihood=-14.2744	log10_qual_likelihood_position_model=29.5381	log10_strand_likelihood_position_model=16.63	new_cov=26/0	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=36/164	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=62/164
RA	226	.	NC_007779	1170573	0	C	T	frequency=1	genotype_quality=1634.1	new_cov=255/143	quality=1634.1	ref_cov=1/0	tot_cov=256/143
RA	227	.	NC_007779	1176573	0	A	G	bias_e_value=3296	bias_p_value=0.000709377	fisher_strand_p_value=6.6839e-05	frequency=3.907108e-02	genotype_quality=1106.8	ks_quality_p_value=1	log10_base_likelihood=-18.8845	log10_qual_likelihood_position_model=15.4294	log10_strand_likelihood_position_model=4.2239	new_cov=0/15	polymorphism_quality=13.6	quality=13.6	quality_position_model=Inf	ref_cov=145/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=145/166
RA	228	.	NC_007779	1176575	0	G	T	bias_e_value=17112.3	bias_p_value=0.00368296	fisher_strand_p_value=0.000420108	frequency=3.111553e-02	genotype_quality=1229.9	ks_quality_p_value=0.998933	log10_base_likelihood=-17.1003	log10_qual_likelihood_position_model=14.0019	log10_strand_likelihood_position_model=3.53589	new_cov=0/12	polymorphism_quality=11.8	quality=11.8	quality_position_model=Inf	ref_cov=148/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/158
RA	229	.	NC_007779	1177683	0	A	G	bias_e_value=4.8471e-06	bias_p_value=1.04321e-12	fisher_strand_p_value=3.25432e-14	frequency=7.537270e-02	genotype_quality=917.8	ks_quality_p_value=1	log10_base_likelihood=-14.6691	log10_qual_likelihood_position_model=24.9205	log10_strand_likelihood_position_model=13.4875	new_cov=27/0	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=74/189	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/189
RA	230	.	NC_007779	1197797	0	C	T	bias_e_value=961013	bias_p_value=0.206833	fisher_strand_p_value=0.375053	frequency=4.149642e-01	genotype_quality=442.3	ks_quality_p_value=0.139635	log10_base_likelihood=-462.142	log10_qual_likelihood_position_model=14.6836	log10_strand_likelihood_position_model=1.22876	new_cov=77/61	polymorphism_quality=inf	quality=inf	quality_position_model=0	ref_cov=99/96	tot_cov=176/158
RA	231	.	NC_007779	1197809	0	C	T	bias_e_value=470643	bias_p_value=0.101293	fisher_strand_p_value=0.567687	frequency=3.862848e-01	genotype_quality=500.0	ks_quality_p_value=0.0366122	log10_base_likelihood=-413.072	log10_qual_likelihood_position_model=11.9673	log10_strand_likelihood_position_model=1.11285	new_cov=69/55	polymorphism_quality=inf	quality=inf	quality_position_model=0	ref_cov=103/94	tot_cov=172/149
RA	232	.	NC_007779	1197822	0	T	C	bias_e_value=2042650	bias_p_value=0.439627	fisher_strand_p_value=0.256901	frequency=3.158674e-01	genotype_quality=582.3	ks_quality_p_value=0.594312	log10_base_likelihood=-314.204	log10_qual_likelihood_position_model=9.69854	log10_strand_likelihood_position_model=1.28312	new_cov=51/40	polymorphism_quality=309.5	quality=309.5	quality_position_model=5.55358e-306	ref_cov=96/101	tot_cov=147/141
RA	233	.	NC_007779	1197824	0	A	G	bias_e_value=2232070	bias_p_value=0.480395	fisher_strand_p_value=0.255499	frequency=3.148713e-01	genotype_quality=584.8	ks_quality_p_value=0.685778	log10_base_likelihood=-315.086	log10_qual_likelihood_position_model=9.78152	log10_strand_likelihood_position_model=1.30367	new_cov=51/40	polymorphism_quality=310.4	quality=310.4	quality_position_model=9.23712e-307	ref_cov=96/102	tot_cov=147/142
RA	234	.	NC_007779	1197854	0	C	T	bias_e_value=510657	bias_p_value=0.109905	fisher_strand_p_value=0.0365658	frequency=1.208735e-01	genotype_quality=762.1	ks_quality_p_value=0.630044	log10_base_likelihood=-72.5432	log10_qual_likelihood_position_model=6.77317	log10_strand_likelihood_position_model=1.78935	new_cov=18/8	polymorphism_quality=67.5	quality=67.5	quality_position_model=2.10349e-66	ref_cov=88/101	tot_cov=106/109
RA	235	.	NC_007779	1197857	0	G	C	bias_e_value=410197	bias_p_value=0.088284	fisher_strand_p_value=0.0365658	frequency=1.209741e-01	genotype_quality=801.9	ks_quality_p_value=0.4785	log10_base_likelihood=-90.7944	log10_qual_likelihood_position_model=7.90201	log10_strand_likelihood_position_model=1.78935	new_cov=18/8	polymorphism_quality=85.8	quality=85.8	quality_position_model=1.41056e-83	ref_cov=88/101	tot_cov=106/109
RA	236	.	NC_007779	1197860	0	A	G	bias_e_value=307779	bias_p_value=0.0662412	fisher_strand_p_value=0.0197585	frequency=9.759617e-02	genotype_quality=726.1	ks_quality_p_value=0.620721	log10_base_likelihood=-56.6667	log10_qual_likelihood_position_model=9.98409	log10_strand_likelihood_position_model=2.10122	new_cov=16/5	polymorphism_quality=51.6	quality=51.6	quality_position_model=6.31034e-47	ref_cov=92/102	tot_cov=108/107
RA	237	.	NC_007779	1197869	0	C	T	bias_e_value=3304960	bias_p_value=0.711305	fisher_strand_p_value=0.739122	frequency=4.274273e-02	genotype_quality=849.4	ks_quality_p_value=0.465694	log10_base_likelihood=-19.4363	log10_qual_likelihood_position_model=5.88458	log10_strand_likelihood_position_model=0.626596	new_cov=5/4	polymorphism_quality=14.1	quality=14.1	quality_position_model=5.25108e-15	ref_cov=95/106	tot_cov=100/110
RA	238	.	NC_007779	1213001	0	T	C	bias_e_value=1754920	bias_p_value=0.377701	fisher_strand_p_value=0.743157	frequency=4.014015e-02	genotype_quality=944.1	ks_quality_p_value=0.163554	log10_base_likelihood=-27.1018	log10_qual_likelihood_position_model=3.00249	log10_strand_likelihood_position_model=0.616139	new_cov=6/4	polymorphism_quality=21.9	quality=21.9	quality_position_model=1.08548e-25	ref_cov=156/83	tot_cov=162/87
RA	239	.	NC_007779	1213013	0	T	C	bias_e_value=4072880	bias_p_value=0.87658	fisher_strand_p_value=0.75025	frequency=3.633022e-02	genotype_quality=1046.3	ks_quality_p_value=0.728145	log10_base_likelihood=-25.7046	log10_qual_likelihood_position_model=3.81533	log10_strand_likelihood_position_model=0.607634	new_cov=6/4	polymorphism_quality=20.5	quality=20.5	quality_position_model=1.8119e-23	ref_cov=170/95	tot_cov=176/99
RA	240	.	NC_007779	1213026	0	C	T	bias_e_value=4646270	bias_p_value=0.999986	fisher_strand_p_value=1	frequency=2.071381e-02	genotype_quality=1216.6	ks_quality_p_value=0.994695	log10_base_likelihood=-11.3728	log10_qual_likelihood_position_model=4.15944	log10_strand_likelihood_position_model=0.483803	new_cov=4/2	polymorphism_quality=6.0	quality=6.0	quality_position_model=1.12595e-08	ref_cov=179/103	tot_cov=183/105
RA	241	.	NC_007779	1213028	0	G	A	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=2.070904e-02	genotype_quality=1198.7	ks_quality_p_value=1	log10_base_likelihood=-10.3063	log10_qual_likelihood_position_model=4.56765	log10_strand_likelihood_position_model=0.493991	new_cov=4/2	polymorphism_quality=4.9	quality=4.9	quality_position_model=3.86512e-07	ref_cov=171/108	tot_cov=175/110
RA	242	.	NC_007779	1219648	0	G	T	bias_e_value=0.258231	bias_p_value=5.55774e-08	fisher_strand_p_value=2.6809e-09	frequency=3.795719e-02	genotype_quality=1437.3	ks_quality_p_value=0.999683	log10_base_likelihood=-11.431	log10_qual_likelihood_position_model=23.0049	log10_strand_likelihood_position_model=8.58213	new_cov=1/25	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=240/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=241/177
RA	243	.	NC_007779	1225577	1	.	G	bias_e_value=1618900	bias_p_value=0.348426	fisher_strand_p_value=0.108167	frequency=8.797646e-03	genotype_quality=1696.6	ks_quality_p_value=0.998699	log10_base_likelihood=-11.5462	log10_qual_likelihood_position_model=2.4444	log10_strand_likelihood_position_model=0.965904	new_cov=3/0	polymorphism_quality=6.1	quality=6.1	quality_position_model=4.03739e-10	ref_cov=160/178	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=163/178
RA	244	.	NC_007779	1227881	0	T	.	bias_e_value=4111930	bias_p_value=0.884985	fisher_strand_p_value=0.620249	frequency=7.606506e-03	genotype_quality=1594.0	ks_quality_p_value=0.90366	log10_base_likelihood=-7.67092	log10_qual_likelihood_position_model=1.49446	log10_strand_likelihood_position_model=0.429364	new_cov=2/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.16465e-07	ref_cov=193/198	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=195/199
RA	245	.	NC_007779	1241567	0	A	.	bias_e_value=2630370	bias_p_value=0.566117	fisher_strand_p_value=1	frequency=7.051468e-03	genotype_quality=1707.4	ks_quality_p_value=0.228704	log10_base_likelihood=-7.69094	log10_qual_likelihood_position_model=2.09911	log10_strand_likelihood_position_model=0.394947	new_cov=2/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=4.333e-07	ref_cov=227/195	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=229/196
RA	246	.	NC_007779	1242830	0	G	T	bias_e_value=0.743504	bias_p_value=1.6002e-07	fisher_strand_p_value=8.15396e-09	frequency=4.229832e-02	genotype_quality=1104.8	ks_quality_p_value=1	log10_base_likelihood=-8.80507	log10_qual_likelihood_position_model=22.7531	log10_strand_likelihood_position_model=8.13695	new_cov=0/27	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=171/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=171/185
RA	247	.	NC_007779	1262472	0	A	C	bias_e_value=4.67879e-13	bias_p_value=1.00699e-19	fisher_strand_p_value=2.07087e-21	frequency=8.321524e-02	genotype_quality=984.7	ks_quality_p_value=1	log10_base_likelihood=-14.732	log10_qual_likelihood_position_model=37.666	log10_strand_likelihood_position_model=20.6838	new_cov=0/54	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=180/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=180/155
RA	248	.	NC_007779	1273399	0	T	G	bias_e_value=4.01333e-38	bias_p_value=8.63762e-45	fisher_strand_p_value=8.06243e-47	frequency=1.472311e-01	genotype_quality=1051.8	ks_quality_p_value=1	log10_base_likelihood=-42.585	log10_qual_likelihood_position_model=59.487	log10_strand_likelihood_position_model=46.0935	new_cov=65/0	polymorphism_quality=37.5	quality=37.5	quality_position_model=Inf	ref_cov=28/236	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=93/236
RA	249	.	NC_007779	1273404	0	A	T	bias_e_value=1.89883e-05	bias_p_value=4.08673e-12	fisher_strand_p_value=1.33354e-13	frequency=4.102039e-02	genotype_quality=1059.4	ks_quality_p_value=1	log10_base_likelihood=-7.52354	log10_qual_likelihood_position_model=19.8311	log10_strand_likelihood_position_model=12.875	new_cov=15/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=32/247	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=47/247
RA	250	.	NC_007779	1280617	0	G	T	bias_e_value=8.43136	bias_p_value=1.81463e-06	fisher_strand_p_value=1.06391e-07	frequency=5.401802e-02	genotype_quality=1002.6	ks_quality_p_value=1	log10_base_likelihood=-11.9641	log10_qual_likelihood_position_model=18.6223	log10_strand_likelihood_position_model=7.28474	new_cov=0/27	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=141/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=141/177
RA	251	.	NC_007779	1288364	0	G	A	deleted=1	frequency=1	genotype_quality=113.1	new_cov=16/17	quality=113.1	ref_cov=0/0	tot_cov=16/17
RA	252	.	NC_007779	1288370	0	A	G	deleted=1	frequency=1	genotype_quality=28.2	new_cov=6/5	quality=28.2	ref_cov=0/0	tot_cov=6/5
RA	253	.	NC_007779	1288462	0	T	C	deleted=1	frequency=1	genotype_quality=43.3	new_cov=15/6	quality=43.3	ref_cov=0/0	tot_cov=15/6
RA	254	.	NC_007779	1313924	0	C	A	bias_e_value=49.6324	bias_p_value=1.06821e-05	fisher_strand_p_value=7.04342e-07	frequency=2.941704e-02	genotype_quality=1095.5	ks_quality_p_value=1	log10_base_likelihood=-8.67272	log10_qual_likelihood_position_model=13.6366	log10_strand_likelihood_position_model=6.15222	new_cov=14/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=92/174	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/174
RA	255	.	NC_007779	1318876	0	G	A	frequency=1	genotype_quality=1555.7	new_cov=200/186	quality=1555.7	ref_cov=0/0	tot_cov=200/186
RA	256	.	NC_007779	1324682	0	A	.	bias_e_value=3061770	bias_p_value=0.658966	fisher_strand_p_value=0.359481	frequency=1.214981e-02	genotype_quality=1307.3	ks_quality_p_value=0.829405	log10_base_likelihood=-10.9225	log10_qual_likelihood_position_model=1.84134	log10_strand_likelihood_position_model=0.626714	new_cov=1/3	polymorphism_quality=5.5	quality=5.5	quality_position_model=1.9037e-10	ref_cov=168/157	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=169/160
RA	257	.	NC_007779	1325276	0	G	T	bias_e_value=34.2023	bias_p_value=7.36114e-06	fisher_strand_p_value=4.87691e-07	frequency=3.222370e-02	genotype_quality=1119.8	ks_quality_p_value=0.969775	log10_base_likelihood=-7.49771	log10_qual_likelihood_position_model=15.5612	log10_strand_likelihood_position_model=6.31185	new_cov=0/16	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=193/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=193/138
RA	258	.	NC_007779	1335289	0	A	.	bias_e_value=1573050	bias_p_value=0.338557	fisher_strand_p_value=0.254442	frequency=8.488655e-03	genotype_quality=1424.7	ks_quality_p_value=0.407291	log10_base_likelihood=-7.576	log10_qual_likelihood_position_model=2.22119	log10_strand_likelihood_position_model=0.789733	new_cov=0/3	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.97089e-06	ref_cov=160/190	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=160/193
RA	259	.	NC_007779	1337405	0	T	G	bias_e_value=2.87534e-11	bias_p_value=6.18841e-18	fisher_strand_p_value=1.39324e-19	frequency=3.876972e-02	genotype_quality=1074.7	ks_quality_p_value=1	log10_base_likelihood=-6.45361	log10_qual_likelihood_position_model=36.4127	log10_strand_likelihood_position_model=18.856	new_cov=39/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=85/213	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/213
RA	260	.	NC_007779	1346447	0	C	A	bias_e_value=0.731896	bias_p_value=1.57521e-07	fisher_strand_p_value=8.01988e-09	frequency=4.021931e-02	genotype_quality=1351.4	ks_quality_p_value=1	log10_base_likelihood=-11.0211	log10_qual_likelihood_position_model=21.7133	log10_strand_likelihood_position_model=8.27481	new_cov=29/0	polymorphism_quality=5.6	quality=5.6	quality_position_model=Inf	ref_cov=193/193	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=223/193
RA	261	.	NC_007779	1348546	1	.	T	bias_e_value=4075050	bias_p_value=0.877046	fisher_strand_p_value=0.613468	frequency=7.246017e-03	genotype_quality=2023.1	ks_quality_p_value=0.891752	log10_base_likelihood=-11.9045	log10_qual_likelihood_position_model=2.15429	log10_strand_likelihood_position_model=0.438121	new_cov=2/1	polymorphism_quality=6.5	quality=6.5	quality_position_model=2.52284e-11	ref_cov=199/212	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=201/213
RA	262	.	NC_007779	1350819	0	C	A	bias_e_value=89.6391	bias_p_value=1.92924e-05	fisher_strand_p_value=1.32757e-06	frequency=3.735638e-02	genotype_quality=1143.2	ks_quality_p_value=1	log10_base_likelihood=-7.0378	log10_qual_likelihood_position_model=18.638	log10_strand_likelihood_position_model=6.02891	new_cov=22/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=174/163	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=196/163
RA	263	.	NC_007779	1352913	1	.	T	bias_e_value=365.705	bias_p_value=7.87083e-05	fisher_strand_p_value=1.5433e-05	frequency=3.375530e-02	genotype_quality=1080.0	ks_quality_p_value=0.391827	log10_base_likelihood=-37.627	log10_qual_likelihood_position_model=4.0066	log10_strand_likelihood_position_model=4.81155	new_cov=8/0	polymorphism_quality=32.5	quality=32.5	quality_position_model=4.63736e-31	ref_cov=54/175	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=62/175
RA	264	.	NC_007779	1352922	0	T	C	bias_e_value=0.0447651	bias_p_value=9.6345e-09	fisher_strand_p_value=4.26945e-10	frequency=3.929710e-02	genotype_quality=796.0	ks_quality_p_value=0.999619	log10_base_likelihood=-10.4808	log10_qual_likelihood_position_model=13.0547	log10_strand_likelihood_position_model=9.36963	new_cov=9/0	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=15/198	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=24/198
RA	265	.	NC_007779	1352924	0	A	C	bias_e_value=135.469	bias_p_value=2.91562e-05	fisher_strand_p_value=2.06955e-06	frequency=3.771687e-02	genotype_quality=770.4	ks_quality_p_value=1	log10_base_likelihood=-8.77021	log10_qual_likelihood_position_model=14.4108	log10_strand_likelihood_position_model=5.69826	new_cov=8/3	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=19/194	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=27/197
RA	266	.	NC_007779	1371749	1	.	T	bias_e_value=2527550	bias_p_value=0.543988	fisher_strand_p_value=0.525019	frequency=2.645493e-02	genotype_quality=1754.6	ks_quality_p_value=0.407663	log10_base_likelihood=-45.6382	log10_qual_likelihood_position_model=4.20915	log10_strand_likelihood_position_model=0.750166	new_cov=6/4	polymorphism_quality=40.5	quality=40.5	quality_position_model=5.27532e-43	ref_cov=171/197	reject=INDEL_HOMOPOLYMER	tot_cov=177/201
RA	267	.	NC_007779	1375289	0	G	T	bias_e_value=0.000187622	bias_p_value=4.03807e-11	fisher_strand_p_value=1.42816e-12	frequency=7.274723e-02	genotype_quality=1171.5	ks_quality_p_value=1	log10_base_likelihood=-14.3026	log10_qual_likelihood_position_model=30.6708	log10_strand_likelihood_position_model=11.9352	new_cov=0/46	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=174/190	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/238
RA	268	.	NC_007779	1378219	0	A	C	bias_e_value=5.08328e-15	bias_p_value=1.09404e-21	fisher_strand_p_value=2.05495e-23	frequency=1.076231e-01	genotype_quality=925.1	ks_quality_p_value=1	log10_base_likelihood=-15.1337	log10_qual_likelihood_position_model=61.1842	log10_strand_likelihood_position_model=22.6872	new_cov=0/57	polymorphism_quality=9.8	quality=9.8	quality_position_model=Inf	ref_cov=167/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=167/141
RA	269	.	NC_007779	1378854	0	A	C	bias_e_value=1.4759e-16	bias_p_value=3.17648e-23	fisher_strand_p_value=5.58807e-25	frequency=6.373596e-02	genotype_quality=1114.3	ks_quality_p_value=1	log10_base_likelihood=-8.26852	log10_qual_likelihood_position_model=43.5884	log10_strand_likelihood_position_model=24.2527	new_cov=0/52	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=220/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=220/141
RA	270	.	NC_007779	1405508	0	G	T	bias_e_value=0.00152524	bias_p_value=3.28268e-10	fisher_strand_p_value=1.28149e-11	frequency=6.781960e-02	genotype_quality=778.2	ks_quality_p_value=0.981491	log10_base_likelihood=-24.074	log10_qual_likelihood_position_model=20.3296	log10_strand_likelihood_position_model=10.8923	new_cov=15/0	polymorphism_quality=18.8	quality=18.8	quality_position_model=Inf	ref_cov=30/163	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=45/163
RA	271	.	NC_007779	1409137	0	G	T	bias_e_value=1.25693e-29	bias_p_value=2.70522e-36	fisher_strand_p_value=3.09635e-38	frequency=2.525930e-01	genotype_quality=863.0	ks_quality_p_value=1	log10_base_likelihood=-119.806	log10_qual_likelihood_position_model=42.9017	log10_strand_likelihood_position_model=37.5917	new_cov=0/99	polymorphism_quality=114.9	quality=114.9	quality_position_model=1.24687e-41	ref_cov=181/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=181/183
RA	272	.	NC_007779	1410956	1	.	T	bias_e_value=2951280	bias_p_value=0.635186	fisher_strand_p_value=0.499177	frequency=5.318642e-03	genotype_quality=1822.7	ks_quality_p_value=0.558967	log10_base_likelihood=-7.84807	log10_qual_likelihood_position_model=1.31633	log10_strand_likelihood_position_model=0.57586	new_cov=0/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=7.08185e-08	ref_cov=182/192	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=182/194
RA	273	.	NC_007779	1412694	0	C	A	bias_e_value=1.96854e-07	bias_p_value=4.23676e-14	fisher_strand_p_value=1.19825e-15	frequency=1.207585e-01	genotype_quality=912.4	ks_quality_p_value=1	log10_base_likelihood=-29.0939	log10_qual_likelihood_position_model=25.5174	log10_strand_likelihood_position_model=14.991	new_cov=48/0	polymorphism_quality=23.9	quality=23.9	quality_position_model=Inf	ref_cov=119/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=167/150
RA	274	.	NC_007779	1429880	0	A	C	deleted=1	frequency=1	genotype_quality=1.1	new_cov=0/1	quality=1.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	275	.	NC_007779	1430324	0	A	T	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	276	.	NC_007779	1430325	0	G	T	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	277	.	NC_007779	1430327	0	G	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	278	.	NC_007779	1430328	0	G	A	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	279	.	NC_007779	1430329	0	T	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	280	.	NC_007779	1430333	0	A	G	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	281	.	NC_007779	1430336	0	C	T	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	282	.	NC_007779	1430366	0	G	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	283	.	NC_007779	1430368	0	G	A	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	284	.	NC_007779	1434942	0	A	T	deleted=1	frequency=1	genotype_quality=1.3	new_cov=1/0	quality=1.3	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	285	.	NC_007779	1436000	0	T	C	deleted=1	frequency=1	genotype_quality=0.9	new_cov=1/0	quality=0.9	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	286	.	NC_007779	1437441	0	G	A	bias_e_value=16.8398	bias_p_value=3.62431e-06	fisher_strand_p_value=2.22074e-07	frequency=3.096962e-02	genotype_quality=1034.2	ks_quality_p_value=1	log10_base_likelihood=-5.85706	log10_qual_likelihood_position_model=16.0537	log10_strand_likelihood_position_model=6.6535	new_cov=0/10	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=201/50	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=201/60
RA	287	.	NC_007779	1437447	1	.	C	bias_e_value=1385940	bias_p_value=0.298288	fisher_strand_p_value=0.0963109	frequency=7.238388e-03	genotype_quality=1289.7	ks_quality_p_value=0.898428	log10_base_likelihood=-5.65258	log10_qual_likelihood_position_model=2.88024	log10_strand_likelihood_position_model=1.01632	new_cov=0/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.00194086	ref_cov=190/84	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=190/86
RA	288	.	NC_007779	1438936	1	.	T	bias_e_value=4546420	bias_p_value=0.978496	fisher_strand_p_value=1	frequency=6.451607e-03	genotype_quality=1522.9	ks_quality_p_value=0.799914	log10_base_likelihood=-8.22522	log10_qual_likelihood_position_model=2.67169	log10_strand_likelihood_position_model=0.299916	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.78327e-07	ref_cov=150/158	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=151/159
RA	289	.	NC_007779	1438937	0	T	.	bias_e_value=1124830	bias_p_value=0.242091	fisher_strand_p_value=0.361601	frequency=1.281261e-02	genotype_quality=1244.1	ks_quality_p_value=0.179171	log10_base_likelihood=-11.0204	log10_qual_likelihood_position_model=1.85603	log10_strand_likelihood_position_model=0.622262	new_cov=3/1	polymorphism_quality=5.6	quality=5.6	quality_position_model=1.54811e-10	ref_cov=149/158	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=152/160
RA	290	.	NC_007779	1450771	1	.	T	bias_e_value=4451020	bias_p_value=0.957965	fisher_strand_p_value=1	frequency=5.102158e-03	genotype_quality=1926.6	ks_quality_p_value=0.72443	log10_base_likelihood=-7.82064	log10_qual_likelihood_position_model=1.31145	log10_strand_likelihood_position_model=0.302824	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=3.90176e-08	ref_cov=179/211	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=180/212
RA	291	.	NC_007779	1472022	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	292	.	NC_007779	1472023	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	293	.	NC_007779	1472025	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	294	.	NC_007779	1472027	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	295	.	NC_007779	1472028	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	296	.	NC_007779	1472029	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	297	.	NC_007779	1472030	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	298	.	NC_007779	1472031	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	299	.	NC_007779	1472032	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	300	.	NC_007779	1472033	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	301	.	NC_007779	1472034	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	302	.	NC_007779	1472035	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	303	.	NC_007779	1472037	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	304	.	NC_007779	1472038	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	305	.	NC_007779	1472039	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	306	.	NC_007779	1472040	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	307	.	NC_007779	1472041	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	308	.	NC_007779	1472042	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	309	.	NC_007779	1472045	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	310	.	NC_007779	1472049	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	311	.	NC_007779	1472050	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	312	.	NC_007779	1472052	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	313	.	NC_007779	1483588	0	G	A	frequency=1	genotype_quality=1025.3	new_cov=191/72	quality=1025.3	ref_cov=0/0	tot_cov=191/72
RA	314	.	NC_007779	1492812	0	A	C	bias_e_value=3.2783e-07	bias_p_value=7.05567e-14	fisher_strand_p_value=2.02557e-15	frequency=3.202248e-02	genotype_quality=1197.5	ks_quality_p_value=1	log10_base_likelihood=-6.13427	log10_qual_likelihood_position_model=50.3341	log10_strand_likelihood_position_model=14.6935	new_cov=0/44	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=207/157	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=209/201
RA	315	.	NC_007779	1493621	0	T	C	bias_e_value=1.106e-05	bias_p_value=2.38036e-12	fisher_strand_p_value=7.62831e-14	frequency=4.359341e-02	genotype_quality=1166.5	ks_quality_p_value=1	log10_base_likelihood=-7.52494	log10_qual_likelihood_position_model=27.529	log10_strand_likelihood_position_model=13.1176	new_cov=0/27	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=228/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=228/124
RA	316	.	NC_007779	1496775	0	T	.	frequency=1	genotype_quality=1694.1	new_cov=151/203	quality=1694.1	ref_cov=0/0	tot_cov=152/203
RA	317	.	NC_007779	1504095	1	.	T	bias_e_value=4640530	bias_p_value=0.998752	fisher_strand_p_value=1	frequency=5.764008e-03	genotype_quality=1728.7	ks_quality_p_value=0.950449	log10_base_likelihood=-8.00152	log10_qual_likelihood_position_model=1.15368	log10_strand_likelihood_position_model=0.303722	new_cov=1/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.74858e-08	ref_cov=189/156	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=190/157
RA	318	.	NC_007779	1504851	0	C	A	bias_e_value=3474.32	bias_p_value=0.000747756	fisher_strand_p_value=7.08937e-05	frequency=4.411983e-02	genotype_quality=844.4	ks_quality_p_value=0.999292	log10_base_likelihood=-6.05297	log10_qual_likelihood_position_model=17.4262	log10_strand_likelihood_position_model=4.24882	new_cov=25/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=196/100	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=221/100
RA	319	.	NC_007779	1511719	1	.	A	bias_e_value=4608940	bias_p_value=0.991953	fisher_strand_p_value=1	frequency=4.975319e-03	genotype_quality=2001.9	ks_quality_p_value=0.875848	log10_base_likelihood=-7.74605	log10_qual_likelihood_position_model=1.75253	log10_strand_likelihood_position_model=0.299948	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.32316e-07	ref_cov=200/200	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=201/201
RA	320	.	NC_007779	1515709	0	A	G	bias_e_value=4.34531e-10	bias_p_value=9.35214e-17	fisher_strand_p_value=2.24609e-18	frequency=9.427404e-02	genotype_quality=1037.2	ks_quality_p_value=1	log10_base_likelihood=-18.4739	log10_qual_likelihood_position_model=53.0223	log10_strand_likelihood_position_model=17.6486	new_cov=47/0	polymorphism_quality=13.2	quality=13.2	quality_position_model=Inf	ref_cov=121/198	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=169/198
RA	321	.	NC_007779	1527474	0	G	A	bias_e_value=5.94174e-06	bias_p_value=1.2788e-12	fisher_strand_p_value=4.01558e-14	frequency=9.663630e-02	genotype_quality=1148.9	ks_quality_p_value=1	log10_base_likelihood=-32.075	log10_qual_likelihood_position_model=36.7255	log10_strand_likelihood_position_model=13.3963	new_cov=0/40	polymorphism_quality=26.9	quality=26.9	quality_position_model=Inf	ref_cov=187/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=187/181
RA	322	.	NC_007779	1527479	0	C	A	bias_e_value=58.3749	bias_p_value=1.25636e-05	fisher_strand_p_value=9.00046e-07	frequency=4.785633e-02	genotype_quality=1295.5	ks_quality_p_value=0.931075	log10_base_likelihood=-15.1538	log10_qual_likelihood_position_model=33.9169	log10_strand_likelihood_position_model=6.12196	new_cov=1/22	polymorphism_quality=9.8	quality=9.8	quality_position_model=Inf	ref_cov=188/156	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=189/178
RA	323	.	NC_007779	1533124	0	C	A	bias_e_value=546856	bias_p_value=0.117696	fisher_strand_p_value=0.0251287	frequency=2.338600e-02	genotype_quality=1015.1	ks_quality_p_value=1	log10_base_likelihood=-7.00263	log10_qual_likelihood_position_model=10.6795	log10_strand_likelihood_position_model=1.71326	new_cov=0/8	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=94/143	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=94/152
RA	324	.	NC_007779	1533140	0	C	A	bias_e_value=289747	bias_p_value=0.0623604	fisher_strand_p_value=0.01139	frequency=3.481102e-02	genotype_quality=1019.7	ks_quality_p_value=1	log10_base_likelihood=-17.0444	log10_qual_likelihood_position_model=13.8473	log10_strand_likelihood_position_model=2.19983	new_cov=0/9	polymorphism_quality=11.7	quality=11.7	quality_position_model=0.0141759	ref_cov=105/134	reject=POLYMORPHISM_STRAND	tot_cov=105/143
RA	325	.	NC_007779	1533144	0	T	G	bias_e_value=221023	bias_p_value=0.0475694	fisher_strand_p_value=0.00819578	frequency=2.727985e-02	genotype_quality=880.9	ks_quality_p_value=1	log10_base_likelihood=-10.6309	log10_qual_likelihood_position_model=12.2187	log10_strand_likelihood_position_model=2.18936	new_cov=0/8	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=104/114	reject=POLYMORPHISM_STRAND	tot_cov=104/122
RA	326	.	NC_007779	1537499	0	A	G	bias_e_value=2.86156e-10	bias_p_value=6.15876e-17	fisher_strand_p_value=1.46409e-18	frequency=1.119862e-01	genotype_quality=1061.8	ks_quality_p_value=1	log10_base_likelihood=-24.9752	log10_qual_likelihood_position_model=35.2484	log10_strand_likelihood_position_model=17.9166	new_cov=57/0	polymorphism_quality=19.7	quality=19.7	quality_position_model=Inf	ref_cov=151/190	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=208/191
RA	327	.	NC_007779	1552377	0	A	C	bias_e_value=5.32826e-15	bias_p_value=1.14677e-21	fisher_strand_p_value=2.15593e-23	frequency=1.146078e-01	genotype_quality=950.4	ks_quality_p_value=1	log10_base_likelihood=-25.8015	log10_qual_likelihood_position_model=39.7413	log10_strand_likelihood_position_model=22.6664	new_cov=0/53	polymorphism_quality=20.6	quality=20.6	quality_position_model=Inf	ref_cov=182/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=182/136
RA	328	.	NC_007779	1595838	1	.	C	bias_e_value=4324670	bias_p_value=0.930771	fisher_strand_p_value=1	frequency=9.646416e-03	genotype_quality=1509.2	ks_quality_p_value=0.651775	log10_base_likelihood=-12.1938	log10_qual_likelihood_position_model=1.75253	log10_strand_likelihood_position_model=0.415062	new_cov=1/2	polymorphism_quality=6.8	quality=6.8	quality_position_model=4.7031e-12	ref_cov=151/157	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=152/159
RA	329	.	NC_007779	1595962	1	.	C	bias_e_value=678310	bias_p_value=0.145988	fisher_strand_p_value=0.62866	frequency=1.086903e-02	genotype_quality=1750.9	ks_quality_p_value=0.0526872	log10_base_likelihood=-16.0287	log10_qual_likelihood_position_model=4.00443	log10_strand_likelihood_position_model=0.53237	new_cov=3/1	polymorphism_quality=10.7	quality=10.7	quality_position_model=1.50716e-13	ref_cov=197/167	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=200/168
RA	330	.	NC_007779	1606848	0	G	T	bias_e_value=75.4941	bias_p_value=1.62481e-05	fisher_strand_p_value=1.12899e-06	frequency=2.734280e-02	genotype_quality=1246.6	ks_quality_p_value=0.97793	log10_base_likelihood=-6.35422	log10_qual_likelihood_position_model=21.8618	log10_strand_likelihood_position_model=5.94731	new_cov=0/19	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=191/171	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=191/190
RA	331	.	NC_007779	1615814	0	C	A	frequency=1	genotype_quality=1328.9	new_cov=156/192	quality=1328.9	ref_cov=0/1	tot_cov=156/193
RA	332	.	NC_007779	1626063	1	.	T	bias_e_value=4428090	bias_p_value=0.953029	fisher_strand_p_value=1	frequency=5.697250e-03	genotype_quality=1742.9	ks_quality_p_value=0.709593	log10_base_likelihood=-7.62868	log10_qual_likelihood_position_model=2.53307	log10_strand_likelihood_position_model=0.300077	new_cov=1/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.13327e-06	ref_cov=179/170	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=180/171
RA	333	.	NC_007779	1628027	0	G	T	bias_e_value=1.31332e-05	bias_p_value=2.82658e-12	fisher_strand_p_value=1.11915e-13	frequency=1.826134e-01	genotype_quality=549.5	ks_quality_p_value=0.81402	log10_base_likelihood=-50.1758	log10_qual_likelihood_position_model=31.7291	log10_strand_likelihood_position_model=13.0061	new_cov=38/0	polymorphism_quality=45.1	quality=45.1	quality_position_model=2.41991e-07	ref_cov=60/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/94
RA	334	.	NC_007779	1636572	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	335	.	NC_007779	1636573	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	336	.	NC_007779	1636574	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	337	.	NC_007779	1636575	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	338	.	NC_007779	1636576	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	339	.	NC_007779	1636577	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	340	.	NC_007779	1636578	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	341	.	NC_007779	1636579	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	342	.	NC_007779	1636580	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	343	.	NC_007779	1636581	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	344	.	NC_007779	1636583	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	345	.	NC_007779	1636584	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	346	.	NC_007779	1636585	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	347	.	NC_007779	1636587	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	348	.	NC_007779	1636588	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	349	.	NC_007779	1636589	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	350	.	NC_007779	1636590	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	351	.	NC_007779	1636591	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	352	.	NC_007779	1636594	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	353	.	NC_007779	1636595	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	354	.	NC_007779	1636596	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	355	.	NC_007779	1636597	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	356	.	NC_007779	1636599	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	357	.	NC_007779	1636600	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	358	.	NC_007779	1636602	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	359	.	NC_007779	1636603	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	360	.	NC_007779	1636604	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	361	.	NC_007779	1636607	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	362	.	NC_007779	1636608	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	363	.	NC_007779	1636609	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	364	.	NC_007779	1636610	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	365	.	NC_007779	1636611	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	366	.	NC_007779	1636613	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	367	.	NC_007779	1636616	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	368	.	NC_007779	1636618	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	369	.	NC_007779	1636620	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	370	.	NC_007779	1636621	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	371	.	NC_007779	1636622	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	372	.	NC_007779	1637652	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	373	.	NC_007779	1637653	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=1/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	374	.	NC_007779	1637655	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	375	.	NC_007779	1637656	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	376	.	NC_007779	1637657	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	377	.	NC_007779	1637658	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	378	.	NC_007779	1637659	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	379	.	NC_007779	1637660	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	380	.	NC_007779	1637661	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	381	.	NC_007779	1637666	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	382	.	NC_007779	1637667	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	383	.	NC_007779	1637668	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	384	.	NC_007779	1640427	0	A	.	bias_e_value=1076320	bias_p_value=0.231649	fisher_strand_p_value=0.260284	frequency=8.999825e-03	genotype_quality=1353.9	ks_quality_p_value=0.234413	log10_base_likelihood=-7.70428	log10_qual_likelihood_position_model=1.24274	log10_strand_likelihood_position_model=0.747898	new_cov=0/3	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.26135e-07	ref_cov=145/185	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=145/188
RA	385	.	NC_007779	1642159	0	A	.	bias_e_value=2977280	bias_p_value=0.640781	fisher_strand_p_value=0.639911	frequency=9.470940e-03	genotype_quality=1710.5	ks_quality_p_value=0.442927	log10_base_likelihood=-10.6245	log10_qual_likelihood_position_model=1.96194	log10_strand_likelihood_position_model=0.472293	new_cov=2/2	polymorphism_quality=5.2	quality=5.2	quality_position_model=3.55096e-10	ref_cov=258/160	reject=INDEL_HOMOPOLYMER	tot_cov=260/162
RA	386	.	NC_007779	1651004	1	.	G	bias_e_value=1775730	bias_p_value=0.382179	fisher_strand_p_value=0.125729	frequency=1.201153e-02	genotype_quality=1635.0	ks_quality_p_value=0.983704	log10_base_likelihood=-15.5159	log10_qual_likelihood_position_model=4.77229	log10_strand_likelihood_position_model=1.10485	new_cov=4/0	polymorphism_quality=10.2	quality=10.2	quality_position_model=1.16963e-11	ref_cov=173/156	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=177/156
RA	387	.	NC_007779	1651009	0	T	G	bias_e_value=3.13453e-23	bias_p_value=6.74625e-30	fisher_strand_p_value=9.3114e-32	frequency=1.695485e-01	genotype_quality=793.9	ks_quality_p_value=1	log10_base_likelihood=-47.7258	log10_qual_likelihood_position_model=48.1032	log10_strand_likelihood_position_model=31.031	new_cov=54/0	polymorphism_quality=42.6	quality=42.6	quality_position_model=Inf	ref_cov=36/168	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=90/168
RA	388	.	NC_007779	1660545	0	G	T	bias_e_value=0.00230718	bias_p_value=4.9656e-10	fisher_strand_p_value=1.93451e-11	frequency=5.598545e-02	genotype_quality=1132.6	ks_quality_p_value=1	log10_base_likelihood=-13.4714	log10_qual_likelihood_position_model=22.1448	log10_strand_likelihood_position_model=10.7134	new_cov=0/32	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=186/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/176
RA	389	.	NC_007779	1665006	0	C	A	bias_e_value=8715.37	bias_p_value=0.00187575	fisher_strand_p_value=0.000197219	frequency=3.088188e-02	genotype_quality=1248.0	ks_quality_p_value=0.997636	log10_base_likelihood=-9.1085	log10_qual_likelihood_position_model=18.3489	log10_strand_likelihood_position_model=3.89668	new_cov=13/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=151/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=164/157
RA	390	.	NC_007779	1665011	1	.	T	bias_e_value=2650800	bias_p_value=0.570515	fisher_strand_p_value=0.231937	frequency=6.385803e-03	genotype_quality=1530.0	ks_quality_p_value=0.998973	log10_base_likelihood=-5.6183	log10_qual_likelihood_position_model=4.08661	log10_strand_likelihood_position_model=0.634631	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.0186805	ref_cov=149/162	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=151/162
RA	391	.	NC_007779	1669599	0	C	.	frequency=1	genotype_quality=1421.6	new_cov=129/156	quality=1421.6	ref_cov=0/0	tot_cov=129/158
RA	392	.	NC_007779	1669765	0	C	A	bias_e_value=71579.3	bias_p_value=0.0154056	fisher_strand_p_value=0.00216906	frequency=2.828884e-02	genotype_quality=1397.6	ks_quality_p_value=0.994941	log10_base_likelihood=-9.78478	log10_qual_likelihood_position_model=19.3855	log10_strand_likelihood_position_model=2.71843	new_cov=0/12	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=140/198	reject=POLYMORPHISM_STRAND	tot_cov=140/211
RA	393	.	NC_007779	1669767	0	T	G	bias_e_value=117951	bias_p_value=0.0253859	fisher_strand_p_value=0.00387432	frequency=2.391052e-02	genotype_quality=1307.5	ks_quality_p_value=0.999815	log10_base_likelihood=-10.4978	log10_qual_likelihood_position_model=16.5588	log10_strand_likelihood_position_model=2.48709	new_cov=0/11	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=140/199	reject=POLYMORPHISM_STRAND	tot_cov=140/211
RA	394	.	NC_007779	1669770	0	T	G	bias_e_value=67598.9	bias_p_value=0.0145489	fisher_strand_p_value=0.00201927	frequency=2.413559e-02	genotype_quality=1273.4	ks_quality_p_value=1	log10_base_likelihood=-11.6966	log10_qual_likelihood_position_model=15.7274	log10_strand_likelihood_position_model=2.76203	new_cov=0/12	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=138/191	reject=POLYMORPHISM_STRAND	tot_cov=138/205
RA	395	.	NC_007779	1669773	0	A	G	bias_e_value=184334	bias_p_value=0.0396731	fisher_strand_p_value=0.00658737	frequency=1.875019e-02	genotype_quality=1270.8	ks_quality_p_value=1	log10_base_likelihood=-6.46994	log10_qual_likelihood_position_model=14.8567	log10_strand_likelihood_position_model=2.31064	new_cov=0/10	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=138/191	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=138/201
RA	396	.	NC_007779	1669781	0	G	A	bias_e_value=33504.4	bias_p_value=0.00721094	fisher_strand_p_value=0.000900076	frequency=2.890301e-02	genotype_quality=1375.5	ks_quality_p_value=0.99978	log10_base_likelihood=-8.55924	log10_qual_likelihood_position_model=19.068	log10_strand_likelihood_position_model=3.14788	new_cov=0/13	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=147/190	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/204
RA	397	.	NC_007779	1669785	0	T	G	bias_e_value=170780	bias_p_value=0.0367558	fisher_strand_p_value=0.0060117	frequency=2.012539e-02	genotype_quality=1318.2	ks_quality_p_value=1	log10_base_likelihood=-10.008	log10_qual_likelihood_position_model=13.0757	log10_strand_likelihood_position_model=2.48012	new_cov=0/10	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=149/188	reject=POLYMORPHISM_STRAND	tot_cov=149/198
RA	398	.	NC_007779	1669786	0	G	A	bias_e_value=8570	bias_p_value=0.00184447	fisher_strand_p_value=0.00019309	frequency=3.349590e-02	genotype_quality=1367.3	ks_quality_p_value=1	log10_base_likelihood=-11.5063	log10_qual_likelihood_position_model=19.5867	log10_strand_likelihood_position_model=3.91825	new_cov=0/15	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=155/180	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=155/195
RA	399	.	NC_007779	1677110	0	G	T	bias_e_value=2.08616e-05	bias_p_value=4.4899e-12	fisher_strand_p_value=2.85458e-13	frequency=7.778025e-02	genotype_quality=1075.1	ks_quality_p_value=0.514879	log10_base_likelihood=-17.6587	log10_qual_likelihood_position_model=45.0548	log10_strand_likelihood_position_model=12.5596	new_cov=0/43	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=173/159	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=173/202
RA	400	.	NC_007779	1681402	0	T	G	bias_e_value=1.69375e-09	bias_p_value=3.64536e-16	fisher_strand_p_value=9.05839e-18	frequency=5.430841e-02	genotype_quality=1054.3	ks_quality_p_value=1	log10_base_likelihood=-9.09304	log10_qual_likelihood_position_model=38.0113	log10_strand_likelihood_position_model=17.0429	new_cov=39/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=92/193	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/193
RA	401	.	NC_007779	1693217	0	C	A	bias_e_value=5.94394	bias_p_value=1.27928e-06	fisher_strand_p_value=7.58452e-08	frequency=2.847290e-02	genotype_quality=1197.7	ks_quality_p_value=0.967848	log10_base_likelihood=-6.23909	log10_qual_likelihood_position_model=19.3648	log10_strand_likelihood_position_model=7.12007	new_cov=20/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=144/196	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=164/196
RA	402	.	NC_007779	1703335	0	G	C	bias_e_value=0.0768805	bias_p_value=1.65465e-08	fisher_strand_p_value=7.5442e-10	frequency=4.208374e-02	genotype_quality=999.7	ks_quality_p_value=0.996556	log10_base_likelihood=-13.3682	log10_qual_likelihood_position_model=15.0282	log10_strand_likelihood_position_model=9.12239	new_cov=13/0	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=45/209	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=59/209
RA	403	.	NC_007779	1705204	0	A	C	bias_e_value=17898	bias_p_value=0.00385206	fisher_strand_p_value=0.000441478	frequency=2.505112e-02	genotype_quality=1116.5	ks_quality_p_value=1	log10_base_likelihood=-8.26946	log10_qual_likelihood_position_model=20.3298	log10_strand_likelihood_position_model=3.4516	new_cov=14/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=164/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=178/131
RA	404	.	NC_007779	1705210	0	G	T	bias_e_value=10156.3	bias_p_value=0.00218588	fisher_strand_p_value=0.000233473	frequency=6.022930e-02	genotype_quality=1123.8	ks_quality_p_value=1	log10_base_likelihood=-25.373	log10_qual_likelihood_position_model=21.9383	log10_strand_likelihood_position_model=3.84299	new_cov=19/1	polymorphism_quality=20.1	quality=20.1	quality_position_model=Inf	ref_cov=156/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=175/132
RA	405	.	NC_007779	1705224	0	G	T	bias_e_value=6741.02	bias_p_value=0.00145083	fisher_strand_p_value=0.000147741	frequency=4.489136e-02	genotype_quality=1135.3	ks_quality_p_value=1	log10_base_likelihood=-13.3834	log10_qual_likelihood_position_model=17.6605	log10_strand_likelihood_position_model=3.98149	new_cov=17/0	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=159/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=176/120
RA	406	.	NC_007779	1713510	0	A	C	bias_e_value=2.87765e-07	bias_p_value=6.19338e-14	fisher_strand_p_value=1.7712e-15	frequency=5.834579e-02	genotype_quality=1103.7	ks_quality_p_value=1	log10_base_likelihood=-9.51753	log10_qual_likelihood_position_model=45.7134	log10_strand_likelihood_position_model=14.7517	new_cov=0/42	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=184/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=185/169
RA	407	.	NC_007779	1716031	1	.	T	bias_e_value=35695.4	bias_p_value=0.00768249	fisher_strand_p_value=0.122817	frequency=1.176453e-02	genotype_quality=1616.7	ks_quality_p_value=0.00787732	log10_base_likelihood=-17.1613	log10_qual_likelihood_position_model=3.02849	log10_strand_likelihood_position_model=1.20158	new_cov=4/0	polymorphism_quality=11.8	quality=11.8	quality_position_model=5.17667e-15	ref_cov=167/169	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=171/169
RA	408	.	NC_007779	1722079	0	T	G	bias_e_value=1850370	bias_p_value=0.398243	fisher_strand_p_value=0.131482	frequency=8.927345e-02	genotype_quality=417.8	ks_quality_p_value=1	log10_base_likelihood=-5.5946	log10_qual_likelihood_position_model=20.4053	log10_strand_likelihood_position_model=1.21214	new_cov=18/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=104/19	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=123/19
RA	409	.	NC_007779	1724116	1	.	T	bias_e_value=1341260	bias_p_value=0.28867	fisher_strand_p_value=0.501157	frequency=6.896019e-03	genotype_quality=1419.2	ks_quality_p_value=0.164888	log10_base_likelihood=-7.99755	log10_qual_likelihood_position_model=1.76857	log10_strand_likelihood_position_model=0.53984	new_cov=0/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.33722e-07	ref_cov=134/154	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/156
RA	410	.	NC_007779	1746048	0	C	A	bias_e_value=0.366022	bias_p_value=7.87766e-08	fisher_strand_p_value=3.8693e-09	frequency=6.015205e-02	genotype_quality=1093.1	ks_quality_p_value=0.999441	log10_base_likelihood=-13.9601	log10_qual_likelihood_position_model=22.4523	log10_strand_likelihood_position_model=8.48024	new_cov=30/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=156/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/158
RA	411	.	NC_007779	1758860	0	C	A	bias_e_value=0.000140919	bias_p_value=3.03292e-11	fisher_strand_p_value=1.12816e-12	frequency=4.529285e-02	genotype_quality=1102.8	ks_quality_p_value=0.940936	log10_base_likelihood=-7.39098	log10_qual_likelihood_position_model=34.2434	log10_strand_likelihood_position_model=11.9476	new_cov=31/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=116/188	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/188
RA	412	.	NC_007779	1759411	0	A	C	bias_e_value=26.9802	bias_p_value=5.80676e-06	fisher_strand_p_value=3.67108e-07	frequency=3.162575e-02	genotype_quality=1307.8	ks_quality_p_value=1	log10_base_likelihood=-12.0529	log10_qual_likelihood_position_model=21.8464	log10_strand_likelihood_position_model=6.43521	new_cov=16/0	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=130/211	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/211
RA	413	.	NC_007779	1759412	0	T	.	bias_e_value=3073670	bias_p_value=0.661527	fisher_strand_p_value=1	frequency=8.914948e-03	genotype_quality=1296.5	ks_quality_p_value=0.300278	log10_base_likelihood=-7.28401	log10_qual_likelihood_position_model=3.74659	log10_strand_likelihood_position_model=0.368809	new_cov=1/2	polymorphism_quality=1.8	quality=1.8	quality_position_model=5.79736e-05	ref_cov=138/194	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=140/196
RA	414	.	NC_007779	1763744	0	C	A	bias_e_value=1.37418e-05	bias_p_value=2.95756e-12	fisher_strand_p_value=9.54668e-14	frequency=5.815554e-02	genotype_quality=1185.9	ks_quality_p_value=1	log10_base_likelihood=-14.725	log10_qual_likelihood_position_model=23.4952	log10_strand_likelihood_position_model=13.0201	new_cov=33/0	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=130/217	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=163/217
RA	415	.	NC_007779	1823573	1	.	A	bias_e_value=4357670	bias_p_value=0.937872	fisher_strand_p_value=1	frequency=5.405426e-03	genotype_quality=1815.3	ks_quality_p_value=0.668884	log10_base_likelihood=-7.87094	log10_qual_likelihood_position_model=1.08054	log10_strand_likelihood_position_model=0.308519	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.02709e-08	ref_cov=210/158	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=211/159
RA	416	.	NC_007779	1823574	0	A	.	bias_e_value=2196890	bias_p_value=0.472822	fisher_strand_p_value=0.637211	frequency=1.057529e-02	genotype_quality=1525.5	ks_quality_p_value=0.268198	log10_base_likelihood=-11.0003	log10_qual_likelihood_position_model=2.12297	log10_strand_likelihood_position_model=0.497573	new_cov=3/1	polymorphism_quality=5.6	quality=5.6	quality_position_model=2.27054e-10	ref_cov=212/162	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=215/163
RA	417	.	NC_007779	1824805	0	G	T	bias_e_value=2.87137	bias_p_value=6.17986e-07	fisher_strand_p_value=3.65809e-08	frequency=4.050446e-02	genotype_quality=1022.8	ks_quality_p_value=0.928321	log10_base_likelihood=-6.88693	log10_qual_likelihood_position_model=25.6947	log10_strand_likelihood_position_model=7.43675	new_cov=0/23	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=170/142	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=170/165
RA	418	.	NC_007779	1832491	0	G	T	bias_e_value=0.000867823	bias_p_value=1.86776e-10	fisher_strand_p_value=7.00294e-12	frequency=5.516338e-02	genotype_quality=1139.9	ks_quality_p_value=0.999471	log10_base_likelihood=-12.9758	log10_qual_likelihood_position_model=23.1723	log10_strand_likelihood_position_model=11.1547	new_cov=0/31	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=193/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=193/166
RA	419	.	NC_007779	1837206	0	G	T	bias_e_value=836.59	bias_p_value=0.000180054	fisher_strand_p_value=1.54404e-05	frequency=2.513218e-02	genotype_quality=1128.7	ks_quality_p_value=0.962396	log10_base_likelihood=-6.55337	log10_qual_likelihood_position_model=17.5121	log10_strand_likelihood_position_model=4.81134	new_cov=11/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=108/198	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/198
RA	420	.	NC_007779	1840899	0	G	T	bias_e_value=2.25108	bias_p_value=4.84486e-07	fisher_strand_p_value=2.62629e-08	frequency=4.095268e-02	genotype_quality=1095.4	ks_quality_p_value=0.999566	log10_base_likelihood=-8.01668	log10_qual_likelihood_position_model=24.4409	log10_strand_likelihood_position_model=7.72676	new_cov=0/25	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=173/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=173/179
RA	421	.	NC_007779	1844073	0	G	A	frequency=1	genotype_quality=1615.2	new_cov=196/205	quality=1615.2	ref_cov=0/0	tot_cov=196/205
RA	422	.	NC_007779	1844628	0	A	G	bias_e_value=4.17081e-06	bias_p_value=8.97657e-13	fisher_strand_p_value=2.78678e-14	frequency=6.752205e-02	genotype_quality=691.0	ks_quality_p_value=1	log10_base_likelihood=-10.4538	log10_qual_likelihood_position_model=20.6394	log10_strand_likelihood_position_model=13.5549	new_cov=17/0	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=22/161	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=39/161
RA	423	.	NC_007779	1846634	0	A	.	bias_e_value=1730500	bias_p_value=0.372444	fisher_strand_p_value=0.247993	frequency=8.371353e-03	genotype_quality=1458.8	ks_quality_p_value=0.480111	log10_base_likelihood=-7.72755	log10_qual_likelihood_position_model=1.21964	log10_strand_likelihood_position_model=0.892197	new_cov=0/3	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.5932e-07	ref_cov=177/178	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=177/181
RA	424	.	NC_007779	1847043	0	T	.	bias_e_value=4485890	bias_p_value=0.965468	fisher_strand_p_value=1	frequency=7.327080e-03	genotype_quality=1615.0	ks_quality_p_value=0.748983	log10_base_likelihood=-7.61417	log10_qual_likelihood_position_model=1.49383	log10_strand_likelihood_position_model=0.38745	new_cov=1/2	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.20477e-07	ref_cov=182/222	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=185/224
RA	425	.	NC_007779	1861399	0	A	C	bias_e_value=3.14913e-25	bias_p_value=6.77767e-32	fisher_strand_p_value=8.78911e-34	frequency=1.023331e-01	genotype_quality=873.3	ks_quality_p_value=1	log10_base_likelihood=-16.4997	log10_qual_likelihood_position_model=48.2974	log10_strand_likelihood_position_model=33.0561	new_cov=0/50	polymorphism_quality=11.2	quality=11.2	quality_position_model=Inf	ref_cov=194/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=194/82
RA	426	.	NC_007779	1865524	1	.	T	bias_e_value=2445940	bias_p_value=0.526425	fisher_strand_p_value=0.248014	frequency=8.287430e-03	genotype_quality=1778.1	ks_quality_p_value=0.817822	log10_base_likelihood=-12.3205	log10_qual_likelihood_position_model=1.61653	log10_strand_likelihood_position_model=0.892317	new_cov=0/3	polymorphism_quality=6.9	quality=6.9	quality_position_model=7.78836e-12	ref_cov=179/180	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=179/183
RA	427	.	NC_007779	1879381	0	C	A	bias_e_value=0.926388	bias_p_value=1.9938e-07	fisher_strand_p_value=1.02844e-08	frequency=3.355980e-02	genotype_quality=1259.4	ks_quality_p_value=0.999672	log10_base_likelihood=-5.9002	log10_qual_likelihood_position_model=21.0407	log10_strand_likelihood_position_model=7.98782	new_cov=0/15	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=214/81	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=214/96
RA	428	.	NC_007779	1879404	0	A	C	bias_e_value=1.08868e-20	bias_p_value=2.34311e-27	fisher_strand_p_value=3.52263e-29	frequency=9.406614e-02	genotype_quality=1023.7	ks_quality_p_value=1	log10_base_likelihood=-20.6003	log10_qual_likelihood_position_model=41.3627	log10_strand_likelihood_position_model=28.4531	new_cov=0/38	polymorphism_quality=15.3	quality=15.3	quality_position_model=Inf	ref_cov=226/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=226/69
RA	429	.	NC_007779	1889729	1	.	A	bias_e_value=2409250	bias_p_value=0.518528	fisher_strand_p_value=1	frequency=8.670807e-03	genotype_quality=1702.8	ks_quality_p_value=0.197919	log10_base_likelihood=-12.3519	log10_qual_likelihood_position_model=2.23544	log10_strand_likelihood_position_model=0.360428	new_cov=2/1	polymorphism_quality=7.0	quality=7.0	quality_position_model=8.87675e-12	ref_cov=208/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=210/136
RA	430	.	NC_007779	1896056	0	A	.	bias_e_value=3949320	bias_p_value=0.849988	fisher_strand_p_value=0.575211	frequency=8.144379e-03	genotype_quality=1497.7	ks_quality_p_value=0.877871	log10_base_likelihood=-7.7685	log10_qual_likelihood_position_model=1.20265	log10_strand_likelihood_position_model=0.510642	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=5.59054e-08	ref_cov=153/212	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=155/213
RA	431	.	NC_007779	1901695	1	.	C	bias_e_value=1738310	bias_p_value=0.374126	fisher_strand_p_value=0.160772	frequency=6.430626e-03	genotype_quality=1533.5	ks_quality_p_value=0.745502	log10_base_likelihood=-8.07706	log10_qual_likelihood_position_model=0.997261	log10_strand_likelihood_position_model=0.79379	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.22864e-08	ref_cov=123/186	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/186
RA	432	.	NC_007779	1906475	1	.	C	bias_e_value=1681770	bias_p_value=0.361956	fisher_strand_p_value=0.188553	frequency=5.649567e-03	genotype_quality=1718.6	ks_quality_p_value=0.605577	log10_base_likelihood=-8.37313	log10_qual_likelihood_position_model=1.61106	log10_strand_likelihood_position_model=0.724566	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=5.83108e-08	ref_cov=152/200	reject=POLYMORPHISM_STRAND	tot_cov=154/200
RA	433	.	NC_007779	1906477	1	.	G	bias_e_value=5922.34	bias_p_value=0.00127463	fisher_strand_p_value=0.000128553	frequency=2.931213e-02	genotype_quality=1414.7	ks_quality_p_value=0.995093	log10_base_likelihood=-33.0818	log10_qual_likelihood_position_model=10.086	log10_strand_likelihood_position_model=3.89092	new_cov=9/0	polymorphism_quality=27.9	quality=27.9	quality_position_model=2.86981e-21	ref_cov=107/191	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=116/191
RA	434	.	NC_007779	1906488	0	G	T	bias_e_value=0.0415589	bias_p_value=8.94444e-09	fisher_strand_p_value=3.94855e-10	frequency=5.014038e-02	genotype_quality=1054.1	ks_quality_p_value=1	log10_base_likelihood=-7.72304	log10_qual_likelihood_position_model=20.0986	log10_strand_likelihood_position_model=9.40356	new_cov=20/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=85/186	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/186
RA	435	.	NC_007779	1907281	0	C	A	bias_e_value=4174050	bias_p_value=0.898354	fisher_strand_p_value=0.686293	frequency=7.917404e-03	genotype_quality=3240.7	ks_quality_p_value=0.851618	log10_base_likelihood=-12.2053	log10_qual_likelihood_position_model=3.54129	log10_strand_likelihood_position_model=0.623782	new_cov=4/2	polymorphism_quality=6.8	quality=6.8	quality_position_model=5.06074e-10	ref_cov=376/373	tot_cov=380/375
RA	436	.	NC_007779	1907665	0	T	G	bias_e_value=3.42977e-06	bias_p_value=7.38168e-13	fisher_strand_p_value=2.27737e-14	frequency=4.211712e-02	genotype_quality=1041.1	ks_quality_p_value=1	log10_base_likelihood=-6.47588	log10_qual_likelihood_position_model=50.231	log10_strand_likelihood_position_model=13.6426	new_cov=40/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=126/174	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=166/174
RA	437	.	NC_007779	1918872	0	T	A	frequency=1	genotype_quality=1536.4	new_cov=206/189	quality=1536.4	ref_cov=0/0	tot_cov=206/189
RA	438	.	NC_007779	1920746	0	G	T	bias_e_value=1.02375e-08	bias_p_value=2.20336e-15	fisher_strand_p_value=5.73839e-17	frequency=8.229303e-02	genotype_quality=1147.5	ks_quality_p_value=1	log10_base_likelihood=-23.2384	log10_qual_likelihood_position_model=25.3172	log10_strand_likelihood_position_model=16.2412	new_cov=0/40	polymorphism_quality=18.0	quality=18.0	quality_position_model=Inf	ref_cov=207/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=207/155
RA	439	.	NC_007779	1926746	0	G	A	bias_e_value=4480670	bias_p_value=0.964346	fisher_strand_p_value=1	frequency=2.071190e-02	genotype_quality=1815.6	ks_quality_p_value=0.745135	log10_base_likelihood=-18.0933	log10_qual_likelihood_position_model=3.15257	log10_strand_likelihood_position_model=0.590466	new_cov=5/4	polymorphism_quality=12.8	quality=12.8	quality_position_model=1.87528e-16	ref_cov=251/173	tot_cov=256/177
RA	440	.	NC_007779	1938748	1	.	A	bias_e_value=4607600	bias_p_value=0.991665	fisher_strand_p_value=1	frequency=5.235672e-03	genotype_quality=1868.9	ks_quality_p_value=0.873695	log10_base_likelihood=-7.54129	log10_qual_likelihood_position_model=2.46056	log10_strand_likelihood_position_model=0.299999	new_cov=1/1	polymorphism_quality=2.0	quality=2.0	quality_position_model=1.17422e-06	ref_cov=187/193	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=188/194
RA	441	.	NC_007779	1956118	0	C	A	bias_e_value=1.45662	bias_p_value=3.13498e-07	fisher_strand_p_value=1.66e-08	frequency=4.362488e-02	genotype_quality=969.7	ks_quality_p_value=0.998414	log10_base_likelihood=-18.1705	log10_qual_likelihood_position_model=18.0967	log10_strand_likelihood_position_model=7.77989	new_cov=0/12	polymorphism_quality=12.9	quality=12.9	quality_position_model=Inf	ref_cov=191/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=191/61
RA	442	.	NC_007779	1971508	0	A	C	bias_e_value=3.17081e-10	bias_p_value=6.82433e-17	fisher_strand_p_value=1.62638e-18	frequency=6.887865e-02	genotype_quality=735.8	ks_quality_p_value=1	log10_base_likelihood=-19.7614	log10_qual_likelihood_position_model=21.9213	log10_strand_likelihood_position_model=17.7888	new_cov=0/20	polymorphism_quality=14.5	quality=14.5	quality_position_model=Inf	ref_cov=174/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=175/36
RA	443	.	NC_007779	1973476	0	G	A	frequency=1	genotype_quality=1404.9	new_cov=166/187	quality=1404.9	ref_cov=0/0	tot_cov=166/187
RA	444	.	NC_007779	1993884	0	C	A	bias_e_value=162586	bias_p_value=0.0349923	fisher_strand_p_value=0.0056688	frequency=1.414871e-02	genotype_quality=1457.7	ks_quality_p_value=1	log10_base_likelihood=-7.04571	log10_qual_likelihood_position_model=7.81106	log10_strand_likelihood_position_model=2.24651	new_cov=0/6	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=210/150	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=210/156
RA	445	.	NC_007779	1993891	0	A	C	bias_e_value=0.00019625	bias_p_value=4.22376e-11	fisher_strand_p_value=1.4963e-12	frequency=5.003643e-02	genotype_quality=1209.1	ks_quality_p_value=1	log10_base_likelihood=-13.9195	log10_qual_likelihood_position_model=33.3632	log10_strand_likelihood_position_model=11.825	new_cov=0/32	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=196/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=196/162
RA	446	.	NC_007779	1993894	0	A	C	bias_e_value=0.00765999	bias_p_value=1.64861e-09	fisher_strand_p_value=6.75143e-11	frequency=5.464792e-02	genotype_quality=1255.6	ks_quality_p_value=1	log10_base_likelihood=-25.9665	log10_qual_likelihood_position_model=27.7226	log10_strand_likelihood_position_model=10.1706	new_cov=0/28	polymorphism_quality=20.7	quality=20.7	quality_position_model=Inf	ref_cov=203/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=203/170
RA	447	.	NC_007779	2004055	0	A	C	bias_e_value=2.5216e-36	bias_p_value=5.42707e-43	fisher_strand_p_value=5.27135e-45	frequency=1.829333e-01	genotype_quality=1042.3	ks_quality_p_value=1	log10_base_likelihood=-56.8309	log10_qual_likelihood_position_model=59.4726	log10_strand_likelihood_position_model=44.2781	new_cov=0/91	polymorphism_quality=51.8	quality=51.8	quality_position_model=Inf	ref_cov=214/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=214/154
RA	448	.	NC_007779	2004055	1	.	C	bias_e_value=762974	bias_p_value=0.16421	fisher_strand_p_value=0.0756075	frequency=8.542061e-03	genotype_quality=1606.4	ks_quality_p_value=0.510475	log10_base_likelihood=-8.51888	log10_qual_likelihood_position_model=4.81266	log10_strand_likelihood_position_model=1.12144	new_cov=0/3	polymorphism_quality=3.0	quality=3.0	quality_position_model=0.000243412	ref_cov=202/146	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=202/149
RA	449	.	NC_007779	2005401	0	C	T	frequency=1	genotype_quality=1594.1	new_cov=192/196	quality=1594.1	ref_cov=0/0	tot_cov=192/196
RA	450	.	NC_007779	2005921	0	A	.	bias_e_value=4185760	bias_p_value=0.900874	fisher_strand_p_value=0.623094	frequency=7.587433e-03	genotype_quality=1590.7	ks_quality_p_value=0.945582	log10_base_likelihood=-7.74329	log10_qual_likelihood_position_model=1.76767	log10_strand_likelihood_position_model=0.425977	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.86525e-07	ref_cov=195/197	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=197/198
RA	451	.	NC_007779	2012275	1	.	A	bias_e_value=2237260	bias_p_value=0.481511	fisher_strand_p_value=0.515105	frequency=4.878044e-03	genotype_quality=2030.1	ks_quality_p_value=0.3414	log10_base_likelihood=-7.9145	log10_qual_likelihood_position_model=1.77088	log10_strand_likelihood_position_model=0.458675	new_cov=0/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.35069e-07	ref_cov=168/240	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=168/242
RA	452	.	NC_007779	2023811	0	C	A	bias_e_value=0.0595646	bias_p_value=1.28197e-08	fisher_strand_p_value=5.75754e-10	frequency=4.923773e-02	genotype_quality=1189.0	ks_quality_p_value=0.999559	log10_base_likelihood=-17.152	log10_qual_likelihood_position_model=24.1957	log10_strand_likelihood_position_model=9.4181	new_cov=30/0	polymorphism_quality=11.8	quality=11.8	quality_position_model=Inf	ref_cov=164/190	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=194/190
RA	453	.	NC_007779	2027367	1	.	C	bias_e_value=3767460	bias_p_value=0.810846	fisher_strand_p_value=0.498498	frequency=6.005287e-03	genotype_quality=1580.4	ks_quality_p_value=0.906533	log10_base_likelihood=-6.78997	log10_qual_likelihood_position_model=2.81827	log10_strand_likelihood_position_model=0.600758	new_cov=0/2	polymorphism_quality=1.3	quality=1.3	quality_position_model=3.53857e-05	ref_cov=166/165	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=166/167
RA	454	.	NC_007779	2032185	0	G	C	bias_e_value=163.569	bias_p_value=3.52038e-05	fisher_strand_p_value=2.53899e-06	frequency=2.958012e-02	genotype_quality=754.5	ks_quality_p_value=0.998567	log10_base_likelihood=-9.00219	log10_qual_likelihood_position_model=8.44107	log10_strand_likelihood_position_model=5.59534	new_cov=6/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=18/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=24/162
RA	455	.	NC_007779	2060392	0	T	G	bias_e_value=0.0624675	bias_p_value=1.34445e-08	fisher_strand_p_value=6.049e-10	frequency=3.666306e-02	genotype_quality=1030.8	ks_quality_p_value=1	log10_base_likelihood=-5.85299	log10_qual_likelihood_position_model=39.898	log10_strand_likelihood_position_model=9.40289	new_cov=34/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=157/155	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=192/155
RA	456	.	NC_007779	2065611	0	C	A	bias_e_value=24.3131	bias_p_value=5.23274e-06	fisher_strand_p_value=3.2851e-07	frequency=2.835369e-02	genotype_quality=1249.7	ks_quality_p_value=1	log10_base_likelihood=-6.81905	log10_qual_likelihood_position_model=23.4984	log10_strand_likelihood_position_model=6.56131	new_cov=22/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=171/180	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=194/180
RA	457	.	NC_007779	2079936	0	G	T	bias_e_value=0.197286	bias_p_value=4.24607e-08	fisher_strand_p_value=2.02e-09	frequency=5.535984e-02	genotype_quality=1153.2	ks_quality_p_value=1	log10_base_likelihood=-12.4303	log10_qual_likelihood_position_model=23.9892	log10_strand_likelihood_position_model=8.96866	new_cov=1/32	polymorphism_quality=7.0	quality=7.0	quality_position_model=Inf	ref_cov=185/155	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/187
RA	458	.	NC_007779	2083807	0	T	.	bias_e_value=845812	bias_p_value=0.182039	fisher_strand_p_value=0.116809	frequency=7.399559e-03	genotype_quality=1627.5	ks_quality_p_value=0.378335	log10_base_likelihood=-7.55529	log10_qual_likelihood_position_model=1.81517	log10_strand_likelihood_position_model=0.932525	new_cov=3/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.10095e-06	ref_cov=195/206	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=199/206
RA	459	.	NC_007779	2095582	0	G	T	bias_e_value=0.000168947	bias_p_value=3.63615e-11	fisher_strand_p_value=1.28188e-12	frequency=8.112383e-02	genotype_quality=1172.7	ks_quality_p_value=0.999377	log10_base_likelihood=-26.483	log10_qual_likelihood_position_model=24.9675	log10_strand_likelihood_position_model=12.0205	new_cov=0/46	polymorphism_quality=21.3	quality=21.3	quality_position_model=Inf	ref_cov=174/188	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/234
RA	460	.	NC_007779	2101940	1	.	A	bias_e_value=3566950	bias_p_value=0.767692	fisher_strand_p_value=0.577437	frequency=8.086205e-03	genotype_quality=1825.3	ks_quality_p_value=0.694943	log10_base_likelihood=-12.3061	log10_qual_likelihood_position_model=1.86482	log10_strand_likelihood_position_model=0.504544	new_cov=1/2	polymorphism_quality=6.9	quality=6.9	quality_position_model=5.80391e-12	ref_cov=212/156	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=213/158
RA	461	.	NC_007779	2103639	1	.	A	bias_e_value=4366910	bias_p_value=0.939861	fisher_strand_p_value=1	frequency=8.450508e-03	genotype_quality=1757.5	ks_quality_p_value=0.673877	log10_base_likelihood=-11.9911	log10_qual_likelihood_position_model=2.36438	log10_strand_likelihood_position_model=0.360905	new_cov=2/1	polymorphism_quality=6.6	quality=6.6	quality_position_model=2.81325e-11	ref_cov=213/139	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=215/140
RA	462	.	NC_007779	2107010	1	.	A	bias_e_value=3020260	bias_p_value=0.65003	fisher_strand_p_value=0.505935	frequency=5.934715e-03	genotype_quality=1643.9	ks_quality_p_value=0.57487	log10_base_likelihood=-7.91222	log10_qual_likelihood_position_model=1.25298	log10_strand_likelihood_position_model=0.50335	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=4.39951e-08	ref_cov=187/148	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=189/148
RA	463	.	NC_007779	2110101	1	.	T	bias_e_value=4190860	bias_p_value=0.901972	fisher_strand_p_value=0.599438	frequency=8.402824e-03	genotype_quality=1771.1	ks_quality_p_value=0.986373	log10_base_likelihood=-12.1483	log10_qual_likelihood_position_model=3.89032	log10_strand_likelihood_position_model=0.4586	new_cov=2/1	polymorphism_quality=6.8	quality=6.8	quality_position_model=8.94014e-10	ref_cov=164/190	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=166/191
RA	464	.	NC_007779	2120607	0	G	C	bias_e_value=760590	bias_p_value=0.163697	fisher_strand_p_value=0.284519	frequency=8.022308e-03	genotype_quality=1550.1	ks_quality_p_value=0.135099	log10_base_likelihood=-6.2051	log10_qual_likelihood_position_model=3.08642	log10_strand_likelihood_position_model=0.645802	new_cov=3/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=0.000321148	ref_cov=224/145	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=228/145
RA	465	.	NC_007779	2127094	1	.	A	bias_e_value=3373100	bias_p_value=0.72597	fisher_strand_p_value=0.499744	frequency=4.878044e-03	genotype_quality=2033.3	ks_quality_p_value=0.716806	log10_base_likelihood=-7.80408	log10_qual_likelihood_position_model=1.33577	log10_strand_likelihood_position_model=0.565714	new_cov=0/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=8.04005e-08	ref_cov=196/212	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=196/214
RA	466	.	NC_007779	2141731	0	A	C	bias_e_value=118.215	bias_p_value=2.54427e-05	fisher_strand_p_value=1.78736e-06	frequency=2.454376e-02	genotype_quality=1132.7	ks_quality_p_value=1	log10_base_likelihood=-6.49127	log10_qual_likelihood_position_model=24.0292	log10_strand_likelihood_position_model=5.74779	new_cov=0/18	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=172/149	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=172/167
RA	467	.	NC_007779	2156661	0	C	A	bias_e_value=0.00600992	bias_p_value=1.29348e-09	fisher_strand_p_value=5.24278e-11	frequency=7.091475e-02	genotype_quality=1107.3	ks_quality_p_value=1	log10_base_likelihood=-14.0699	log10_qual_likelihood_position_model=27.3868	log10_strand_likelihood_position_model=10.5942	new_cov=44/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=190/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=235/157
RA	468	.	NC_007779	2170094	0	C	A	frequency=1	genotype_quality=1698.1	new_cov=172/241	quality=1698.1	ref_cov=0/0	tot_cov=172/241
RA	469	.	NC_007779	2174678	0	C	G	bias_e_value=165.235	bias_p_value=3.55625e-05	fisher_strand_p_value=2.5632e-06	frequency=3.218746e-02	genotype_quality=938.0	ks_quality_p_value=1	log10_base_likelihood=-7.28566	log10_qual_likelihood_position_model=11.4325	log10_strand_likelihood_position_model=5.59122	new_cov=0/11	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=171/71	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=171/82
RA	470	.	NC_007779	2191371	1	.	C	bias_e_value=2163070	bias_p_value=0.465543	fisher_strand_p_value=0.203113	frequency=6.060600e-03	genotype_quality=1636.9	ks_quality_p_value=0.821246	log10_base_likelihood=-8.02539	log10_qual_likelihood_position_model=0.614007	log10_strand_likelihood_position_model=0.692262	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.15418e-08	ref_cov=147/181	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=149/181
RA	471	.	NC_007779	2199432	0	G	C	bias_e_value=0.469019	bias_p_value=1.00944e-07	fisher_strand_p_value=5.02081e-09	frequency=2.150536e-02	genotype_quality=1098.8	ks_quality_p_value=0.999761	log10_base_likelihood=-5.77714	log10_qual_likelihood_position_model=12.0384	log10_strand_likelihood_position_model=8.29923	new_cov=0/9	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=242/28	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=242/37
RA	472	.	NC_007779	2202878	0	G	T	bias_e_value=4.14953	bias_p_value=8.93076e-07	fisher_strand_p_value=5.01496e-08	frequency=2.980614e-02	genotype_quality=1185.3	ks_quality_p_value=1	log10_base_likelihood=-7.21039	log10_qual_likelihood_position_model=17.7027	log10_strand_likelihood_position_model=7.29973	new_cov=0/19	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=206/135	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=208/155
RA	473	.	NC_007779	2202934	0	G	T	bias_e_value=0.0333678	bias_p_value=7.18154e-09	fisher_strand_p_value=3.1385e-10	frequency=4.004383e-02	genotype_quality=1275.1	ks_quality_p_value=1	log10_base_likelihood=-11.293	log10_qual_likelihood_position_model=21.2922	log10_strand_likelihood_position_model=9.50328	new_cov=0/25	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=218/143	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=218/168
RA	474	.	NC_007779	2213136	0	G	T	bias_e_value=2.27912e-09	bias_p_value=4.90519e-16	fisher_strand_p_value=1.57376e-17	frequency=1.215782e-01	genotype_quality=876.3	ks_quality_p_value=0.780418	log10_base_likelihood=-56.3959	log10_qual_likelihood_position_model=35.5305	log10_strand_likelihood_position_model=16.8031	new_cov=34/0	polymorphism_quality=51.3	quality=51.3	quality_position_model=6.61756e-06	ref_cov=63/169	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/169
RA	475	.	NC_007779	2222881	1	.	G	bias_e_value=628060	bias_p_value=0.135173	fisher_strand_p_value=0.160231	frequency=5.813599e-03	genotype_quality=1712.3	ks_quality_p_value=0.187188	log10_base_likelihood=-7.863	log10_qual_likelihood_position_model=0.902707	log10_strand_likelihood_position_model=0.795253	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=4.30482e-08	ref_cov=136/206	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=138/206
RA	476	.	NC_007779	2226024	0	C	A	bias_e_value=1.03418	bias_p_value=2.22579e-07	fisher_strand_p_value=1.15464e-08	frequency=3.264332e-02	genotype_quality=1222.3	ks_quality_p_value=1	log10_base_likelihood=-6.27261	log10_qual_likelihood_position_model=18.5294	log10_strand_likelihood_position_model=7.93755	new_cov=25/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=171/198	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=200/198
RA	477	.	NC_007779	2227297	1	.	C	bias_e_value=2207170	bias_p_value=0.475034	fisher_strand_p_value=0.178738	frequency=6.230354e-03	genotype_quality=1589.0	ks_quality_p_value=0.963156	log10_base_likelihood=-8.79358	log10_qual_likelihood_position_model=3.45535	log10_strand_likelihood_position_model=0.747782	new_cov=2/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=1.85432e-06	ref_cov=134/185	reject=POLYMORPHISM_STRAND	tot_cov=136/185
RA	478	.	NC_007779	2227306	0	A	C	bias_e_value=57.0283	bias_p_value=1.22738e-05	fisher_strand_p_value=8.17316e-07	frequency=2.795601e-02	genotype_quality=1260.5	ks_quality_p_value=1	log10_base_likelihood=-8.93016	log10_qual_likelihood_position_model=16.5549	log10_strand_likelihood_position_model=6.08761	new_cov=15/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=126/207	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=141/207
RA	479	.	NC_007779	2229341	0	G	T	bias_e_value=0.000455151	bias_p_value=9.79591e-11	fisher_strand_p_value=3.58098e-12	frequency=6.644297e-02	genotype_quality=1152.1	ks_quality_p_value=1	log10_base_likelihood=-14.6886	log10_qual_likelihood_position_model=29.9761	log10_strand_likelihood_position_model=11.5525	new_cov=0/41	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=173/169	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=173/210
RA	480	.	NC_007779	2231556	0	T	G	bias_e_value=0.00025235	bias_p_value=5.43116e-11	fisher_strand_p_value=1.94197e-12	frequency=3.885555e-02	genotype_quality=993.9	ks_quality_p_value=1	log10_base_likelihood=-9.59186	log10_qual_likelihood_position_model=23.772	log10_strand_likelihood_position_model=11.7118	new_cov=27/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=96/188	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/188
RA	481	.	NC_007779	2249963	0	T	G	bias_e_value=2.42417e-06	bias_p_value=5.21738e-13	fisher_strand_p_value=1.59207e-14	frequency=8.666134e-02	genotype_quality=981.9	ks_quality_p_value=1	log10_base_likelihood=-15.3495	log10_qual_likelihood_position_model=42.1867	log10_strand_likelihood_position_model=13.9197	new_cov=45/0	polymorphism_quality=10.0	quality=10.0	quality_position_model=Inf	ref_cov=129/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=175/157
RA	482	.	NC_007779	2251513	0	C	A	bias_e_value=13.352	bias_p_value=2.87366e-06	fisher_strand_p_value=1.73453e-07	frequency=2.651119e-02	genotype_quality=1149.4	ks_quality_p_value=1	log10_base_likelihood=-6.30216	log10_qual_likelihood_position_model=13.9345	log10_strand_likelihood_position_model=6.76082	new_cov=21/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=153/180	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/180
RA	483	.	NC_007779	2254201	0	G	T	bias_e_value=0.00417229	bias_p_value=8.97975e-10	fisher_strand_p_value=3.58447e-11	frequency=4.561329e-02	genotype_quality=1235.7	ks_quality_p_value=1	log10_base_likelihood=-9.36102	log10_qual_likelihood_position_model=25.9764	log10_strand_likelihood_position_model=10.4456	new_cov=0/29	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=205/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=205/173
RA	484	.	NC_007779	2266892	0	G	T	bias_e_value=0.000747062	bias_p_value=1.60785e-10	fisher_strand_p_value=5.99314e-12	frequency=6.495762e-02	genotype_quality=1270.7	ks_quality_p_value=0.999528	log10_base_likelihood=-21.3188	log10_qual_likelihood_position_model=19.9364	log10_strand_likelihood_position_model=11.3625	new_cov=0/36	polymorphism_quality=16.0	quality=16.0	quality_position_model=Inf	ref_cov=202/171	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=202/207
RA	485	.	NC_007779	2271592	0	G	T	bias_e_value=9.49968e-05	bias_p_value=2.04455e-11	fisher_strand_p_value=7.05509e-13	frequency=8.866739e-02	genotype_quality=1343.9	ks_quality_p_value=1	log10_base_likelihood=-26.3159	log10_qual_likelihood_position_model=34.369	log10_strand_likelihood_position_model=12.2493	new_cov=0/45	polymorphism_quality=21.1	quality=21.1	quality_position_model=Inf	ref_cov=172/175	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=173/221
RA	486	.	NC_007779	2278635	0	C	A	bias_e_value=0.0995453	bias_p_value=2.14245e-08	fisher_strand_p_value=9.85587e-10	frequency=5.853176e-02	genotype_quality=1178.1	ks_quality_p_value=1	log10_base_likelihood=-16.2808	log10_qual_likelihood_position_model=22.5292	log10_strand_likelihood_position_model=9.24484	new_cov=33/1	polymorphism_quality=11.0	quality=11.0	quality_position_model=Inf	ref_cov=158/188	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=191/189
RA	487	.	NC_007779	2289845	0	T	C	bias_e_value=3974070	bias_p_value=0.855313	fisher_strand_p_value=0.602218	frequency=8.340836e-03	genotype_quality=1394.8	ks_quality_p_value=0.851592	log10_base_likelihood=-5.72189	log10_qual_likelihood_position_model=1.74388	log10_strand_likelihood_position_model=0.454101	new_cov=2/1	polymorphism_quality=0.2	quality=0.2	quality_position_model=2.43874e-05	ref_cov=166/189	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=168/190
RA	488	.	NC_007779	2290583	0	A	C	bias_e_value=0.00218274	bias_p_value=4.69777e-10	fisher_strand_p_value=1.82606e-11	frequency=5.624676e-02	genotype_quality=1044.1	ks_quality_p_value=1	log10_base_likelihood=-6.50221	log10_qual_likelihood_position_model=27.2724	log10_strand_likelihood_position_model=10.7385	new_cov=0/31	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=174/127	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/159
RA	489	.	NC_007779	2295451	0	C	A	bias_e_value=1175.08	bias_p_value=0.000252904	fisher_strand_p_value=2.1531e-05	frequency=2.699947e-02	genotype_quality=1121.1	ks_quality_p_value=1	log10_base_likelihood=-6.38451	log10_qual_likelihood_position_model=15.1174	log10_strand_likelihood_position_model=4.68439	new_cov=14/1	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=123/199	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/201
RA	490	.	NC_007779	2296303	0	C	A	bias_e_value=1062.02	bias_p_value=0.000228572	fisher_strand_p_value=1.95722e-05	frequency=2.994061e-02	genotype_quality=1174.1	ks_quality_p_value=0.984979	log10_base_likelihood=-7.08253	log10_qual_likelihood_position_model=20.9217	log10_strand_likelihood_position_model=4.88418	new_cov=20/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=195/155	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=215/155
RA	491	.	NC_007779	2307309	0	T	C	bias_e_value=4.45032e-07	bias_p_value=9.57813e-14	fisher_strand_p_value=2.77481e-15	frequency=6.322622e-02	genotype_quality=920.9	ks_quality_p_value=1	log10_base_likelihood=-9.37181	log10_qual_likelihood_position_model=25.6846	log10_strand_likelihood_position_model=14.5568	new_cov=0/24	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=207/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=208/80
RA	492	.	NC_007779	2331120	0	T	G	bias_e_value=3.44255e-25	bias_p_value=7.40917e-32	fisher_strand_p_value=9.61928e-34	frequency=1.404119e-01	genotype_quality=1059.5	ks_quality_p_value=1	log10_base_likelihood=-30.0471	log10_qual_likelihood_position_model=57.7957	log10_strand_likelihood_position_model=33.0169	new_cov=82/0	polymorphism_quality=24.8	quality=24.8	quality_position_model=Inf	ref_cov=95/204	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=179/204
RA	493	.	NC_007779	2332580	0	A	C	bias_e_value=6.16806e-20	bias_p_value=1.32751e-26	fisher_strand_p_value=2.05007e-28	frequency=1.150670e-01	genotype_quality=1035.3	ks_quality_p_value=1	log10_base_likelihood=-21.5516	log10_qual_likelihood_position_model=45.8024	log10_strand_likelihood_position_model=27.6882	new_cov=0/74	polymorphism_quality=16.3	quality=16.3	quality_position_model=Inf	ref_cov=193/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=193/180
RA	494	.	NC_007779	2334630	0	C	A	bias_e_value=0.102971	bias_p_value=2.21618e-08	fisher_strand_p_value=1.02117e-09	frequency=3.857803e-02	genotype_quality=1346.0	ks_quality_p_value=1	log10_base_likelihood=-11.1368	log10_qual_likelihood_position_model=20.959	log10_strand_likelihood_position_model=8.9909	new_cov=25/0	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=161/224	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/224
RA	495	.	NC_007779	2342393	0	A	C	bias_e_value=1.99226e-09	bias_p_value=4.28781e-16	fisher_strand_p_value=1.06991e-17	frequency=5.240059e-02	genotype_quality=1193.4	ks_quality_p_value=1	log10_base_likelihood=-6.30591	log10_qual_likelihood_position_model=33.2472	log10_strand_likelihood_position_model=16.9707	new_cov=0/35	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=235/97	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=235/132
RA	496	.	NC_007779	2348480	0	G	T	bias_e_value=1.23598	bias_p_value=2.66011e-07	fisher_strand_p_value=1.39404e-08	frequency=3.421688e-02	genotype_quality=1280.8	ks_quality_p_value=0.999641	log10_base_likelihood=-7.12185	log10_qual_likelihood_position_model=25.0878	log10_strand_likelihood_position_model=7.85572	new_cov=0/20	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=199/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=199/145
RA	497	.	NC_007779	2353815	0	A	C	bias_e_value=1.5695e-22	bias_p_value=3.37794e-29	fisher_strand_p_value=4.76991e-31	frequency=1.036434e-01	genotype_quality=996.3	ks_quality_p_value=1	log10_base_likelihood=-22.7895	log10_qual_likelihood_position_model=45.26	log10_strand_likelihood_position_model=30.3215	new_cov=0/47	polymorphism_quality=17.5	quality=17.5	quality_position_model=Inf	ref_cov=216/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=216/88
RA	498	.	NC_007779	2354291	0	A	C	bias_e_value=0.673073	bias_p_value=1.44861e-07	fisher_strand_p_value=7.34232e-09	frequency=3.787327e-02	genotype_quality=1253.6	ks_quality_p_value=1	log10_base_likelihood=-6.09949	log10_qual_likelihood_position_model=32.0575	log10_strand_likelihood_position_model=8.1457	new_cov=1/27	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=206/156	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=207/183
RA	499	.	NC_007779	2367165	0	C	A	bias_e_value=20.3816	bias_p_value=4.38659e-06	fisher_strand_p_value=2.72175e-07	frequency=2.561283e-02	genotype_quality=1438.7	ks_quality_p_value=1	log10_base_likelihood=-7.69387	log10_qual_likelihood_position_model=16.0776	log10_strand_likelihood_position_model=6.56515	new_cov=19/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=176/226	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=196/227
RA	500	.	NC_007779	2373239	0	A	C	bias_e_value=3.09548e-09	bias_p_value=6.66221e-16	fisher_strand_p_value=1.68134e-17	frequency=5.603743e-02	genotype_quality=896.8	ks_quality_p_value=1	log10_base_likelihood=-6.80227	log10_qual_likelihood_position_model=29.973	log10_strand_likelihood_position_model=16.7743	new_cov=0/31	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=184/59	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=184/91
RA	501	.	NC_007779	2385359	0	A	.	bias_e_value=4127020	bias_p_value=0.888231	fisher_strand_p_value=0.622696	frequency=9.165764e-03	genotype_quality=1325.0	ks_quality_p_value=0.909193	log10_base_likelihood=-7.75218	log10_qual_likelihood_position_model=1.89663	log10_strand_likelihood_position_model=0.425981	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=2.48455e-07	ref_cov=161/163	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=163/164
RA	502	.	NC_007779	2387486	0	T	A	bias_e_value=2359990	bias_p_value=0.507925	fisher_strand_p_value=0.605563	frequency=8.113861e-03	genotype_quality=1486.7	ks_quality_p_value=0.316136	log10_base_likelihood=-7.04695	log10_qual_likelihood_position_model=2.36672	log10_strand_likelihood_position_model=0.44903	new_cov=2/1	polymorphism_quality=1.5	quality=1.5	quality_position_model=4.40255e-06	ref_cov=173/193	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=175/194
RA	503	.	NC_007779	2395142	0	C	A	bias_e_value=372.32	bias_p_value=8.01319e-05	fisher_strand_p_value=6.16565e-06	frequency=3.100491e-02	genotype_quality=1127.9	ks_quality_p_value=1	log10_base_likelihood=-7.43436	log10_qual_likelihood_position_model=15.7402	log10_strand_likelihood_position_model=5.29116	new_cov=18/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=157/161	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=175/161
RA	504	.	NC_007779	2406075	0	C	T	frequency=1	genotype_quality=1448.2	new_cov=198/165	quality=1448.2	ref_cov=0/0	tot_cov=199/165
RA	505	.	NC_007779	2409404	0	A	C	bias_e_value=9.53456e-05	bias_p_value=2.05206e-11	fisher_strand_p_value=7.08192e-13	frequency=8.915329e-02	genotype_quality=1003.7	ks_quality_p_value=1	log10_base_likelihood=-22.6529	log10_qual_likelihood_position_model=29.4128	log10_strand_likelihood_position_model=12.3137	new_cov=0/38	polymorphism_quality=17.4	quality=17.4	quality_position_model=Inf	ref_cov=164/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=164/168
RA	506	.	NC_007779	2410289	0	T	A	bias_e_value=41856.8	bias_p_value=0.00900858	fisher_strand_p_value=0.00116115	frequency=2.206898e-02	genotype_quality=1304.0	ks_quality_p_value=1	log10_base_likelihood=-7.17512	log10_qual_likelihood_position_model=14.896	log10_strand_likelihood_position_model=2.93511	new_cov=0/9	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=179/155	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=179/164
RA	507	.	NC_007779	2410316	0	A	C	bias_e_value=6.67254e-05	bias_p_value=1.43609e-11	fisher_strand_p_value=4.89369e-13	frequency=6.178379e-02	genotype_quality=1000.5	ks_quality_p_value=1	log10_base_likelihood=-22.5469	log10_qual_likelihood_position_model=27.9127	log10_strand_likelihood_position_model=12.3104	new_cov=0/36	polymorphism_quality=17.3	quality=17.3	quality_position_model=Inf	ref_cov=170/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=170/163
RA	508	.	NC_007779	2416102	0	G	A	frequency=1	genotype_quality=1364.6	new_cov=146/201	quality=1364.6	ref_cov=0/0	tot_cov=146/201
RA	509	.	NC_007779	2417605	0	C	A	bias_e_value=8.56994e-08	bias_p_value=1.84445e-14	fisher_strand_p_value=9.63351e-16	frequency=1.148038e-01	genotype_quality=1000.5	ks_quality_p_value=0.528704	log10_base_likelihood=-37.2638	log10_qual_likelihood_position_model=43.609	log10_strand_likelihood_position_model=15.0502	new_cov=53/0	polymorphism_quality=32.1	quality=32.1	quality_position_model=Inf	ref_cov=142/155	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=195/155
RA	510	.	NC_007779	2418805	1	.	A	bias_e_value=3254430	bias_p_value=0.70043	fisher_strand_p_value=0.498687	frequency=5.633354e-03	genotype_quality=1767.5	ks_quality_p_value=0.670053	log10_base_likelihood=-7.99232	log10_qual_likelihood_position_model=2.18754	log10_strand_likelihood_position_model=0.591106	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=4.16246e-07	ref_cov=178/175	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=180/175
RA	511	.	NC_007779	2426889	0	A	C	bias_e_value=1.0242e-09	bias_p_value=2.20432e-16	fisher_strand_p_value=5.40822e-18	frequency=5.004787e-02	genotype_quality=789.0	ks_quality_p_value=1	log10_base_likelihood=-8.21445	log10_qual_likelihood_position_model=25.7963	log10_strand_likelihood_position_model=17.2669	new_cov=0/19	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=180/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=180/35
RA	512	.	NC_007779	2465370	0	C	A	bias_e_value=79.4327	bias_p_value=1.70958e-05	fisher_strand_p_value=1.166e-06	frequency=3.031349e-02	genotype_quality=940.6	ks_quality_p_value=1	log10_base_likelihood=-11.7014	log10_qual_likelihood_position_model=12.0638	log10_strand_likelihood_position_model=5.9333	new_cov=0/9	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=185/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=185/56
RA	513	.	NC_007779	2468326	1	.	C	bias_e_value=3458540	bias_p_value=0.74436	fisher_strand_p_value=1	frequency=5.865097e-03	genotype_quality=1617.9	ks_quality_p_value=0.376583	log10_base_likelihood=-7.87527	log10_qual_likelihood_position_model=2.07301	log10_strand_likelihood_position_model=0.311202	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.14523e-07	ref_cov=142/197	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/198
RA	514	.	NC_007779	2468327	0	C	.	bias_e_value=4536570	bias_p_value=0.976377	fisher_strand_p_value=1	frequency=3.497505e-02	genotype_quality=1396.8	ks_quality_p_value=0.790665	log10_base_likelihood=-38.2643	log10_qual_likelihood_position_model=4.20294	log10_strand_likelihood_position_model=0.633319	new_cov=5/7	polymorphism_quality=33.1	quality=33.1	quality_position_model=1.0357e-35	ref_cov=139/192	reject=INDEL_HOMOPOLYMER	tot_cov=144/199
RA	515	.	NC_007779	2475172	0	T	.	bias_e_value=1349630	bias_p_value=0.290472	fisher_strand_p_value=0.148471	frequency=1.842403e-02	genotype_quality=879.8	ks_quality_p_value=0.561447	log10_base_likelihood=-11.5344	log10_qual_likelihood_position_model=1.91354	log10_strand_likelihood_position_model=0.911792	new_cov=4/0	polymorphism_quality=6.1	quality=6.1	quality_position_model=1.04429e-10	ref_cov=125/88	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/88
RA	516	.	NC_007779	2476279	0	C	G	bias_e_value=689784	bias_p_value=0.148458	fisher_strand_p_value=0.0338858	frequency=1.753139e-02	genotype_quality=1311.0	ks_quality_p_value=0.998926	log10_base_likelihood=-6.6559	log10_qual_likelihood_position_model=8.92778	log10_strand_likelihood_position_model=1.58982	new_cov=0/6	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=145/169	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=145/175
RA	517	.	NC_007779	2476287	0	T	G	bias_e_value=794982	bias_p_value=0.171099	fisher_strand_p_value=0.0407302	frequency=1.559448e-02	genotype_quality=1197.8	ks_quality_p_value=1	log10_base_likelihood=-11.0002	log10_qual_likelihood_position_model=8.97191	log10_strand_likelihood_position_model=1.5695	new_cov=1/8	polymorphism_quality=5.6	quality=5.6	quality_position_model=0.0685772	ref_cov=148/164	reject=POLYMORPHISM_STRAND	tot_cov=149/173
RA	518	.	NC_007779	2476289	0	A	T	bias_e_value=1102450	bias_p_value=0.237274	fisher_strand_p_value=0.0630372	frequency=1.334667e-02	genotype_quality=1209.4	ks_quality_p_value=1	log10_base_likelihood=-5.60426	log10_qual_likelihood_position_model=6.83963	log10_strand_likelihood_position_model=1.38341	new_cov=0/5	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=147/162	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=147/167
RA	519	.	NC_007779	2478675	0	C	A	bias_e_value=1.02229e-06	bias_p_value=2.20022e-13	fisher_strand_p_value=6.53632e-15	frequency=7.249975e-02	genotype_quality=1191.8	ks_quality_p_value=1	log10_base_likelihood=-16.1094	log10_qual_likelihood_position_model=26.4672	log10_strand_likelihood_position_model=14.1847	new_cov=41/0	polymorphism_quality=10.8	quality=10.8	quality_position_model=Inf	ref_cov=143/199	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=184/199
RA	520	.	NC_007779	2519319	0	T	G	bias_e_value=0.408688	bias_p_value=8.79593e-08	fisher_strand_p_value=4.34264e-09	frequency=4.307556e-02	genotype_quality=1195.0	ks_quality_p_value=1	log10_base_likelihood=-7.60996	log10_qual_likelihood_position_model=29.2724	log10_strand_likelihood_position_model=8.36225	new_cov=25/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=151/190	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=176/190
RA	521	.	NC_007779	2519636	0	C	T	bias_e_value=4310590	bias_p_value=0.927741	fisher_strand_p_value=0.67247	frequency=1.163960e-02	genotype_quality=1764.7	ks_quality_p_value=0.958829	log10_base_likelihood=-7.04679	log10_qual_likelihood_position_model=5.25206	log10_strand_likelihood_position_model=0.52634	new_cov=3/2	polymorphism_quality=1.5	quality=1.5	quality_position_model=0.00685294	ref_cov=198/219	reject=EVALUE	tot_cov=201/221
RA	522	.	NC_007779	2536601	0	T	G	bias_e_value=0.0850181	bias_p_value=1.82979e-08	fisher_strand_p_value=8.35402e-10	frequency=5.856705e-02	genotype_quality=1185.9	ks_quality_p_value=1	log10_base_likelihood=-10.7215	log10_qual_likelihood_position_model=35.3836	log10_strand_likelihood_position_model=9.19364	new_cov=31/1	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=148/191	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=179/192
RA	523	.	NC_007779	2538628	0	C	T	frequency=1	genotype_quality=1523.0	new_cov=190/189	quality=1523.0	ref_cov=0/1	tot_cov=190/191
RA	524	.	NC_007779	2556426	0	G	T	bias_e_value=7.50551e-05	bias_p_value=1.61536e-11	fisher_strand_p_value=6.8409e-13	frequency=5.961180e-02	genotype_quality=1195.3	ks_quality_p_value=0.808014	log10_base_likelihood=-17.8737	log10_qual_likelihood_position_model=37.6811	log10_strand_likelihood_position_model=12.1649	new_cov=0/36	polymorphism_quality=12.6	quality=12.6	quality_position_model=Inf	ref_cov=199/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=200/188
RA	525	.	NC_007779	2568924	1	.	G	bias_e_value=1983540	bias_p_value=0.426905	fisher_strand_p_value=0.220978	frequency=6.825447e-03	genotype_quality=1438.3	ks_quality_p_value=0.660651	log10_base_likelihood=-7.83539	log10_qual_likelihood_position_model=0.741919	log10_strand_likelihood_position_model=0.655651	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=2.25077e-08	ref_cov=136/155	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=138/155
RA	526	.	NC_007779	2577495	1	.	A	bias_e_value=2730440	bias_p_value=0.587655	fisher_strand_p_value=0.304254	frequency=1.123619e-02	genotype_quality=1722.5	ks_quality_p_value=0.800732	log10_base_likelihood=-16.7955	log10_qual_likelihood_position_model=2.23666	log10_strand_likelihood_position_model=0.832921	new_cov=1/3	polymorphism_quality=11.5	quality=11.5	quality_position_model=8.06846e-16	ref_cov=215/137	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=216/140
RA	527	.	NC_007779	2581900	0	G	T	bias_e_value=1.73987	bias_p_value=3.7446e-07	fisher_strand_p_value=1.99949e-08	frequency=4.847288e-02	genotype_quality=1250.8	ks_quality_p_value=1	log10_base_likelihood=-14.2758	log10_qual_likelihood_position_model=18.0695	log10_strand_likelihood_position_model=7.69908	new_cov=0/24	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=196/167	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=196/191
RA	528	.	NC_007779	2601998	0	A	C	bias_e_value=2.47364e-14	bias_p_value=5.32386e-21	fisher_strand_p_value=1.03123e-22	frequency=1.133919e-01	genotype_quality=809.7	ks_quality_p_value=1	log10_base_likelihood=-36.1176	log10_qual_likelihood_position_model=32.3287	log10_strand_likelihood_position_model=21.9866	new_cov=0/30	polymorphism_quality=31.0	quality=31.0	quality_position_model=Inf	ref_cov=178/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=178/56
RA	529	.	NC_007779	2612636	1	.	G	bias_e_value=2452610	bias_p_value=0.52786	fisher_strand_p_value=0.207068	frequency=5.523682e-03	genotype_quality=1758.3	ks_quality_p_value=0.983894	log10_base_likelihood=-6.59946	log10_qual_likelihood_position_model=3.40021	log10_strand_likelihood_position_model=0.683888	new_cov=2/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=0.000289049	ref_cov=163/197	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=165/197
RA	530	.	NC_007779	2614764	1	.	A	bias_e_value=2559670	bias_p_value=0.550901	fisher_strand_p_value=0.502531	frequency=6.230354e-03	genotype_quality=1589.8	ks_quality_p_value=0.434889	log10_base_likelihood=-7.86592	log10_qual_likelihood_position_model=1.5231	log10_strand_likelihood_position_model=0.528068	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=9.912e-08	ref_cov=173/146	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=175/146
RA	531	.	NC_007779	2616347	0	A	C	bias_e_value=5.58036e-13	bias_p_value=1.20102e-19	fisher_strand_p_value=2.47908e-21	frequency=8.233500e-02	genotype_quality=742.6	ks_quality_p_value=1	log10_base_likelihood=-9.94471	log10_qual_likelihood_position_model=36.0681	log10_strand_likelihood_position_model=20.6057	new_cov=0/42	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=149/51	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=149/93
RA	532	.	NC_007779	2618857	0	A	.	bias_e_value=2623780	bias_p_value=0.564699	fisher_strand_p_value=1	frequency=1.411629e-02	genotype_quality=1424.1	ks_quality_p_value=0.227744	log10_base_likelihood=-13.9762	log10_qual_likelihood_position_model=2.02748	log10_strand_likelihood_position_model=0.459084	new_cov=2/3	polymorphism_quality=8.6	quality=8.6	quality_position_model=1.51517e-13	ref_cov=135/214	reject=INDEL_HOMOPOLYMER	tot_cov=137/217
RA	533	.	NC_007779	2619555	1	.	A	bias_e_value=4563210	bias_p_value=0.982109	fisher_strand_p_value=1	frequency=5.899429e-03	genotype_quality=1674.4	ks_quality_p_value=0.816902	log10_base_likelihood=-7.94391	log10_qual_likelihood_position_model=1.44718	log10_strand_likelihood_position_model=0.308176	new_cov=1/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=4.07066e-08	ref_cov=145/192	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=146/193
RA	534	.	NC_007779	2623159	0	T	G	bias_e_value=1.40175e-40	bias_p_value=3.0169e-47	fisher_strand_p_value=2.67354e-49	frequency=2.275410e-01	genotype_quality=918.5	ks_quality_p_value=1	log10_base_likelihood=-58.5764	log10_qual_likelihood_position_model=69.019	log10_strand_likelihood_position_model=48.5729	new_cov=100/0	polymorphism_quality=53.5	quality=53.5	quality_position_model=Inf	ref_cov=50/195	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/195
RA	535	.	NC_007779	2623173	0	G	T	bias_e_value=0.046824	bias_p_value=1.00776e-08	fisher_strand_p_value=4.482e-10	frequency=5.598354e-02	genotype_quality=1200.8	ks_quality_p_value=0.998091	log10_base_likelihood=-10.346	log10_qual_likelihood_position_model=20.9825	log10_strand_likelihood_position_model=9.34853	new_cov=27/0	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=138/185	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=166/185
RA	536	.	NC_007779	2641345	0	T	G	bias_e_value=1.97304e-07	bias_p_value=4.24644e-14	fisher_strand_p_value=1.20107e-15	frequency=3.850174e-02	genotype_quality=935.7	ks_quality_p_value=1	log10_base_likelihood=-11.6626	log10_qual_likelihood_position_model=21.4506	log10_strand_likelihood_position_model=14.9204	new_cov=18/0	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=28/213	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=46/213
RA	537	.	NC_007779	2648595	0	A	C	bias_e_value=2.07079e-11	bias_p_value=4.45684e-18	fisher_strand_p_value=9.95869e-20	frequency=6.763601e-02	genotype_quality=807.9	ks_quality_p_value=1	log10_base_likelihood=-13.5602	log10_qual_likelihood_position_model=25.8961	log10_strand_likelihood_position_model=19.0018	new_cov=0/19	polymorphism_quality=8.2	quality=8.2	quality_position_model=Inf	ref_cov=191/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=191/31
RA	538	.	NC_007779	2649087	0	C	T	bias_e_value=900527	bias_p_value=0.193815	fisher_strand_p_value=0.051752	frequency=1.146889e-02	genotype_quality=1388.9	ks_quality_p_value=0.927882	log10_base_likelihood=-5.91851	log10_qual_likelihood_position_model=2.82096	log10_strand_likelihood_position_model=1.28607	new_cov=4/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=0.00168555	ref_cov=158/176	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=162/176
RA	539	.	NC_007779	2652791	1	.	C	bias_e_value=2337080	bias_p_value=0.502995	fisher_strand_p_value=0.202688	frequency=5.601883e-03	genotype_quality=1754.8	ks_quality_p_value=0.929862	log10_base_likelihood=-7.43423	log10_qual_likelihood_position_model=3.24679	log10_strand_likelihood_position_model=0.693172	new_cov=2/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=2.62093e-05	ref_cov=159/196	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=161/196
RA	540	.	NC_007779	2652801	0	G	T	bias_e_value=85962.5	bias_p_value=0.0185012	fisher_strand_p_value=0.00267162	frequency=1.505661e-02	genotype_quality=1455.0	ks_quality_p_value=1	log10_base_likelihood=-5.71507	log10_qual_likelihood_position_model=12.678	log10_strand_likelihood_position_model=2.57323	new_cov=7/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=150/205	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=157/205
RA	541	.	NC_007779	2676695	0	T	G	bias_e_value=2.15577e-11	bias_p_value=4.63972e-18	fisher_strand_p_value=1.03769e-19	frequency=7.856941e-02	genotype_quality=944.1	ks_quality_p_value=1	log10_base_likelihood=-14.7722	log10_qual_likelihood_position_model=54.2802	log10_strand_likelihood_position_model=18.9839	new_cov=47/0	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=86/167	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/167
RA	542	.	NC_007779	2680638	0	G	T	bias_e_value=13.2696	bias_p_value=2.85593e-06	fisher_strand_p_value=1.72375e-07	frequency=3.247356e-02	genotype_quality=1200.3	ks_quality_p_value=0.999649	log10_base_likelihood=-6.55491	log10_qual_likelihood_position_model=28.7736	log10_strand_likelihood_position_model=6.86241	new_cov=0/25	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=177/188	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=177/213
RA	543	.	NC_007779	2703542	0	G	T	bias_e_value=4.24414	bias_p_value=9.13439e-07	fisher_strand_p_value=5.13619e-08	frequency=3.747654e-02	genotype_quality=1194.4	ks_quality_p_value=1	log10_base_likelihood=-7.45631	log10_qual_likelihood_position_model=20.2803	log10_strand_likelihood_position_model=7.57027	new_cov=0/30	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=168/198	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=168/229
RA	544	.	NC_007779	2706106	0	A	C	bias_e_value=1.84462e-06	bias_p_value=3.97005e-13	fisher_strand_p_value=1.20112e-14	frequency=4.583931e-02	genotype_quality=1051.5	ks_quality_p_value=1	log10_base_likelihood=-5.855	log10_qual_likelihood_position_model=30.1517	log10_strand_likelihood_position_model=13.9204	new_cov=0/36	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=188/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=188/149
RA	545	.	NC_007779	2715312	0	T	.	bias_e_value=4152900	bias_p_value=0.893802	fisher_strand_p_value=0.601245	frequency=8.396149e-03	genotype_quality=1429.7	ks_quality_p_value=0.958171	log10_base_likelihood=-7.85763	log10_qual_likelihood_position_model=2.95192	log10_strand_likelihood_position_model=0.455647	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.59882e-06	ref_cov=189/165	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=190/167
RA	546	.	NC_007779	2717242	0	G	T	bias_e_value=7.72374	bias_p_value=1.66233e-06	fisher_strand_p_value=1.14936e-07	frequency=2.927589e-02	genotype_quality=1414.5	ks_quality_p_value=0.843368	log10_base_likelihood=-9.1815	log10_qual_likelihood_position_model=26.7087	log10_strand_likelihood_position_model=6.93954	new_cov=0/22	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=216/191	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=216/213
RA	547	.	NC_007779	2733191	1	.	C	bias_e_value=3303450	bias_p_value=0.71098	fisher_strand_p_value=1	frequency=5.509377e-03	genotype_quality=1728.4	ks_quality_p_value=0.3439	log10_base_likelihood=-7.79557	log10_qual_likelihood_position_model=1.35131	log10_strand_likelihood_position_model=0.299914	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=4.52206e-08	ref_cov=183/178	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=184/179
RA	548	.	NC_007779	2733192	0	C	.	bias_e_value=3175350	bias_p_value=0.683409	fisher_strand_p_value=1	frequency=7.993698e-03	genotype_quality=1564.9	ks_quality_p_value=0.31894	log10_base_likelihood=-8.06949	log10_qual_likelihood_position_model=1.92116	log10_strand_likelihood_position_model=0.423649	new_cov=2/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.22858e-07	ref_cov=186/186	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=188/187
RA	549	.	NC_007779	2756310	1	.	T	bias_e_value=4518520	bias_p_value=0.972491	fisher_strand_p_value=1	frequency=6.802559e-03	genotype_quality=1461.3	ks_quality_p_value=0.774801	log10_base_likelihood=-8.08013	log10_qual_likelihood_position_model=0.971522	log10_strand_likelihood_position_model=0.305398	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=9.45442e-09	ref_cov=129/163	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/164
RA	550	.	NC_007779	2757983	1	.	A	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=4.895210e-03	genotype_quality=2033.7	ks_quality_p_value=1	log10_base_likelihood=-6.04746	log10_qual_likelihood_position_model=3.11988	log10_strand_likelihood_position_model=0.299964	new_cov=1/1	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.000218964	ref_cov=203/203	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=204/204
RA	551	.	NC_007779	2791635	0	C	T	bias_e_value=0.000270105	bias_p_value=5.81329e-11	fisher_strand_p_value=2.08386e-12	frequency=7.547855e-02	genotype_quality=866.6	ks_quality_p_value=1	log10_base_likelihood=-6.69418	log10_qual_likelihood_position_model=24.3654	log10_strand_likelihood_position_model=11.6811	new_cov=0/31	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=154/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/128
RA	552	.	NC_007779	2797644	0	C	A	bias_e_value=859.197	bias_p_value=0.000184919	fisher_strand_p_value=1.53003e-05	frequency=2.429581e-02	genotype_quality=1447.7	ks_quality_p_value=0.999854	log10_base_likelihood=-7.32208	log10_qual_likelihood_position_model=11.7573	log10_strand_likelihood_position_model=4.8153	new_cov=0/11	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=247/136	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=247/147
RA	553	.	NC_007779	2815240	1	.	A	bias_e_value=876758	bias_p_value=0.188699	fisher_strand_p_value=0.614791	frequency=9.202003e-03	genotype_quality=1599.8	ks_quality_p_value=0.0753827	log10_base_likelihood=-12.599	log10_qual_likelihood_position_model=2.18182	log10_strand_likelihood_position_model=0.435754	new_cov=1/2	polymorphism_quality=7.2	quality=7.2	quality_position_model=5.22515e-12	ref_cov=166/157	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=167/159
RA	554	.	NC_007779	2816615	0	G	C	bias_e_value=3.16986	bias_p_value=6.82228e-07	fisher_strand_p_value=4.19217e-08	frequency=3.527832e-02	genotype_quality=1098.3	ks_quality_p_value=0.899433	log10_base_likelihood=-10.0082	log10_qual_likelihood_position_model=21.6257	log10_strand_likelihood_position_model=7.37756	new_cov=17/0	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=110/204	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/204
RA	555	.	NC_007779	2817030	0	G	C	bias_e_value=2.60888e-11	bias_p_value=5.61493e-18	fisher_strand_p_value=1.51253e-19	frequency=1.097832e-01	genotype_quality=973.1	ks_quality_p_value=0.833901	log10_base_likelihood=-38.0267	log10_qual_likelihood_position_model=40.77	log10_strand_likelihood_position_model=18.8203	new_cov=38/0	polymorphism_quality=32.9	quality=32.9	quality_position_model=Inf	ref_cov=73/195	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/196
RA	556	.	NC_007779	2828140	1	.	A	bias_e_value=4184290	bias_p_value=0.900557	fisher_strand_p_value=0.604283	frequency=7.915497e-03	genotype_quality=1873.4	ks_quality_p_value=0.974028	log10_base_likelihood=-12.1583	log10_qual_likelihood_position_model=1.66076	log10_strand_likelihood_position_model=0.451048	new_cov=2/1	polymorphism_quality=6.8	quality=6.8	quality_position_model=4.48415e-12	ref_cov=177/199	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=179/200
RA	557	.	NC_007779	2833875	0	A	C	bias_e_value=1.3515e-05	bias_p_value=2.90874e-12	fisher_strand_p_value=9.38389e-14	frequency=4.500008e-02	genotype_quality=1144.0	ks_quality_p_value=1	log10_base_likelihood=-8.166	log10_qual_likelihood_position_model=37.4796	log10_strand_likelihood_position_model=13.0276	new_cov=0/37	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=188/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=188/169
RA	558	.	NC_007779	2833989	0	A	C	bias_e_value=2.56641e-19	bias_p_value=5.52352e-26	fisher_strand_p_value=8.72509e-28	frequency=8.437347e-02	genotype_quality=1018.1	ks_quality_p_value=1	log10_base_likelihood=-18.0568	log10_qual_likelihood_position_model=42.7043	log10_strand_likelihood_position_model=27.0592	new_cov=0/41	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=220/42	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=220/83
RA	559	.	NC_007779	2847445	0	G	T	bias_e_value=3.6116e-10	bias_p_value=7.77302e-17	fisher_strand_p_value=1.85838e-18	frequency=1.043334e-01	genotype_quality=1173.3	ks_quality_p_value=1	log10_base_likelihood=-32.3415	log10_qual_likelihood_position_model=30.0828	log10_strand_likelihood_position_model=17.7309	new_cov=0/51	polymorphism_quality=27.2	quality=27.2	quality_position_model=Inf	ref_cov=200/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=200/189
RA	560	.	NC_007779	2862783	1	.	T	bias_e_value=3966470	bias_p_value=0.853677	fisher_strand_p_value=0.511036	frequency=5.846024e-03	genotype_quality=1698.2	ks_quality_p_value=0.998762	log10_base_likelihood=-6.07922	log10_qual_likelihood_position_model=4.46472	log10_strand_likelihood_position_model=0.475649	new_cov=0/2	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.0096678	ref_cov=144/196	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=144/198
RA	561	.	NC_007779	2866111	0	A	G	frequency=1	genotype_quality=1652.6	new_cov=162/218	quality=1652.6	ref_cov=0/0	tot_cov=162/218
RA	562	.	NC_007779	2868094	0	C	A	bias_e_value=1.0336e-10	bias_p_value=2.22456e-17	fisher_strand_p_value=5.16042e-19	frequency=1.256471e-01	genotype_quality=1193.3	ks_quality_p_value=1	log10_base_likelihood=-39.0534	log10_qual_likelihood_position_model=35.5528	log10_strand_likelihood_position_model=18.3094	new_cov=61/0	polymorphism_quality=33.9	quality=33.9	quality_position_model=Inf	ref_cov=156/185	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=218/185
RA	563	.	NC_007779	2895131	0	A	C	bias_e_value=2.38193e-15	bias_p_value=5.12647e-22	fisher_strand_p_value=9.49142e-24	frequency=1.368508e-01	genotype_quality=849.0	ks_quality_p_value=1	log10_base_likelihood=-28.7141	log10_qual_likelihood_position_model=54.346	log10_strand_likelihood_position_model=23.0227	new_cov=0/55	polymorphism_quality=23.5	quality=23.5	quality_position_model=Inf	ref_cov=156/70	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=156/125
RA	564	.	NC_007779	2898837	0	G	T	bias_e_value=2.95755e-05	bias_p_value=6.36535e-12	fisher_strand_p_value=2.1086e-13	frequency=4.942751e-02	genotype_quality=1415.2	ks_quality_p_value=1	log10_base_likelihood=-15.2073	log10_qual_likelihood_position_model=24.4458	log10_strand_likelihood_position_model=12.676	new_cov=0/32	polymorphism_quality=9.9	quality=9.9	quality_position_model=Inf	ref_cov=243/147	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=243/180
RA	565	.	NC_007779	2898954	0	A	.	bias_e_value=3979980	bias_p_value=0.856585	fisher_strand_p_value=0.612927	frequency=8.189201e-03	genotype_quality=1470.2	ks_quality_p_value=0.83983	log10_base_likelihood=-7.77562	log10_qual_likelihood_position_model=1.03283	log10_strand_likelihood_position_model=0.438536	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=3.09159e-08	ref_cov=175/187	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=178/188
RA	566	.	NC_007779	2902981	1	.	C	bias_e_value=1955820	bias_p_value=0.420938	fisher_strand_p_value=0.146498	frequency=6.042480e-03	genotype_quality=1635.5	ks_quality_p_value=0.975475	log10_base_likelihood=-8.26451	log10_qual_likelihood_position_model=3.18101	log10_strand_likelihood_position_model=0.834168	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=4.21424e-06	ref_cov=125/204	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/204
RA	567	.	NC_007779	2905200	0	C	G	bias_e_value=5.35785	bias_p_value=1.15314e-06	fisher_strand_p_value=6.57531e-08	frequency=3.120899e-02	genotype_quality=879.8	ks_quality_p_value=1	log10_base_likelihood=-10.1098	log10_qual_likelihood_position_model=8.7692	log10_strand_likelihood_position_model=7.18208	new_cov=8/0	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=24/196	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=32/196
RA	568	.	NC_007779	2911644	0	G	T	bias_e_value=0.357573	bias_p_value=7.69581e-08	fisher_strand_p_value=4.07055e-09	frequency=5.321646e-02	genotype_quality=1121.8	ks_quality_p_value=0.926983	log10_base_likelihood=-9.62407	log10_qual_likelihood_position_model=30.5031	log10_strand_likelihood_position_model=8.41523	new_cov=1/30	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=179/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=180/179
RA	569	.	NC_007779	2926157	0	T	G	bias_e_value=2.55847e-26	bias_p_value=5.50643e-33	fisher_strand_p_value=6.91267e-35	frequency=8.221579e-02	genotype_quality=943.7	ks_quality_p_value=1	log10_base_likelihood=-11.7078	log10_qual_likelihood_position_model=43.9361	log10_strand_likelihood_position_model=34.1604	new_cov=41/0	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=19/220	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=61/220
RA	570	.	NC_007779	2939008	0	A	C	bias_e_value=1.06573	bias_p_value=2.29371e-07	fisher_strand_p_value=1.19183e-08	frequency=3.701687e-02	genotype_quality=1250.9	ks_quality_p_value=1	log10_base_likelihood=-8.82171	log10_qual_likelihood_position_model=22.7612	log10_strand_likelihood_position_model=7.92378	new_cov=0/23	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=208/160	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=209/183
RA	571	.	NC_007779	2942972	0	G	T	bias_e_value=0.229191	bias_p_value=4.93273e-08	fisher_strand_p_value=2.75395e-09	frequency=2.715778e-02	genotype_quality=1215.4	ks_quality_p_value=0.858537	log10_base_likelihood=-6.3163	log10_qual_likelihood_position_model=26.6392	log10_strand_likelihood_position_model=8.56004	new_cov=0/24	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=199/144	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=199/168
RA	572	.	NC_007779	2945991	1	.	A	bias_e_value=2029730	bias_p_value=0.436846	fisher_strand_p_value=0.206378	frequency=5.618095e-03	genotype_quality=1749.5	ks_quality_p_value=0.732653	log10_base_likelihood=-7.91014	log10_qual_likelihood_position_model=1.26359	log10_strand_likelihood_position_model=0.685337	new_cov=0/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=6.99246e-08	ref_cov=194/160	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=194/162
RA	573	.	NC_007779	2953753	0	C	.	bias_e_value=3996940	bias_p_value=0.860236	fisher_strand_p_value=0.622063	frequency=7.784843e-03	genotype_quality=1552.4	ks_quality_p_value=0.836406	log10_base_likelihood=-7.71668	log10_qual_likelihood_position_model=1.31637	log10_strand_likelihood_position_model=0.427128	new_cov=1/2	polymorphism_quality=2.2	quality=2.2	quality_position_model=6.79599e-08	ref_cov=192/189	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=193/192
RA	574	.	NC_007779	2974757	1	.	A	bias_e_value=1022110	bias_p_value=0.219981	fisher_strand_p_value=0.499545	frequency=4.950523e-03	genotype_quality=2008.8	ks_quality_p_value=0.113889	log10_base_likelihood=-7.82899	log10_qual_likelihood_position_model=1.71809	log10_strand_likelihood_position_model=0.569321	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.90151e-07	ref_cov=208/194	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=210/194
RA	575	.	NC_007779	2974959	1	.	A	bias_e_value=4083650	bias_p_value=0.878898	fisher_strand_p_value=0.615496	frequency=7.711411e-03	genotype_quality=1905.9	ks_quality_p_value=0.893825	log10_base_likelihood=-11.9693	log10_qual_likelihood_position_model=1.73238	log10_strand_likelihood_position_model=0.435303	new_cov=1/2	polymorphism_quality=6.6	quality=6.6	quality_position_model=7.97439e-12	ref_cov=198/188	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=199/190
RA	576	.	NC_007779	2983097	0	A	C	bias_e_value=1.65525e-07	bias_p_value=3.5625e-14	fisher_strand_p_value=1.0025e-15	frequency=3.770447e-02	genotype_quality=1029.3	ks_quality_p_value=1	log10_base_likelihood=-7.7454	log10_qual_likelihood_position_model=43.0414	log10_strand_likelihood_position_model=14.9989	new_cov=0/36	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=193/102	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=193/139
RA	577	.	NC_007779	2987971	1	.	A	bias_e_value=1854270	bias_p_value=0.399083	fisher_strand_p_value=0.158007	frequency=7.117271e-03	genotype_quality=1393.3	ks_quality_p_value=0.834746	log10_base_likelihood=-7.76872	log10_qual_likelihood_position_model=2.68635	log10_strand_likelihood_position_model=0.801323	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=3.90412e-06	ref_cov=110/169	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/169
RA	578	.	NC_007779	2994409	1	.	T	bias_e_value=3869550	bias_p_value=0.832818	fisher_strand_p_value=1	frequency=9.287834e-03	genotype_quality=1597.3	ks_quality_p_value=0.480699	log10_base_likelihood=-12.6115	log10_qual_likelihood_position_model=1.57785	log10_strand_likelihood_position_model=0.401154	new_cov=2/1	polymorphism_quality=7.2	quality=7.2	quality_position_model=1.13195e-12	ref_cov=169/151	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=171/152
RA	579	.	NC_007779	2994664	0	T	.	bias_e_value=1169660	bias_p_value=0.251739	fisher_strand_p_value=0.359578	frequency=1.103973e-02	genotype_quality=1465.9	ks_quality_p_value=0.190082	log10_base_likelihood=-10.3997	log10_qual_likelihood_position_model=2.82275	log10_strand_likelihood_position_model=0.62694	new_cov=3/1	polymorphism_quality=5.0	quality=5.0	quality_position_model=6.67508e-09	ref_cov=173/185	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=176/186
RA	580	.	NC_007779	2998838	1	.	T	bias_e_value=2591110	bias_p_value=0.557668	fisher_strand_p_value=1	frequency=5.405426e-03	genotype_quality=1834.0	ks_quality_p_value=0.223025	log10_base_likelihood=-7.78977	log10_qual_likelihood_position_model=1.65927	log10_strand_likelihood_position_model=0.300312	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=9.55384e-08	ref_cov=190/178	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=191/179
RA	581	.	NC_007779	2999820	0	A	C	bias_e_value=1.86023e-11	bias_p_value=4.00365e-18	fisher_strand_p_value=8.92418e-20	frequency=6.814528e-02	genotype_quality=949.0	ks_quality_p_value=1	log10_base_likelihood=-10.9049	log10_qual_likelihood_position_model=31.5475	log10_strand_likelihood_position_model=19.0494	new_cov=0/35	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=193/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=193/95
RA	582	.	NC_007779	3003330	0	G	A	frequency=1	genotype_quality=1427.4	new_cov=179/174	quality=1427.4	ref_cov=0/0	tot_cov=179/174
RA	583	.	NC_007779	3008471	0	G	T	bias_e_value=48921.4	bias_p_value=0.010529	fisher_strand_p_value=0.00154658	frequency=2.002048e-02	genotype_quality=1162.4	ks_quality_p_value=0.898264	log10_base_likelihood=-6.18231	log10_qual_likelihood_position_model=15.6959	log10_strand_likelihood_position_model=3.12214	new_cov=0/12	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=162/191	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=162/203
RA	584	.	NC_007779	3029385	0	C	A	bias_e_value=0.00579102	bias_p_value=1.24636e-09	fisher_strand_p_value=5.05162e-11	frequency=4.180050e-02	genotype_quality=1089.8	ks_quality_p_value=0.998475	log10_base_likelihood=-15.139	log10_qual_likelihood_position_model=20.3388	log10_strand_likelihood_position_model=10.2966	new_cov=0/15	polymorphism_quality=9.8	quality=9.8	quality_position_model=Inf	ref_cov=223/50	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=223/65
RA	585	.	NC_007779	3031146	0	C	A	bias_e_value=145.832	bias_p_value=3.13864e-05	fisher_strand_p_value=2.24047e-06	frequency=2.917194e-02	genotype_quality=1156.9	ks_quality_p_value=1	log10_base_likelihood=-6.94365	log10_qual_likelihood_position_model=17.0893	log10_strand_likelihood_position_model=5.92572	new_cov=19/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=151/169	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=170/169
RA	586	.	NC_007779	3034413	0	A	C	bias_e_value=7.08278e-25	bias_p_value=1.52438e-31	fisher_strand_p_value=1.99806e-33	frequency=1.208758e-01	genotype_quality=949.2	ks_quality_p_value=1	log10_base_likelihood=-28.4641	log10_qual_likelihood_position_model=50.5682	log10_strand_likelihood_position_model=32.6994	new_cov=0/62	polymorphism_quality=23.3	quality=23.3	quality_position_model=Inf	ref_cov=199/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=199/118
RA	587	.	NC_007779	3035390	0	T	C	bias_e_value=5.5289e-10	bias_p_value=1.18995e-16	fisher_strand_p_value=2.87494e-18	frequency=9.597397e-02	genotype_quality=864.6	ks_quality_p_value=1	log10_base_likelihood=-30.6174	log10_qual_likelihood_position_model=23.0583	log10_strand_likelihood_position_model=17.5452	new_cov=1/34	polymorphism_quality=25.4	quality=25.4	quality_position_model=Inf	ref_cov=218/67	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=221/102
RA	588	.	NC_007779	3044712	0	T	C	bias_e_value=5.2248	bias_p_value=1.1245e-06	fisher_strand_p_value=6.45303e-08	frequency=3.916931e-02	genotype_quality=565.1	ks_quality_p_value=0.992138	log10_base_likelihood=-9.30968	log10_qual_likelihood_position_model=9.60031	log10_strand_likelihood_position_model=7.19024	new_cov=7/0	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=12/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=19/153
RA	589	.	NC_007779	3044714	0	A	C	bias_e_value=2439.22	bias_p_value=0.000524979	fisher_strand_p_value=4.79887e-05	frequency=2.668953e-02	genotype_quality=545.2	ks_quality_p_value=0.999506	log10_base_likelihood=-6.04276	log10_qual_likelihood_position_model=11.4126	log10_strand_likelihood_position_model=4.33201	new_cov=6/2	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=17/159	reject=EVALUE,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=23/161
RA	590	.	NC_007779	3049815	0	G	T	frequency=1	genotype_quality=1420.1	new_cov=164/192	quality=1420.1	ref_cov=0/0	tot_cov=164/192
RA	591	.	NC_007779	3074129	0	G	T	bias_e_value=7.72352	bias_p_value=1.66228e-06	fisher_strand_p_value=9.69303e-08	frequency=2.543640e-02	genotype_quality=1396.7	ks_quality_p_value=1	log10_base_likelihood=-7.55501	log10_qual_likelihood_position_model=17.3887	log10_strand_likelihood_position_model=7.01354	new_cov=0/22	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=216/188	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=216/211
RA	592	.	NC_007779	3084663	0	C	A	bias_e_value=1.25872	bias_p_value=2.70907e-07	fisher_strand_p_value=1.42062e-08	frequency=4.049969e-02	genotype_quality=1430.8	ks_quality_p_value=1	log10_base_likelihood=-11.7675	log10_qual_likelihood_position_model=21.2212	log10_strand_likelihood_position_model=8.01151	new_cov=26/0	polymorphism_quality=6.4	quality=6.4	quality_position_model=Inf	ref_cov=190/210	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=216/210
RA	593	.	NC_007779	3085177	1	.	A	bias_e_value=2041450	bias_p_value=0.439369	fisher_strand_p_value=0.209711	frequency=5.332947e-03	genotype_quality=1867.4	ks_quality_p_value=0.727391	log10_base_likelihood=-7.87699	log10_qual_likelihood_position_model=0.977817	log10_strand_likelihood_position_model=0.678378	new_cov=0/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=3.77018e-08	ref_cov=203/170	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=203/172
RA	594	.	NC_007779	3088549	0	G	T	bias_e_value=3.82411e-05	bias_p_value=8.23039e-12	fisher_strand_p_value=2.75064e-13	frequency=9.307861e-02	genotype_quality=1122.4	ks_quality_p_value=1	log10_base_likelihood=-23.8397	log10_qual_likelihood_position_model=28.7037	log10_strand_likelihood_position_model=12.6552	new_cov=0/48	polymorphism_quality=18.6	quality=18.6	quality_position_model=Inf	ref_cov=171/181	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=171/230
RA	595	.	NC_007779	3090796	0	A	C	bias_e_value=15.4663	bias_p_value=3.32871e-06	fisher_strand_p_value=2.02836e-07	frequency=4.031754e-02	genotype_quality=1035.6	ks_quality_p_value=1	log10_base_likelihood=-9.10807	log10_qual_likelihood_position_model=23.05	log10_strand_likelihood_position_model=6.72639	new_cov=0/27	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=147/176	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/203
RA	596	.	NC_007779	3097643	0	T	.	bias_e_value=4453180	bias_p_value=0.958428	fisher_strand_p_value=1	frequency=7.928848e-03	genotype_quality=1514.8	ks_quality_p_value=0.725872	log10_base_likelihood=-7.80077	log10_qual_likelihood_position_model=1.57949	log10_strand_likelihood_position_model=0.387417	new_cov=1/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=9.47058e-08	ref_cov=169/206	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=170/208
RA	597	.	NC_007779	3102542	0	C	A	bias_e_value=90.6899	bias_p_value=1.95186e-05	fisher_strand_p_value=1.47085e-06	frequency=3.229618e-02	genotype_quality=1193.6	ks_quality_p_value=0.913957	log10_base_likelihood=-7.64038	log10_qual_likelihood_position_model=25.0483	log10_strand_likelihood_position_model=5.93764	new_cov=22/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=179/164	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=203/164
RA	598	.	NC_007779	3110532	0	C	A	bias_e_value=0.493722	bias_p_value=1.06261e-07	fisher_strand_p_value=5.30086e-09	frequency=4.758883e-02	genotype_quality=883.8	ks_quality_p_value=0.999502	log10_base_likelihood=-15.7804	log10_qual_likelihood_position_model=16.5571	log10_strand_likelihood_position_model=8.27565	new_cov=0/13	polymorphism_quality=10.4	quality=10.4	quality_position_model=Inf	ref_cov=176/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=176/59
RA	599	.	NC_007779	3126794	0	T	.	bias_e_value=1281810	bias_p_value=0.275876	fisher_strand_p_value=1	frequency=7.326126e-03	genotype_quality=1639.6	ks_quality_p_value=0.0775669	log10_base_likelihood=-7.51893	log10_qual_likelihood_position_model=1.93762	log10_strand_likelihood_position_model=0.415617	new_cov=1/2	polymorphism_quality=2.0	quality=2.0	quality_position_model=4.66868e-07	ref_cov=199/207	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=200/209
RA	600	.	NC_007779	3147621	0	G	T	bias_e_value=0.0917876	bias_p_value=1.97549e-08	fisher_strand_p_value=9.07273e-10	frequency=6.109333e-02	genotype_quality=958.4	ks_quality_p_value=0.997758	log10_base_likelihood=-15.9069	log10_qual_likelihood_position_model=17.3807	log10_strand_likelihood_position_model=9.04226	new_cov=0/27	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=167/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=167/157
RA	601	.	NC_007779	3149113	0	G	T	bias_e_value=57.9651	bias_p_value=1.24755e-05	fisher_strand_p_value=8.31709e-07	frequency=3.202724e-02	genotype_quality=1238.8	ks_quality_p_value=1	log10_base_likelihood=-6.51705	log10_qual_likelihood_position_model=17.653	log10_strand_likelihood_position_model=6.13	new_cov=0/21	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=181/178	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=181/200
RA	602	.	NC_007779	3152854	1	.	A	bias_e_value=2261420	bias_p_value=0.486712	fisher_strand_p_value=0.230835	frequency=5.037308e-03	genotype_quality=1961.6	ks_quality_p_value=0.774856	log10_base_likelihood=-7.81845	log10_qual_likelihood_position_model=1.20962	log10_strand_likelihood_position_model=0.636699	new_cov=0/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=6.81315e-08	ref_cov=206/189	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=206/191
RA	603	.	NC_007779	3152855	0	A	.	bias_e_value=4171420	bias_p_value=0.897787	fisher_strand_p_value=1	frequency=1.731873e-02	genotype_quality=1593.7	ks_quality_p_value=0.583406	log10_base_likelihood=-20.2523	log10_qual_likelihood_position_model=3.67275	log10_strand_likelihood_position_model=0.544845	new_cov=4/3	polymorphism_quality=15.0	quality=15.0	quality_position_model=3.67427e-18	ref_cov=206/191	reject=INDEL_HOMOPOLYMER	tot_cov=210/194
RA	604	.	NC_007779	3160153	0	G	C	bias_e_value=7.19368	bias_p_value=1.54825e-06	fisher_strand_p_value=8.98852e-08	frequency=3.528023e-02	genotype_quality=903.2	ks_quality_p_value=1	log10_base_likelihood=-10.1523	log10_qual_likelihood_position_model=12.9966	log10_strand_likelihood_position_model=7.04631	new_cov=9/0	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=33/192	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=42/192
RA	605	.	NC_007779	3162929	0	G	C	bias_e_value=28334.5	bias_p_value=0.00609825	fisher_strand_p_value=0.000765215	frequency=2.099037e-02	genotype_quality=1143.7	ks_quality_p_value=0.971345	log10_base_likelihood=-7.09238	log10_qual_likelihood_position_model=11.4673	log10_strand_likelihood_position_model=3.11622	new_cov=9/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=141/178	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=150/178
RA	606	.	NC_007779	3195962	0	G	T	bias_e_value=8.92048e-08	bias_p_value=1.9199e-14	fisher_strand_p_value=5.30766e-16	frequency=1.320419e-01	genotype_quality=974.5	ks_quality_p_value=1	log10_base_likelihood=-44.7659	log10_qual_likelihood_position_model=27.1289	log10_strand_likelihood_position_model=15.5328	new_cov=0/53	polymorphism_quality=39.7	quality=39.7	quality_position_model=0.000805282	ref_cov=157/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=157/190
RA	607	.	NC_007779	3217917	1	.	A	bias_e_value=3259610	bias_p_value=0.701546	fisher_strand_p_value=0.50218	frequency=5.419731e-03	genotype_quality=1841.2	ks_quality_p_value=0.667422	log10_base_likelihood=-7.95035	log10_qual_likelihood_position_model=1.51692	log10_strand_likelihood_position_model=0.532991	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=8.08162e-08	ref_cov=198/169	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=200/169
RA	608	.	NC_007779	3223274	0	G	T	bias_e_value=0.00413554	bias_p_value=8.90066e-10	fisher_strand_p_value=3.55159e-11	frequency=6.211996e-02	genotype_quality=1037.3	ks_quality_p_value=1	log10_base_likelihood=-12.0957	log10_qual_likelihood_position_model=21.99	log10_strand_likelihood_position_model=10.4496	new_cov=0/32	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=166/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=166/165
RA	609	.	NC_007779	3231302	0	C	G	bias_e_value=190.686	bias_p_value=4.10401e-05	fisher_strand_p_value=3.01932e-06	frequency=2.757072e-02	genotype_quality=1102.7	ks_quality_p_value=0.990719	log10_base_likelihood=-6.22982	log10_qual_likelihood_position_model=14.9914	log10_strand_likelihood_position_model=5.52009	new_cov=0/11	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=200/86	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=200/97
RA	610	.	NC_007779	3231439	1	.	A	bias_e_value=2151750	bias_p_value=0.463106	fisher_strand_p_value=0.173136	frequency=5.449295e-03	genotype_quality=1822.6	ks_quality_p_value=0.955598	log10_base_likelihood=-7.58083	log10_qual_likelihood_position_model=2.09876	log10_strand_likelihood_position_model=0.761612	new_cov=0/2	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.35699e-06	ref_cov=214/151	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=214/153
RA	611	.	NC_007779	3231832	1	.	G	bias_e_value=66875.6	bias_p_value=0.0143932	fisher_strand_p_value=0.00580764	frequency=1.865673e-02	genotype_quality=1306.2	ks_quality_p_value=0.343376	log10_base_likelihood=-21.9307	log10_qual_likelihood_position_model=2.23885	log10_strand_likelihood_position_model=2.236	new_cov=5/0	polymorphism_quality=16.7	quality=16.7	quality_position_model=1.33672e-19	ref_cov=92/171	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=97/171
RA	612	.	NC_007779	3238290	1	.	A	bias_e_value=82210.6	bias_p_value=0.0176937	fisher_strand_p_value=0.00253593	frequency=1.182747e-02	genotype_quality=753.6	ks_quality_p_value=1	log10_base_likelihood=-5.60118	log10_qual_likelihood_position_model=3.67504	log10_strand_likelihood_position_model=2.59586	new_cov=0/2	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=160/7	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=160/9
RA	613	.	NC_007779	3238315	1	.	T	bias_e_value=1344230	bias_p_value=0.28931	fisher_strand_p_value=0.083136	frequency=1.648331e-02	genotype_quality=816.9	ks_quality_p_value=0.997058	log10_base_likelihood=-12.4021	log10_qual_likelihood_position_model=3.76442	log10_strand_likelihood_position_model=1.08021	new_cov=3/0	polymorphism_quality=7.0	quality=7.0	quality_position_model=1.58401e-09	ref_cov=77/102	reject=POLYMORPHISM_STRAND	tot_cov=80/102
RA	614	.	NC_007779	3238322	0	T	C	bias_e_value=1199.12	bias_p_value=0.000258079	fisher_strand_p_value=2.20131e-05	frequency=4.198647e-02	genotype_quality=557.1	ks_quality_p_value=1	log10_base_likelihood=-6.31353	log10_qual_likelihood_position_model=11.2481	log10_strand_likelihood_position_model=4.65732	new_cov=9/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=47/119	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=56/119
RA	615	.	NC_007779	3243783	1	.	T	bias_e_value=206455	bias_p_value=0.0444341	fisher_strand_p_value=0.189625	frequency=5.665779e-03	genotype_quality=1667.3	ks_quality_p_value=0.0398082	log10_base_likelihood=-7.9312	log10_qual_likelihood_position_model=2.64716	log10_strand_likelihood_position_model=0.722105	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.98583e-06	ref_cov=152/199	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=154/199
RA	616	.	NC_007779	3258468	0	G	T	bias_e_value=6.08603	bias_p_value=1.30986e-06	fisher_strand_p_value=7.52997e-08	frequency=4.769325e-02	genotype_quality=1116.9	ks_quality_p_value=0.999601	log10_base_likelihood=-15.279	log10_qual_likelihood_position_model=15.0386	log10_strand_likelihood_position_model=7.18597	new_cov=0/24	polymorphism_quality=9.9	quality=9.9	quality_position_model=Inf	ref_cov=173/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=173/188
RA	617	.	NC_007779	3259711	0	A	C	bias_e_value=1.7664e-07	bias_p_value=3.80171e-14	fisher_strand_p_value=1.07183e-15	frequency=5.221367e-02	genotype_quality=1043.3	ks_quality_p_value=1	log10_base_likelihood=-7.01195	log10_qual_likelihood_position_model=35.0029	log10_strand_likelihood_position_model=14.9756	new_cov=1/41	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=193/108	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=194/150
RA	618	.	NC_007779	3280326	0	A	C	bias_e_value=8.51672e-24	bias_p_value=1.833e-30	fisher_strand_p_value=2.48466e-32	frequency=1.223903e-01	genotype_quality=948.1	ks_quality_p_value=1	log10_base_likelihood=-20.9652	log10_qual_likelihood_position_model=46.2843	log10_strand_likelihood_position_model=31.6047	new_cov=0/63	polymorphism_quality=15.7	quality=15.7	quality_position_model=Inf	ref_cov=197/61	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=197/126
RA	619	.	NC_007779	3293230	1	.	A	bias_e_value=2999530	bias_p_value=0.645568	fisher_strand_p_value=0.341864	frequency=9.949684e-03	genotype_quality=1980.1	ks_quality_p_value=0.840251	log10_base_likelihood=-16.7371	log10_qual_likelihood_position_model=2.10197	log10_strand_likelihood_position_model=0.667379	new_cov=1/3	polymorphism_quality=11.4	quality=11.4	quality_position_model=4.58434e-16	ref_cov=214/184	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=215/187
RA	620	.	NC_007779	3293231	0	A	.	bias_e_value=4609310	bias_p_value=0.992031	fisher_strand_p_value=1	frequency=9.819031e-03	genotype_quality=1658.1	ks_quality_p_value=0.876441	log10_base_likelihood=-10.5074	log10_qual_likelihood_position_model=3.37688	log10_strand_likelihood_position_model=0.427677	new_cov=2/2	polymorphism_quality=5.1	quality=5.1	quality_position_model=1.19965e-08	ref_cov=215/188	reject=INDEL_HOMOPOLYMER	tot_cov=217/190
RA	621	.	NC_007779	3300073	0	T	G	bias_e_value=1.59623e-08	bias_p_value=3.43546e-15	fisher_strand_p_value=9.05483e-17	frequency=1.095934e-01	genotype_quality=731.4	ks_quality_p_value=1	log10_base_likelihood=-18.2751	log10_qual_likelihood_position_model=44.5271	log10_strand_likelihood_position_model=16.3441	new_cov=47/0	polymorphism_quality=13.0	quality=13.0	quality_position_model=Inf	ref_cov=84/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/131
RA	622	.	NC_007779	3305552	1	.	C	bias_e_value=2215250	bias_p_value=0.476773	fisher_strand_p_value=0.186314	frequency=6.132126e-03	genotype_quality=1548.5	ks_quality_p_value=0.929306	log10_base_likelihood=-5.67079	log10_qual_likelihood_position_model=4.24695	log10_strand_likelihood_position_model=0.729754	new_cov=0/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.0332958	ref_cov=185/139	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=185/141
RA	623	.	NC_007779	3333429	1	.	A	bias_e_value=2046850	bias_p_value=0.44053	fisher_strand_p_value=0.502376	frequency=5.601883e-03	genotype_quality=1764.7	ks_quality_p_value=0.304872	log10_base_likelihood=-8.03504	log10_qual_likelihood_position_model=1.91155	log10_strand_likelihood_position_model=0.530759	new_cov=0/2	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.68301e-07	ref_cov=163/192	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=163/194
RA	624	.	NC_007779	3347716	1	.	G	bias_e_value=2162070	bias_p_value=0.465329	fisher_strand_p_value=0.179389	frequency=5.405426e-03	genotype_quality=1849.8	ks_quality_p_value=0.929189	log10_base_likelihood=-7.63211	log10_qual_likelihood_position_model=0.846085	log10_strand_likelihood_position_model=0.746204	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=5.79906e-08	ref_cov=155/213	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=157/213
RA	625	.	NC_007779	3350708	0	A	C	bias_e_value=1.80858e-06	bias_p_value=3.89249e-13	fisher_strand_p_value=1.17693e-14	frequency=5.664968e-02	genotype_quality=1116.5	ks_quality_p_value=1	log10_base_likelihood=-9.63122	log10_qual_likelihood_position_model=37.3342	log10_strand_likelihood_position_model=14.0312	new_cov=0/46	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=179/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=179/199
RA	626	.	NC_007779	3357279	0	C	A	bias_e_value=12.0132	bias_p_value=2.58553e-06	fisher_strand_p_value=1.88305e-07	frequency=3.391361e-02	genotype_quality=1134.7	ks_quality_p_value=0.823183	log10_base_likelihood=-11.2541	log10_qual_likelihood_position_model=19.6574	log10_strand_likelihood_position_model=6.72514	new_cov=19/0	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=145/195	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=165/195
RA	627	.	NC_007779	3379114	1	.	C	bias_e_value=3476010	bias_p_value=0.748118	fisher_strand_p_value=1	frequency=5.633354e-03	genotype_quality=1699.8	ks_quality_p_value=0.380451	log10_base_likelihood=-7.82762	log10_qual_likelihood_position_model=1.46054	log10_strand_likelihood_position_model=0.300802	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=5.44519e-08	ref_cov=185/168	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=186/169
RA	628	.	NC_007779	3380462	0	G	T	bias_e_value=25.4798	bias_p_value=5.48385e-06	fisher_strand_p_value=3.45359e-07	frequency=2.970028e-02	genotype_quality=1351.8	ks_quality_p_value=1	log10_base_likelihood=-8.17223	log10_qual_likelihood_position_model=22.5612	log10_strand_likelihood_position_model=6.54323	new_cov=0/22	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=199/191	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=199/213
RA	629	.	NC_007779	3385162	0	A	.	bias_e_value=203909	bias_p_value=0.043886	fisher_strand_p_value=0.25947	frequency=7.865906e-03	genotype_quality=1539.3	ks_quality_p_value=0.0286609	log10_base_likelihood=-7.69227	log10_qual_likelihood_position_model=1.90596	log10_strand_likelihood_position_model=0.754219	new_cov=0/3	polymorphism_quality=2.2	quality=2.2	quality_position_model=6.42804e-07	ref_cov=167/211	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=167/214
RA	630	.	NC_007779	3385701	0	T	.	bias_e_value=2106070	bias_p_value=0.453276	fisher_strand_p_value=0.346235	frequency=1.106358e-02	genotype_quality=1378.5	ks_quality_p_value=0.462214	log10_base_likelihood=-10.0097	log10_qual_likelihood_position_model=3.75987	log10_strand_likelihood_position_model=0.656049	new_cov=3/1	polymorphism_quality=4.6	quality=4.6	quality_position_model=1.67879e-07	ref_cov=167/190	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=170/191
RA	631	.	NC_007779	3389914	0	A	C	bias_e_value=1.7704e-18	bias_p_value=3.81031e-25	fisher_strand_p_value=6.21144e-27	frequency=1.171360e-01	genotype_quality=1158.0	ks_quality_p_value=1	log10_base_likelihood=-35.1951	log10_qual_likelihood_position_model=47.8387	log10_strand_likelihood_position_model=26.2099	new_cov=1/69	polymorphism_quality=30.0	quality=30.0	quality_position_model=Inf	ref_cov=214/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=215/176
RA	632	.	NC_007779	3392267	0	C	A	bias_e_value=0.00452178	bias_p_value=9.73193e-10	fisher_strand_p_value=3.89775e-11	frequency=4.157352e-02	genotype_quality=1355.3	ks_quality_p_value=1	log10_base_likelihood=-11.6801	log10_qual_likelihood_position_model=22.0234	log10_strand_likelihood_position_model=10.4092	new_cov=26/0	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=140/232	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=168/232
RA	633	.	NC_007779	3397405	0	A	C	bias_e_value=1.24518e-11	bias_p_value=2.67992e-18	fisher_strand_p_value=5.9194e-20	frequency=7.783651e-02	genotype_quality=986.0	ks_quality_p_value=1	log10_base_likelihood=-14.3897	log10_qual_likelihood_position_model=37.8925	log10_strand_likelihood_position_model=19.2277	new_cov=0/48	polymorphism_quality=9.0	quality=9.0	quality_position_model=Inf	ref_cov=187/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=187/149
RA	634	.	NC_007779	3397813	0	C	G	frequency=1	genotype_quality=1524.9	new_cov=159/194	quality=1524.9	ref_cov=0/0	tot_cov=159/194
RA	635	.	NC_007779	3411401	1	.	A	bias_e_value=4539700	bias_p_value=0.977051	fisher_strand_p_value=1	frequency=4.773140e-03	genotype_quality=2092.5	ks_quality_p_value=0.793558	log10_base_likelihood=-7.77153	log10_qual_likelihood_position_model=1.00184	log10_strand_likelihood_position_model=0.305973	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=2.11649e-08	ref_cov=184/233	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=185/234
RA	636	.	NC_007779	3412753	0	C	T	bias_e_value=1.49073e-08	bias_p_value=3.2084e-15	fisher_strand_p_value=8.44075e-17	frequency=7.465792e-02	genotype_quality=1029.7	ks_quality_p_value=1	log10_base_likelihood=-15.976	log10_qual_likelihood_position_model=31.4462	log10_strand_likelihood_position_model=16.0736	new_cov=0/27	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=210/58	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=210/85
RA	637	.	NC_007779	3414615	0	C	A	bias_e_value=0.0336475	bias_p_value=7.24172e-09	fisher_strand_p_value=3.16601e-10	frequency=6.191063e-02	genotype_quality=1131.6	ks_quality_p_value=1	log10_base_likelihood=-19.193	log10_qual_likelihood_position_model=23.6627	log10_strand_likelihood_position_model=9.78956	new_cov=33/0	polymorphism_quality=13.9	quality=13.9	quality_position_model=Inf	ref_cov=164/177	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=198/177
RA	638	.	NC_007779	3417646	0	A	.	bias_e_value=1231590	bias_p_value=0.265067	fisher_strand_p_value=0.252618	frequency=7.472038e-03	genotype_quality=1608.4	ks_quality_p_value=0.290494	log10_base_likelihood=-7.43354	log10_qual_likelihood_position_model=2.23469	log10_strand_likelihood_position_model=0.808871	new_cov=0/3	polymorphism_quality=1.9	quality=1.9	quality_position_model=3.00317e-06	ref_cov=185/213	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=185/216
RA	639	.	NC_007779	3423128	1	.	G	bias_e_value=1702700	bias_p_value=0.366461	fisher_strand_p_value=0.228731	frequency=6.430626e-03	genotype_quality=1140.8	ks_quality_p_value=0.508319	log10_base_likelihood=-7.3442	log10_qual_likelihood_position_model=2.9349	log10_strand_likelihood_position_model=0.640674	new_cov=2/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=1.34658e-05	ref_cov=147/162	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=149/162
RA	640	.	NC_007779	3431245	1	.	A	bias_e_value=3952960	bias_p_value=0.85077	fisher_strand_p_value=0.52004	frequency=7.461548e-03	genotype_quality=1289.2	ks_quality_p_value=0.973208	log10_base_likelihood=-6.81384	log10_qual_likelihood_position_model=3.77546	log10_strand_likelihood_position_model=0.438305	new_cov=0/2	polymorphism_quality=1.3	quality=1.3	quality_position_model=0.000234386	ref_cov=106/160	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=106/162
RA	641	.	NC_007779	3431259	0	T	G	bias_e_value=94940	bias_p_value=0.0204333	fisher_strand_p_value=0.00300101	frequency=2.604675e-02	genotype_quality=1129.7	ks_quality_p_value=1	log10_base_likelihood=-8.07546	log10_qual_likelihood_position_model=14.6153	log10_strand_likelihood_position_model=2.75456	new_cov=0/11	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=131/162	reject=POLYMORPHISM_STRAND	tot_cov=131/173
RA	642	.	NC_007779	3439587	0	A	C	bias_e_value=294004	bias_p_value=0.0632766	fisher_strand_p_value=0.0117074	frequency=2.440739e-02	genotype_quality=1132.3	ks_quality_p_value=0.990406	log10_base_likelihood=-11.9291	log10_qual_likelihood_position_model=10.5067	log10_strand_likelihood_position_model=2.16833	new_cov=9/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=169/129	reject=POLYMORPHISM_STRAND	tot_cov=178/129
RA	643	.	NC_007779	3439592	0	G	.	bias_e_value=1197540	bias_p_value=0.257738	fisher_strand_p_value=0.0705989	frequency=1.704311e-02	genotype_quality=1140.0	ks_quality_p_value=1	log10_base_likelihood=-10.3478	log10_qual_likelihood_position_model=7.88798	log10_strand_likelihood_position_model=1.25534	new_cov=5/0	polymorphism_quality=4.9	quality=4.9	quality_position_model=0.00811595	ref_cov=158/126	reject=POLYMORPHISM_STRAND	tot_cov=166/126
RA	644	.	NC_007779	3439598	1	.	T	bias_e_value=2085420	bias_p_value=0.448833	fisher_strand_p_value=0.16064	frequency=1.960754e-02	genotype_quality=1207.2	ks_quality_p_value=0.981199	log10_base_likelihood=-20.2043	log10_qual_likelihood_position_model=7.85721	log10_strand_likelihood_position_model=1.12078	new_cov=5/0	polymorphism_quality=14.9	quality=14.9	quality_position_model=2.80957e-13	ref_cov=148/102	reject=POLYMORPHISM_STRAND	tot_cov=153/102
RA	645	.	NC_007779	3439601	0	G	T	bias_e_value=38537	bias_p_value=0.00829407	fisher_strand_p_value=0.00105615	frequency=4.151344e-02	genotype_quality=1001.9	ks_quality_p_value=1	log10_base_likelihood=-10.6992	log10_qual_likelihood_position_model=16.3097	log10_strand_likelihood_position_model=3.0255	new_cov=13/0	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=144/107	reject=POLYMORPHISM_STRAND	tot_cov=157/107
RA	646	.	NC_007779	3439605	0	T	C	bias_e_value=332505	bias_p_value=0.0715629	fisher_strand_p_value=0.0134871	frequency=2.548122e-02	genotype_quality=1009.4	ks_quality_p_value=1	log10_base_likelihood=-5.72515	log10_qual_likelihood_position_model=12.517	log10_strand_likelihood_position_model=1.96841	new_cov=9/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=160/108	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=169/108
RA	647	.	NC_007779	3439607	0	G	T	bias_e_value=70941.4	bias_p_value=0.0152682	fisher_strand_p_value=0.00213573	frequency=3.548145e-02	genotype_quality=1081.5	ks_quality_p_value=1	log10_base_likelihood=-10.4863	log10_qual_likelihood_position_model=15.5958	log10_strand_likelihood_position_model=2.87111	new_cov=13/0	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=156/108	reject=POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=169/108
RA	648	.	NC_007779	3440270	0	C	A	bias_e_value=0.000157757	bias_p_value=3.3953e-11	fisher_strand_p_value=1.19324e-12	frequency=7.587147e-02	genotype_quality=1039.5	ks_quality_p_value=1	log10_base_likelihood=-15.4059	log10_qual_likelihood_position_model=22.9212	log10_strand_likelihood_position_model=12.0972	new_cov=40/0	polymorphism_quality=10.1	quality=10.1	quality_position_model=Inf	ref_cov=149/170	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=189/170
RA	649	.	NC_007779	3440600	0	A	C	bias_e_value=2.35278e-09	bias_p_value=5.06373e-16	fisher_strand_p_value=1.26892e-17	frequency=4.593563e-02	genotype_quality=1091.7	ks_quality_p_value=1	log10_base_likelihood=-6.94918	log10_qual_likelihood_position_model=31.008	log10_strand_likelihood_position_model=16.8966	new_cov=0/37	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=211/95	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=211/132
RA	650	.	NC_007779	3441442	0	C	A	bias_e_value=0.0854499	bias_p_value=1.83908e-08	fisher_strand_p_value=8.41549e-10	frequency=5.193567e-02	genotype_quality=1122.6	ks_quality_p_value=0.997978	log10_base_likelihood=-11.6254	log10_qual_likelihood_position_model=29.6163	log10_strand_likelihood_position_model=9.1668	new_cov=32/0	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=168/172	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=200/172
RA	651	.	NC_007779	3447060	0	T	A	bias_e_value=327.352	bias_p_value=7.04539e-05	fisher_strand_p_value=5.36346e-06	frequency=3.181839e-02	genotype_quality=1470.1	ks_quality_p_value=1	log10_base_likelihood=-10.3151	log10_qual_likelihood_position_model=23.9594	log10_strand_likelihood_position_model=5.27055	new_cov=0/16	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=215/181	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=215/197
RA	652	.	NC_007779	3447067	1	.	C	bias_e_value=1596050	bias_p_value=0.343508	fisher_strand_p_value=0.105827	frequency=7.664680e-03	genotype_quality=1789.0	ks_quality_p_value=1	log10_base_likelihood=-6.04968	log10_qual_likelihood_position_model=3.70479	log10_strand_likelihood_position_model=0.975405	new_cov=0/3	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.00525543	ref_cov=205/182	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=205/185
RA	653	.	NC_007779	3450056	0	C	A	bias_e_value=4644960	bias_p_value=0.999704	fisher_strand_p_value=1	frequency=3.959274e-02	genotype_quality=1662.1	ks_quality_p_value=0.975777	log10_base_likelihood=-42.8665	log10_qual_likelihood_position_model=6.84487	log10_strand_likelihood_position_model=0.710841	new_cov=9/8	polymorphism_quality=37.7	quality=37.7	quality_position_model=1.32046e-37	ref_cov=208/191	tot_cov=217/199
RA	654	.	NC_007779	3475527	0	T	G	bias_e_value=1.79498e-22	bias_p_value=3.86322e-29	fisher_strand_p_value=5.46566e-31	frequency=1.556377e-01	genotype_quality=1027.3	ks_quality_p_value=1	log10_base_likelihood=-41.8778	log10_qual_likelihood_position_model=54.0726	log10_strand_likelihood_position_model=30.2624	new_cov=75/0	polymorphism_quality=36.8	quality=36.8	quality_position_model=Inf	ref_cov=88/189	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=165/189
RA	655	.	NC_007779	3475533	0	C	T	bias_e_value=2.34704e-09	bias_p_value=5.05137e-16	fisher_strand_p_value=1.26575e-17	frequency=1.168380e-01	genotype_quality=1091.9	ks_quality_p_value=1	log10_base_likelihood=-38.2657	log10_qual_likelihood_position_model=55.8299	log10_strand_likelihood_position_model=16.8977	new_cov=47/0	polymorphism_quality=33.1	quality=33.1	quality_position_model=Inf	ref_cov=129/196	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=176/196
RA	656	.	NC_007779	3487963	0	C	A	bias_e_value=2.07643	bias_p_value=4.46897e-07	fisher_strand_p_value=2.41033e-08	frequency=4.494858e-02	genotype_quality=1161.6	ks_quality_p_value=1	log10_base_likelihood=-9.68268	log10_qual_likelihood_position_model=23.804	log10_strand_likelihood_position_model=7.82956	new_cov=25/0	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=150/172	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=175/172
RA	657	.	NC_007779	3491986	1	.	G	bias_e_value=3903870	bias_p_value=0.840205	fisher_strand_p_value=0.499264	frequency=5.390167e-03	genotype_quality=1852.5	ks_quality_p_value=0.983311	log10_base_likelihood=-7.45858	log10_qual_likelihood_position_model=1.29797	log10_strand_likelihood_position_model=0.573241	new_cov=2/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=1.70468e-07	ref_cov=190/179	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=192/179
RA	658	.	NC_007779	3499066	0	A	C	bias_e_value=9.24777e-05	bias_p_value=1.99034e-11	fisher_strand_p_value=6.86141e-13	frequency=6.702375e-02	genotype_quality=1011.5	ks_quality_p_value=1	log10_base_likelihood=-14.7356	log10_qual_likelihood_position_model=29.5476	log10_strand_likelihood_position_model=12.1636	new_cov=0/24	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=195/76	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=195/100
RA	659	.	NC_007779	3520391	0	C	G	bias_e_value=5.27388e-08	bias_p_value=1.13506e-14	fisher_strand_p_value=3.09175e-16	frequency=4.429150e-02	genotype_quality=958.3	ks_quality_p_value=1	log10_base_likelihood=-9.19626	log10_qual_likelihood_position_model=19.3363	log10_strand_likelihood_position_model=15.5098	new_cov=14/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=12/225	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=26/225
RA	660	.	NC_007779	3523734	0	G	T	bias_e_value=5.03323e-08	bias_p_value=1.08327e-14	fisher_strand_p_value=2.94682e-16	frequency=1.198916e-01	genotype_quality=1071.5	ks_quality_p_value=1	log10_base_likelihood=-41.871	log10_qual_likelihood_position_model=40.5878	log10_strand_likelihood_position_model=15.5552	new_cov=0/53	polymorphism_quality=36.7	quality=36.7	quality_position_model=Inf	ref_cov=168/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=168/201
RA	661	.	NC_007779	3523811	1	.	T	bias_e_value=4584350	bias_p_value=0.98666	fisher_strand_p_value=1	frequency=8.595467e-03	genotype_quality=1723.7	ks_quality_p_value=0.841169	log10_base_likelihood=-12.4221	log10_qual_likelihood_position_model=1.72398	log10_strand_likelihood_position_model=0.38563	new_cov=1/2	polymorphism_quality=7.0	quality=7.0	quality_position_model=2.40006e-12	ref_cov=155/191	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=156/193
RA	662	.	NC_007779	3543547	0	A	C	bias_e_value=9.97584e-23	bias_p_value=2.14704e-29	fisher_strand_p_value=3.01222e-31	frequency=1.628275e-01	genotype_quality=1020.4	ks_quality_p_value=1	log10_base_likelihood=-39.2473	log10_qual_likelihood_position_model=69.8062	log10_strand_likelihood_position_model=30.5211	new_cov=0/82	polymorphism_quality=34.1	quality=34.1	quality_position_model=Inf	ref_cov=188/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=188/183
RA	663	.	NC_007779	3560478	0	G	T	bias_e_value=220.225	bias_p_value=4.73977e-05	fisher_strand_p_value=3.49428e-06	frequency=3.802490e-02	genotype_quality=1203.1	ks_quality_p_value=1	log10_base_likelihood=-12.2872	log10_qual_likelihood_position_model=19.0031	log10_strand_likelihood_position_model=5.77511	new_cov=0/24	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=152/193	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=152/217
RA	664	.	NC_007779	3573438	0	C	A	bias_e_value=153.08	bias_p_value=3.29465e-05	fisher_strand_p_value=2.70539e-06	frequency=2.755547e-02	genotype_quality=1269.6	ks_quality_p_value=0.872572	log10_base_likelihood=-6.61192	log10_qual_likelihood_position_model=24.6178	log10_strand_likelihood_position_model=5.58578	new_cov=20/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=188/179	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=208/179
RA	665	.	NC_007779	3576400	1	.	A	bias_e_value=3172930	bias_p_value=0.682889	fisher_strand_p_value=0.345618	frequency=1.086903e-02	genotype_quality=1780.8	ks_quality_p_value=0.921493	log10_base_likelihood=-16.6334	log10_qual_likelihood_position_model=3.9476	log10_strand_likelihood_position_model=0.657623	new_cov=3/1	polymorphism_quality=11.3	quality=11.3	quality_position_model=4.28853e-14	ref_cov=170/194	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=173/195
RA	666	.	NC_007779	3576401	0	A	.	bias_e_value=4646310	bias_p_value=0.999995	fisher_strand_p_value=1	frequency=1.607227e-02	genotype_quality=1488.1	ks_quality_p_value=0.996832	log10_base_likelihood=-16.1295	log10_qual_likelihood_position_model=4.70058	log10_strand_likelihood_position_model=0.506239	new_cov=3/3	polymorphism_quality=10.8	quality=10.8	quality_position_model=5.72807e-13	ref_cov=172/194	reject=INDEL_HOMOPOLYMER	tot_cov=175/198
RA	667	.	NC_007779	3580297	0	G	T	bias_e_value=0.000446034	bias_p_value=9.5997e-11	fisher_strand_p_value=3.50656e-12	frequency=6.976366e-02	genotype_quality=1265.3	ks_quality_p_value=1	log10_base_likelihood=-19.5902	log10_qual_likelihood_position_model=25.6016	log10_strand_likelihood_position_model=11.7307	new_cov=0/41	polymorphism_quality=14.3	quality=14.3	quality_position_model=Inf	ref_cov=186/179	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/220
RA	668	.	NC_007779	3603950	0	A	C	bias_e_value=1.33292e-05	bias_p_value=2.86875e-12	fisher_strand_p_value=9.25061e-14	frequency=4.131222e-02	genotype_quality=1132.9	ks_quality_p_value=1	log10_base_likelihood=-6.58163	log10_qual_likelihood_position_model=49.0508	log10_strand_likelihood_position_model=13.0406	new_cov=1/37	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=203/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=204/160
RA	669	.	NC_007779	3609437	1	.	G	bias_e_value=2193740	bias_p_value=0.472143	fisher_strand_p_value=0.171109	frequency=5.347252e-03	genotype_quality=1858.8	ks_quality_p_value=0.996527	log10_base_likelihood=-7.08396	log10_qual_likelihood_position_model=2.18841	log10_strand_likelihood_position_model=0.766728	new_cov=2/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=5.63581e-06	ref_cov=153/219	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=155/219
RA	670	.	NC_007779	3609441	0	T	G	bias_e_value=3.57034e-24	bias_p_value=7.68421e-31	fisher_strand_p_value=1.02931e-32	frequency=1.181726e-01	genotype_quality=1083.3	ks_quality_p_value=1	log10_base_likelihood=-25.7307	log10_qual_likelihood_position_model=53.0741	log10_strand_likelihood_position_model=31.9875	new_cov=69/0	polymorphism_quality=20.5	quality=20.5	quality_position_model=Inf	ref_cov=78/211	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/211
RA	671	.	NC_007779	3620038	0	G	T	bias_e_value=0.00091057	bias_p_value=1.95976e-10	fisher_strand_p_value=7.35777e-12	frequency=4.862738e-02	genotype_quality=1141.4	ks_quality_p_value=1	log10_base_likelihood=-9.45937	log10_qual_likelihood_position_model=20.9562	log10_strand_likelihood_position_model=11.1333	new_cov=0/28	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=210/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=210/156
RA	672	.	NC_007779	3627545	0	T	.	bias_e_value=4251130	bias_p_value=0.914943	fisher_strand_p_value=1	frequency=7.470131e-03	genotype_quality=1574.7	ks_quality_p_value=0.617004	log10_base_likelihood=-7.18709	log10_qual_likelihood_position_model=2.22022	log10_strand_likelihood_position_model=0.417464	new_cov=2/1	polymorphism_quality=1.7	quality=1.7	quality_position_model=2.04655e-06	ref_cov=202/196	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=204/197
RA	673	.	NC_007779	3645448	1	.	A	bias_e_value=2715440	bias_p_value=0.584427	fisher_strand_p_value=0.241849	frequency=5.049706e-03	genotype_quality=1965.6	ks_quality_p_value=0.997926	log10_base_likelihood=-6.95631	log10_qual_likelihood_position_model=3.36178	log10_strand_likelihood_position_model=0.616456	new_cov=2/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=9.24288e-05	ref_cov=193/201	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=195/201
RA	674	.	NC_007779	3645647	0	T	.	bias_e_value=945377	bias_p_value=0.203467	fisher_strand_p_value=0.248515	frequency=7.398605e-03	genotype_quality=1580.6	ks_quality_p_value=0.20616	log10_base_likelihood=-7.49238	log10_qual_likelihood_position_model=2.62203	log10_strand_likelihood_position_model=0.87755	new_cov=3/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=7.82748e-06	ref_cov=204/198	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=207/198
RA	675	.	NC_007779	3651641	0	G	C	bias_e_value=5601.74	bias_p_value=0.00120563	fisher_strand_p_value=0.000120251	frequency=2.802944e-02	genotype_quality=1626.9	ks_quality_p_value=1	log10_base_likelihood=-19.6933	log10_qual_likelihood_position_model=12.6277	log10_strand_likelihood_position_model=3.91991	new_cov=12/0	polymorphism_quality=14.4	quality=14.4	quality_position_model=6.13127e-05	ref_cov=179/208	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=191/208
RA	676	.	NC_007779	3651644	0	A	T	bias_e_value=48938.6	bias_p_value=0.0105327	fisher_strand_p_value=0.0013898	frequency=1.742554e-02	genotype_quality=1553.8	ks_quality_p_value=1	log10_base_likelihood=-7.30321	log10_qual_likelihood_position_model=12.5184	log10_strand_likelihood_position_model=2.85705	new_cov=9/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=190/210	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=199/210
RA	677	.	NC_007779	3654011	0	A	C	bias_e_value=1.70935e-06	bias_p_value=3.67892e-13	fisher_strand_p_value=1.1104e-14	frequency=4.828644e-02	genotype_quality=1381.0	ks_quality_p_value=1	log10_base_likelihood=-15.5953	log10_qual_likelihood_position_model=32.0863	log10_strand_likelihood_position_model=13.9545	new_cov=0/31	polymorphism_quality=10.3	quality=10.3	quality_position_model=Inf	ref_cov=254/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=254/155
RA	678	.	NC_007779	3659516	0	C	A	bias_e_value=0.00198064	bias_p_value=4.2628e-10	fisher_strand_p_value=1.6505e-11	frequency=5.002546e-02	genotype_quality=1362.4	ks_quality_p_value=1	log10_base_likelihood=-15.5853	log10_qual_likelihood_position_model=24.577	log10_strand_likelihood_position_model=10.7824	new_cov=29/0	polymorphism_quality=10.2	quality=10.2	quality_position_model=Inf	ref_cov=150/223	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=179/223
RA	679	.	NC_007779	3669996	0	T	G	bias_e_value=0.00105992	bias_p_value=2.28119e-10	fisher_strand_p_value=8.61559e-12	frequency=4.428959e-02	genotype_quality=945.8	ks_quality_p_value=1	log10_base_likelihood=-7.55181	log10_qual_likelihood_position_model=35.9762	log10_strand_likelihood_position_model=11.0647	new_cov=29/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=97/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/157
RA	680	.	NC_007779	3673380	0	G	T	bias_e_value=234.803	bias_p_value=5.05352e-05	fisher_strand_p_value=5.14733e-06	frequency=2.253437e-02	genotype_quality=1245.6	ks_quality_p_value=0.7275	log10_base_likelihood=-5.88434	log10_qual_likelihood_position_model=26.7157	log10_strand_likelihood_position_model=5.44831	new_cov=0/22	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=174/215	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/238
RA	681	.	NC_007779	3677212	0	C	G	bias_e_value=0.481307	bias_p_value=1.03589e-07	fisher_strand_p_value=5.15811e-09	frequency=3.936577e-02	genotype_quality=703.9	ks_quality_p_value=1	log10_base_likelihood=-11.6227	log10_qual_likelihood_position_model=10.2082	log10_strand_likelihood_position_model=8.28751	new_cov=0/8	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=161/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=161/21
RA	682	.	NC_007779	3686205	0	A	.	bias_e_value=2572820	bias_p_value=0.553732	fisher_strand_p_value=0.235375	frequency=1.518059e-02	genotype_quality=1568.7	ks_quality_p_value=0.936431	log10_base_likelihood=-16.7485	log10_qual_likelihood_position_model=3.16602	log10_strand_likelihood_position_model=0.825174	new_cov=2/4	polymorphism_quality=11.4	quality=11.4	quality_position_model=7.77705e-15	ref_cov=230/159	reject=INDEL_HOMOPOLYMER	tot_cov=232/163
RA	683	.	NC_007779	3688858	0	A	C	bias_e_value=5.33313e-19	bias_p_value=1.14781e-25	fisher_strand_p_value=1.83466e-27	frequency=1.060290e-01	genotype_quality=932.2	ks_quality_p_value=1	log10_base_likelihood=-17.034	log10_qual_likelihood_position_model=41.5145	log10_strand_likelihood_position_model=26.7364	new_cov=0/53	polymorphism_quality=11.7	quality=11.7	quality_position_model=Inf	ref_cov=187/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=187/115
RA	684	.	NC_007779	3701118	0	G	T	bias_e_value=0.000881083	bias_p_value=1.8963e-10	fisher_strand_p_value=7.11037e-12	frequency=5.687475e-02	genotype_quality=1173.6	ks_quality_p_value=1	log10_base_likelihood=-14.7187	log10_qual_likelihood_position_model=23.3266	log10_strand_likelihood_position_model=11.1481	new_cov=0/31	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=198/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=198/170
RA	685	.	NC_007779	3711109	0	C	A	bias_e_value=0.0190772	bias_p_value=4.10586e-09	fisher_strand_p_value=1.74968e-10	frequency=4.957008e-02	genotype_quality=1116.7	ks_quality_p_value=1	log10_base_likelihood=-8.43998	log10_qual_likelihood_position_model=24.5761	log10_strand_likelihood_position_model=9.87107	new_cov=34/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=170/178	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=207/178
RA	686	.	NC_007779	3721173	0	T	.	bias_e_value=3321950	bias_p_value=0.714962	fisher_strand_p_value=0.598757	frequency=8.637428e-03	genotype_quality=1344.9	ks_quality_p_value=0.580617	log10_base_likelihood=-7.755	log10_qual_likelihood_position_model=2.18011	log10_strand_likelihood_position_model=0.459645	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=5.26773e-07	ref_cov=159/185	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=161/186
RA	687	.	NC_007779	3724337	0	C	G	bias_e_value=24214.5	bias_p_value=0.00521152	fisher_strand_p_value=0.000627991	frequency=1.766396e-02	genotype_quality=1263.6	ks_quality_p_value=0.989936	log10_base_likelihood=-6.36433	log10_qual_likelihood_position_model=12.6229	log10_strand_likelihood_position_model=3.20205	new_cov=0/9	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=189/144	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=190/153
RA	688	.	NC_007779	3728155	0	T	C	bias_e_value=3.15271	bias_p_value=6.78536e-07	fisher_strand_p_value=3.75072e-08	frequency=3.396416e-02	genotype_quality=575.7	ks_quality_p_value=0.999537	log10_base_likelihood=-5.79817	log10_qual_likelihood_position_model=8.16625	log10_strand_likelihood_position_model=7.42588	new_cov=6/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=6/152	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=12/152
RA	689	.	NC_007779	3731041	1	.	T	bias_e_value=1333790	bias_p_value=0.287062	fisher_strand_p_value=0.249782	frequency=8.287430e-03	genotype_quality=1763.7	ks_quality_p_value=0.32825	log10_base_likelihood=-12.2318	log10_qual_likelihood_position_model=2.59377	log10_strand_likelihood_position_model=0.843145	new_cov=0/3	polymorphism_quality=6.8	quality=6.8	quality_position_model=8.53047e-11	ref_cov=172/187	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=172/190
RA	690	.	NC_007779	3732310	0	G	T	bias_e_value=2.25237e-06	bias_p_value=4.84763e-13	fisher_strand_p_value=1.47582e-14	frequency=7.826471e-02	genotype_quality=1217.7	ks_quality_p_value=1	log10_base_likelihood=-22.051	log10_qual_likelihood_position_model=29.1823	log10_strand_likelihood_position_model=13.831	new_cov=0/42	polymorphism_quality=16.8	quality=16.8	quality_position_model=Inf	ref_cov=195/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=195/193
RA	691	.	NC_007779	3734364	1	.	A	bias_e_value=4581010	bias_p_value=0.98594	fisher_strand_p_value=1	frequency=1.023006e-02	genotype_quality=1921.3	ks_quality_p_value=0.837066	log10_base_likelihood=-16.8632	log10_qual_likelihood_position_model=2.09869	log10_strand_likelihood_position_model=0.442494	new_cov=2/2	polymorphism_quality=11.5	quality=11.5	quality_position_model=2.00323e-16	ref_cov=165/222	reject=INDEL_HOMOPOLYMER	tot_cov=167/224
RA	692	.	NC_007779	3741461	0	A	T	bias_e_value=1098.02	bias_p_value=0.000236319	fisher_strand_p_value=1.9993e-05	frequency=2.904415e-02	genotype_quality=1350.5	ks_quality_p_value=1	log10_base_likelihood=-9.07415	log10_qual_likelihood_position_model=21.5507	log10_strand_likelihood_position_model=4.69912	new_cov=13/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=154/209	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=167/209
RA	693	.	NC_007779	3750122	0	C	.	bias_e_value=39033.4	bias_p_value=0.00840091	fisher_strand_p_value=0.429817	frequency=9.594593e-01	genotype_quality=1706.6	ks_quality_p_value=0.00249352	log10_base_likelihood=-72.1053	log10_qual_likelihood_position_model=11.0557	log10_strand_likelihood_position_model=0.883114	new_cov=165/190	polymorphism_quality=67.1	quality=67.1	quality_position_model=1.41395e-62	ref_cov=5/10	tot_cov=170/200
RA	694	.	NC_007779	3750123	0	C	T	bias_e_value=3440560	bias_p_value=0.740488	fisher_strand_p_value=0.429817	frequency=4.043102e-02	genotype_quality=1428.3	ks_quality_p_value=0.866972	log10_base_likelihood=-31.6679	log10_qual_likelihood_position_model=10.9374	log10_strand_likelihood_position_model=0.883114	new_cov=5/10	polymorphism_quality=26.5	quality=26.5	quality_position_model=5.09612e-22	ref_cov=165/190	tot_cov=170/200
RA	695	.	NC_007779	3758414	0	G	T	bias_e_value=28.1453	bias_p_value=6.05753e-06	fisher_strand_p_value=3.84057e-07	frequency=2.637768e-02	genotype_quality=1303.6	ks_quality_p_value=1	log10_base_likelihood=-6.21031	log10_qual_likelihood_position_model=21.0655	log10_strand_likelihood_position_model=6.50517	new_cov=0/24	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=184/200	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=184/225
RA	696	.	NC_007779	3763528	0	A	C	bias_e_value=6.35657	bias_p_value=1.36808e-06	fisher_strand_p_value=7.88474e-08	frequency=2.799797e-02	genotype_quality=802.9	ks_quality_p_value=0.999712	log10_base_likelihood=-7.35877	log10_qual_likelihood_position_model=10.5296	log10_strand_likelihood_position_model=7.10321	new_cov=0/6	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=191/10	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=191/16
RA	697	.	NC_007779	3772839	1	.	A	bias_e_value=3052210	bias_p_value=0.656908	fisher_strand_p_value=1	frequency=1.049805e-02	genotype_quality=1864.7	ks_quality_p_value=0.296459	log10_base_likelihood=-16.3339	log10_qual_likelihood_position_model=2.89893	log10_strand_likelihood_position_model=0.426868	new_cov=2/2	polymorphism_quality=11.0	quality=11.0	quality_position_model=4.3244e-15	ref_cov=200/177	reject=INDEL_HOMOPOLYMER	tot_cov=202/179
RA	698	.	NC_007779	3772840	0	A	.	bias_e_value=608576	bias_p_value=0.13098	fisher_strand_p_value=0.0479921	frequency=1.037598e-02	genotype_quality=1553.6	ks_quality_p_value=0.600188	log10_base_likelihood=-10.0861	log10_qual_likelihood_position_model=3.07381	log10_strand_likelihood_position_model=1.31883	new_cov=0/4	polymorphism_quality=4.7	quality=4.7	quality_position_model=1.32353e-07	ref_cov=204/177	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=204/181
RA	699	.	NC_007779	3783821	0	T	C	bias_e_value=3571000	bias_p_value=0.768563	fisher_strand_p_value=0.617318	frequency=7.716179e-03	genotype_quality=1546.2	ks_quality_p_value=0.651593	log10_base_likelihood=-5.66394	log10_qual_likelihood_position_model=1.76019	log10_strand_likelihood_position_model=0.432956	new_cov=2/1	polymorphism_quality=0.1	quality=0.1	quality_position_model=2.77496e-05	ref_cov=188/196	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=190/197
RA	700	.	NC_007779	3786728	1	.	G	bias_e_value=3830970	bias_p_value=0.824514	fisher_strand_p_value=0.498695	frequency=5.208015e-03	genotype_quality=1910.7	ks_quality_p_value=0.941542	log10_base_likelihood=-7.42859	log10_qual_likelihood_position_model=2.18526	log10_strand_likelihood_position_model=0.603195	new_cov=2/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=1.64565e-06	ref_cov=190/192	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=192/192
RA	701	.	NC_007779	3788380	0	G	T	bias_e_value=0.0784114	bias_p_value=1.6876e-08	fisher_strand_p_value=7.67513e-10	frequency=6.589508e-02	genotype_quality=1151.9	ks_quality_p_value=1	log10_base_likelihood=-16.4527	log10_qual_likelihood_position_model=26.3011	log10_strand_likelihood_position_model=9.16946	new_cov=0/36	polymorphism_quality=11.1	quality=11.1	quality_position_model=Inf	ref_cov=154/175	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/214
RA	702	.	NC_007779	3800768	1	.	G	bias_e_value=3499720	bias_p_value=0.753222	fisher_strand_p_value=0.499473	frequency=5.478859e-03	genotype_quality=1813.6	ks_quality_p_value=0.772355	log10_base_likelihood=-7.9268	log10_qual_likelihood_position_model=2.08997	log10_strand_likelihood_position_model=0.568179	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=3.64966e-07	ref_cov=188/175	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=190/175
RA	703	.	NC_007779	3813810	0	T	G	bias_e_value=1.83842e-15	bias_p_value=3.95672e-22	fisher_strand_p_value=7.29006e-24	frequency=8.643723e-02	genotype_quality=951.7	ks_quality_p_value=1	log10_base_likelihood=-12.0751	log10_qual_likelihood_position_model=37.3378	log10_strand_likelihood_position_model=23.1373	new_cov=54/0	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=84/185	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/185
RA	704	.	NC_007779	3818667	0	G	T	bias_e_value=0.119743	bias_p_value=2.57715e-08	fisher_strand_p_value=1.19622e-09	frequency=5.423212e-02	genotype_quality=957.9	ks_quality_p_value=1	log10_base_likelihood=-12.9188	log10_qual_likelihood_position_model=19.1947	log10_strand_likelihood_position_model=8.92219	new_cov=0/23	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=167/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=167/130
RA	705	.	NC_007779	3824607	0	T	.	bias_e_value=4384440	bias_p_value=0.943635	fisher_strand_p_value=1	frequency=9.965897e-03	genotype_quality=1596.4	ks_quality_p_value=0.683616	log10_base_likelihood=-10.415	log10_qual_likelihood_position_model=2.74062	log10_strand_likelihood_position_model=0.429027	new_cov=2/2	polymorphism_quality=5.0	quality=5.0	quality_position_model=3.31556e-09	ref_cov=183/214	reject=INDEL_HOMOPOLYMER	tot_cov=185/216
RA	706	.	NC_007779	3831998	0	T	.	bias_e_value=3900280	bias_p_value=0.839431	fisher_strand_p_value=0.624994	frequency=1.101112e-02	genotype_quality=1451.4	ks_quality_p_value=0.78376	log10_base_likelihood=-10.853	log10_qual_likelihood_position_model=2.18931	log10_strand_likelihood_position_model=0.558588	new_cov=1/3	polymorphism_quality=5.4	quality=5.4	quality_position_model=4.34189e-10	ref_cov=171/188	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=172/191
RA	707	.	NC_007779	3841756	0	A	.	bias_e_value=2983000	bias_p_value=0.642011	fisher_strand_p_value=0.340274	frequency=1.122761e-02	genotype_quality=1447.9	ks_quality_p_value=0.835831	log10_base_likelihood=-10.8652	log10_qual_likelihood_position_model=2.20112	log10_strand_likelihood_position_model=0.670848	new_cov=1/3	polymorphism_quality=5.4	quality=5.4	quality_position_model=5.65483e-10	ref_cov=190/162	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=191/165
RA	708	.	NC_007779	3845596	0	G	T	bias_e_value=1.12553e-06	bias_p_value=2.4224e-13	fisher_strand_p_value=7.21762e-15	frequency=7.776117e-02	genotype_quality=1224.8	ks_quality_p_value=1	log10_base_likelihood=-23.8153	log10_qual_likelihood_position_model=28.1325	log10_strand_likelihood_position_model=14.1416	new_cov=0/40	polymorphism_quality=18.6	quality=18.6	quality_position_model=Inf	ref_cov=201/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=201/180
RA	709	.	NC_007779	3855276	1	.	T	bias_e_value=4563780	bias_p_value=0.982234	fisher_strand_p_value=1	frequency=1.152706e-02	genotype_quality=1691.2	ks_quality_p_value=0.817519	log10_base_likelihood=-16.7255	log10_qual_likelihood_position_model=1.59073	log10_strand_likelihood_position_model=0.42666	new_cov=2/2	polymorphism_quality=11.4	quality=11.4	quality_position_model=8.12868e-17	ref_cov=182/161	reject=INDEL_HOMOPOLYMER	tot_cov=184/163
RA	710	.	NC_007779	3859254	1	.	T	bias_e_value=1561860	bias_p_value=0.33615	fisher_strand_p_value=0.109573	frequency=6.919861e-03	genotype_quality=1429.7	ks_quality_p_value=0.936111	log10_base_likelihood=-8.24575	log10_qual_likelihood_position_model=1.70545	log10_strand_likelihood_position_model=0.960295	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.73488e-07	ref_cov=94/193	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=96/193
RA	711	.	NC_007779	3859258	1	.	T	bias_e_value=437911	bias_p_value=0.0942488	fisher_strand_p_value=0.0190681	frequency=1.500130e-02	genotype_quality=1237.8	ks_quality_p_value=0.99571	log10_base_likelihood=-9.80538	log10_qual_likelihood_position_model=5.47675	log10_strand_likelihood_position_model=1.71969	new_cov=3/0	polymorphism_quality=4.4	quality=4.4	quality_position_model=0.000229302	ref_cov=68/192	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=72/192
RA	712	.	NC_007779	3859258	2	.	C	bias_e_value=1204780	bias_p_value=0.259297	fisher_strand_p_value=0.0721272	frequency=1.117897e-02	genotype_quality=1244.5	ks_quality_p_value=0.986974	log10_base_likelihood=-7.67604	log10_qual_likelihood_position_model=3.83826	log10_strand_likelihood_position_model=1.1419	new_cov=2/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=0.000185005	ref_cov=69/192	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=72/192
RA	713	.	NC_007779	3859263	0	T	C	bias_e_value=3.75747e-05	bias_p_value=8.08697e-12	fisher_strand_p_value=2.70106e-13	frequency=4.888964e-02	genotype_quality=838.6	ks_quality_p_value=1	log10_base_likelihood=-10.3618	log10_qual_likelihood_position_model=20.1381	log10_strand_likelihood_position_model=12.5685	new_cov=17/0	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=37/205	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=54/205
RA	714	.	NC_007779	3859265	0	A	C	bias_e_value=2.59031	bias_p_value=5.57495e-07	fisher_strand_p_value=3.04524e-08	frequency=3.245926e-02	genotype_quality=715.0	ks_quality_p_value=1	log10_base_likelihood=-7.07832	log10_qual_likelihood_position_model=15.4453	log10_strand_likelihood_position_model=7.53373	new_cov=14/3	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=40/200	reject=EVALUE,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=54/203
RA	715	.	NC_007779	3859270	0	G	C	bias_e_value=0.00132611	bias_p_value=2.8541e-10	fisher_strand_p_value=1.0875e-11	frequency=4.995728e-02	genotype_quality=966.4	ks_quality_p_value=1	log10_base_likelihood=-16.8252	log10_qual_likelihood_position_model=16.9036	log10_strand_likelihood_position_model=10.9636	new_cov=14/0	polymorphism_quality=11.5	quality=11.5	quality_position_model=Inf	ref_cov=32/199	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=46/199
RA	716	.	NC_007779	3859381	0	T	G	bias_e_value=0.0270671	bias_p_value=5.82548e-09	fisher_strand_p_value=2.52175e-10	frequency=3.545856e-02	genotype_quality=690.9	ks_quality_p_value=1	log10_base_likelihood=-9.91304	log10_qual_likelihood_position_model=13.1031	log10_strand_likelihood_position_model=9.60096	new_cov=1/10	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=191/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=193/23
RA	717	.	NC_007779	3859383	0	A	G	bias_e_value=0.126303	bias_p_value=2.71833e-08	fisher_strand_p_value=1.26914e-09	frequency=3.513336e-02	genotype_quality=743.4	ks_quality_p_value=0.99677	log10_base_likelihood=-8.41363	log10_qual_likelihood_position_model=10.3401	log10_strand_likelihood_position_model=8.89649	new_cov=0/8	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=195/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=195/20
RA	718	.	NC_007779	3866109	0	G	T	bias_e_value=2.00402e-05	bias_p_value=4.31313e-12	fisher_strand_p_value=1.40998e-13	frequency=7.906151e-02	genotype_quality=1096.8	ks_quality_p_value=1	log10_base_likelihood=-24.1388	log10_qual_likelihood_position_model=24.4159	log10_strand_likelihood_position_model=13.0638	new_cov=0/45	polymorphism_quality=18.9	quality=18.9	quality_position_model=Inf	ref_cov=182/169	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=182/214
RA	719	.	NC_007779	3873375	0	T	.	bias_e_value=4628660	bias_p_value=0.996197	fisher_strand_p_value=1	frequency=1.080227e-02	genotype_quality=1473.3	ks_quality_p_value=0.914065	log10_base_likelihood=-10.6167	log10_qual_likelihood_position_model=3.09532	log10_strand_likelihood_position_model=0.430169	new_cov=2/2	polymorphism_quality=5.2	quality=5.2	quality_position_model=4.77662e-09	ref_cov=167/199	reject=INDEL_HOMOPOLYMER	tot_cov=169/201
RA	720	.	NC_007779	3891906	1	.	T	bias_e_value=4627560	bias_p_value=0.995959	fisher_strand_p_value=1	frequency=5.951881e-03	genotype_quality=1666.0	ks_quality_p_value=0.91146	log10_base_likelihood=-7.90224	log10_qual_likelihood_position_model=1.37451	log10_strand_likelihood_position_model=0.299751	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=3.7063e-08	ref_cov=168/166	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=169/167
RA	721	.	NC_007779	3893880	0	G	T	bias_e_value=1.20702e-05	bias_p_value=2.59778e-12	fisher_strand_p_value=8.34923e-14	frequency=5.939913e-02	genotype_quality=1138.3	ks_quality_p_value=1	log10_base_likelihood=-12.6648	log10_qual_likelihood_position_model=30.7312	log10_strand_likelihood_position_model=13.0784	new_cov=0/38	polymorphism_quality=7.3	quality=7.3	quality_position_model=Inf	ref_cov=197/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=197/183
RA	722	.	NC_007779	3895373	0	T	G	bias_e_value=7.45905e-06	bias_p_value=1.60536e-12	fisher_strand_p_value=5.07847e-14	frequency=5.239582e-02	genotype_quality=936.2	ks_quality_p_value=1	log10_base_likelihood=-7.93129	log10_qual_likelihood_position_model=37.3266	log10_strand_likelihood_position_model=13.2943	new_cov=33/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=100/178	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/178
RA	723	.	NC_007779	3898657	0	C	G	frequency=1	genotype_quality=1641.7	new_cov=185/198	quality=1641.7	ref_cov=0/0	tot_cov=185/198
RA	724	.	NC_007779	3900676	1	.	G	bias_e_value=397195	bias_p_value=0.0854856	fisher_strand_p_value=0.0296491	frequency=1.083946e-02	genotype_quality=1822.5	ks_quality_p_value=0.566913	log10_base_likelihood=-16.742	log10_qual_likelihood_position_model=2.36034	log10_strand_likelihood_position_model=1.52799	new_cov=4/0	polymorphism_quality=11.4	quality=11.4	quality_position_model=6.20672e-15	ref_cov=150/215	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=154/215
RA	725	.	NC_007779	3900680	0	T	G	bias_e_value=5.64501e-17	bias_p_value=1.21494e-23	fisher_strand_p_value=2.10279e-25	frequency=6.602907e-02	genotype_quality=964.7	ks_quality_p_value=0.999231	log10_base_likelihood=-16.2675	log10_qual_likelihood_position_model=31.9296	log10_strand_likelihood_position_model=24.6772	new_cov=24/0	polymorphism_quality=10.9	quality=10.9	quality_position_model=Inf	ref_cov=12/226	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=38/226
RA	726	.	NC_007779	3910746	0	C	A	bias_e_value=2.04455e-08	bias_p_value=4.40036e-15	fisher_strand_p_value=1.16763e-16	frequency=9.178448e-02	genotype_quality=1268.0	ks_quality_p_value=1	log10_base_likelihood=-23.2484	log10_qual_likelihood_position_model=40.0503	log10_strand_likelihood_position_model=16.2212	new_cov=54/0	polymorphism_quality=18.0	quality=18.0	quality_position_model=Inf	ref_cov=172/198	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=227/198
RA	727	.	NC_007779	3930443	0	T	G	bias_e_value=6.10018e-19	bias_p_value=1.3129e-25	fisher_strand_p_value=2.10312e-27	frequency=6.411695e-02	genotype_quality=1004.3	ks_quality_p_value=1	log10_base_likelihood=-7.76368	log10_qual_likelihood_position_model=40.794	log10_strand_likelihood_position_model=26.6771	new_cov=46/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=54/213	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/213
RA	728	.	NC_007779	3933153	0	G	T	bias_e_value=74.5657	bias_p_value=1.60483e-05	fisher_strand_p_value=1.08951e-06	frequency=2.673531e-02	genotype_quality=1312.1	ks_quality_p_value=1	log10_base_likelihood=-7.35794	log10_qual_likelihood_position_model=18.1702	log10_strand_likelihood_position_model=5.96277	new_cov=0/19	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=197/176	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=197/195
RA	729	.	NC_007779	3952095	1	.	G	bias_e_value=60.1964	bias_p_value=1.29557e-05	fisher_strand_p_value=9.71036e-07	frequency=4.436874e-02	genotype_quality=1332.8	ks_quality_p_value=0.891894	log10_base_likelihood=-61.3984	log10_qual_likelihood_position_model=4.6064	log10_strand_likelihood_position_model=6.01276	new_cov=13/0	polymorphism_quality=56.4	quality=56.4	quality_position_model=3.7513e-53	ref_cov=92/188	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=105/188
RA	730	.	NC_007779	3968984	1	.	G	bias_e_value=2150590	bias_p_value=0.462857	fisher_strand_p_value=0.166462	frequency=6.389618e-03	genotype_quality=1556.7	ks_quality_p_value=0.99308	log10_base_likelihood=-7.5665	log10_qual_likelihood_position_model=1.73443	log10_strand_likelihood_position_model=0.778685	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=6.10851e-07	ref_cov=126/185	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/185
RA	731	.	NC_007779	3976303	1	.	A	bias_e_value=3735950	bias_p_value=0.804064	fisher_strand_p_value=1	frequency=5.764008e-03	genotype_quality=1723.0	ks_quality_p_value=0.443467	log10_base_likelihood=-8.01081	log10_qual_likelihood_position_model=1.36223	log10_strand_likelihood_position_model=0.30082	new_cov=1/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.78789e-08	ref_cov=164/181	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=165/182
RA	732	.	NC_007779	3976304	0	A	.	bias_e_value=4220090	bias_p_value=0.908263	fisher_strand_p_value=0.605413	frequency=8.608818e-03	genotype_quality=1417.2	ks_quality_p_value=0.996807	log10_base_likelihood=-7.35482	log10_qual_likelihood_position_model=2.70548	log10_strand_likelihood_position_model=0.449085	new_cov=2/1	polymorphism_quality=1.9	quality=1.9	quality_position_model=4.74361e-06	ref_cov=163/182	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=165/183
RA	733	.	NC_007779	3981332	1	.	A	bias_e_value=4520600	bias_p_value=0.97294	fisher_strand_p_value=1	frequency=5.698204e-03	genotype_quality=1730.6	ks_quality_p_value=0.776571	log10_base_likelihood=-8.07713	log10_qual_likelihood_position_model=1.5064	log10_strand_likelihood_position_model=0.303647	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.37726e-08	ref_cov=158/191	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=159/192
RA	734	.	NC_007779	3981333	0	A	.	bias_e_value=2209020	bias_p_value=0.475433	fisher_strand_p_value=0.227552	frequency=1.675129e-02	genotype_quality=1439.1	ks_quality_p_value=0.75754	log10_base_likelihood=-17.1748	log10_qual_likelihood_position_model=2.17723	log10_strand_likelihood_position_model=0.87839	new_cov=1/5	polymorphism_quality=11.9	quality=11.9	quality_position_model=3.21792e-16	ref_cov=161/191	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=162/196
RA	735	.	NC_007779	3986830	0	T	.	bias_e_value=3189390	bias_p_value=0.686433	fisher_strand_p_value=0.347366	frequency=1.218796e-02	genotype_quality=1321.0	ks_quality_p_value=0.925811	log10_base_likelihood=-11.1504	log10_qual_likelihood_position_model=2.5631	log10_strand_likelihood_position_model=0.652873	new_cov=1/3	polymorphism_quality=5.7	quality=5.7	quality_position_model=6.49751e-10	ref_cov=172/152	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=173/155
RA	736	.	NC_007779	3995503	0	C	T	bias_e_value=1389240	bias_p_value=0.298997	fisher_strand_p_value=0.623735	frequency=9.259224e-03	genotype_quality=1775.0	ks_quality_p_value=0.139191	log10_base_likelihood=-6.1478	log10_qual_likelihood_position_model=3.4438	log10_strand_likelihood_position_model=0.580109	new_cov=1/3	polymorphism_quality=0.6	quality=0.6	quality_position_model=0.000766488	ref_cov=207/216	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=208/219
RA	737	.	NC_007779	4009807	0	T	G	bias_e_value=361.072	bias_p_value=7.77112e-05	fisher_strand_p_value=5.99489e-06	frequency=2.172279e-02	genotype_quality=852.9	ks_quality_p_value=0.994871	log10_base_likelihood=-7.75074	log10_qual_likelihood_position_model=5.76421	log10_strand_likelihood_position_model=5.22222	new_cov=5/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=17/201	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=22/201
RA	738	.	NC_007779	4016119	1	.	T	bias_e_value=1577100	bias_p_value=0.33943	fisher_strand_p_value=0.499457	frequency=5.141258e-03	genotype_quality=1800.1	ks_quality_p_value=0.208262	log10_base_likelihood=-7.85395	log10_qual_likelihood_position_model=0.85306	log10_strand_likelihood_position_model=0.570234	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.28941e-08	ref_cov=200/187	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=202/187
RA	739	.	NC_007779	4016769	1	.	C	bias_e_value=2315750	bias_p_value=0.498404	fisher_strand_p_value=0.186102	frequency=4.938126e-03	genotype_quality=2023.5	ks_quality_p_value=0.998017	log10_base_likelihood=-7.50681	log10_qual_likelihood_position_model=3.49783	log10_strand_likelihood_position_model=0.730249	new_cov=2/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=4.43055e-05	ref_cov=173/230	reject=POLYMORPHISM_STRAND	tot_cov=175/230
RA	740	.	NC_007779	4023064	1	.	G	bias_e_value=64887.2	bias_p_value=0.0139653	fisher_strand_p_value=0.0026289	frequency=3.041840e-02	genotype_quality=1238.1	ks_quality_p_value=0.732462	log10_base_likelihood=-36.4872	log10_qual_likelihood_position_model=2.3477	log10_strand_likelihood_position_model=2.58023	new_cov=8/0	polymorphism_quality=31.3	quality=31.3	quality_position_model=7.87628e-34	ref_cov=119/136	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/136
RA	741	.	NC_007779	4023068	0	T	G	bias_e_value=0.0471059	bias_p_value=1.01383e-08	fisher_strand_p_value=4.50163e-10	frequency=3.957462e-02	genotype_quality=680.3	ks_quality_p_value=1	log10_base_likelihood=-6.11488	log10_qual_likelihood_position_model=16.1936	log10_strand_likelihood_position_model=9.34663	new_cov=14/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=33/147	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=47/147
RA	742	.	NC_007779	4027142	0	C	A	bias_e_value=24.0482	bias_p_value=5.17575e-06	fisher_strand_p_value=3.24694e-07	frequency=3.963566e-02	genotype_quality=1134.9	ks_quality_p_value=1	log10_base_likelihood=-9.53737	log10_qual_likelihood_position_model=21.6808	log10_strand_likelihood_position_model=6.60082	new_cov=24/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=171/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=195/162
RA	743	.	NC_007779	4027179	1	.	T	bias_e_value=3927660	bias_p_value=0.845326	fisher_strand_p_value=0.499451	frequency=4.986763e-03	genotype_quality=1980.7	ks_quality_p_value=0.997503	log10_base_likelihood=-6.80362	log10_qual_likelihood_position_model=3.72808	log10_strand_likelihood_position_model=0.571171	new_cov=2/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=0.00029703	ref_cov=206/193	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=208/193
RA	744	.	NC_007779	4029622	1	.	G	bias_e_value=2753650	bias_p_value=0.59265	fisher_strand_p_value=0.250291	frequency=8.522034e-03	genotype_quality=1708.2	ks_quality_p_value=0.987575	log10_base_likelihood=-11.0693	log10_qual_likelihood_position_model=2.56242	log10_strand_likelihood_position_model=0.834415	new_cov=3/0	polymorphism_quality=5.7	quality=5.7	quality_position_model=1.20683e-09	ref_cov=183/166	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=186/166
RA	745	.	NC_007779	4029633	0	T	G	bias_e_value=2.36768e-23	bias_p_value=5.09581e-30	fisher_strand_p_value=7.0059e-32	frequency=1.551881e-01	genotype_quality=844.1	ks_quality_p_value=1	log10_base_likelihood=-32.5845	log10_qual_likelihood_position_model=50.8673	log10_strand_likelihood_position_model=31.1545	new_cov=54/0	polymorphism_quality=27.4	quality=27.4	quality_position_model=Inf	ref_cov=38/175	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=92/175
RA	746	.	NC_007779	4031691	1	.	T	bias_e_value=98589.1	bias_p_value=0.0212187	fisher_strand_p_value=0.00366225	frequency=1.793671e-02	genotype_quality=1071.2	ks_quality_p_value=0.856507	log10_base_likelihood=-17.557	log10_qual_likelihood_position_model=2.02445	log10_strand_likelihood_position_model=2.43625	new_cov=4/0	polymorphism_quality=12.2	quality=12.2	quality_position_model=3.5181e-15	ref_cov=52/167	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=56/167
RA	747	.	NC_007779	4036507	0	G	T	bias_e_value=2.55513	bias_p_value=5.49923e-07	fisher_strand_p_value=3.14233e-08	frequency=4.148006e-02	genotype_quality=1300.9	ks_quality_p_value=0.955185	log10_base_likelihood=-6.68164	log10_qual_likelihood_position_model=32.419	log10_strand_likelihood_position_model=7.80815	new_cov=0/29	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=181/196	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=181/225
RA	748	.	NC_007779	4037745	0	G	T	bias_e_value=504.223	bias_p_value=0.000108521	fisher_strand_p_value=8.56678e-06	frequency=2.246284e-02	genotype_quality=1221.0	ks_quality_p_value=1	log10_base_likelihood=-7.3277	log10_qual_likelihood_position_model=14.6197	log10_strand_likelihood_position_model=5.08458	new_cov=1/17	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=207/153	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=208/170
RA	749	.	NC_007779	4052978	0	G	T	bias_e_value=1.31566e-07	bias_p_value=2.83162e-14	fisher_strand_p_value=7.91562e-16	frequency=7.317543e-02	genotype_quality=1087.4	ks_quality_p_value=1	log10_base_likelihood=-12.2494	log10_qual_likelihood_position_model=24.4431	log10_strand_likelihood_position_model=15.1015	new_cov=0/41	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=190/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=190/163
RA	750	.	NC_007779	4055100	0	G	T	bias_e_value=0.22236	bias_p_value=4.78571e-08	fisher_strand_p_value=2.43673e-09	frequency=4.718971e-02	genotype_quality=1191.6	ks_quality_p_value=0.939953	log10_base_likelihood=-14.2	log10_qual_likelihood_position_model=32.0201	log10_strand_likelihood_position_model=8.61319	new_cov=23/0	polymorphism_quality=8.8	quality=8.8	quality_position_model=Inf	ref_cov=138/205	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=161/205
RA	751	.	NC_007779	4055329	0	T	G	bias_e_value=9.75117e-28	bias_p_value=2.09868e-34	fisher_strand_p_value=2.5296e-36	frequency=1.264782e-01	genotype_quality=876.9	ks_quality_p_value=1	log10_base_likelihood=-25.5842	log10_qual_likelihood_position_model=47.1196	log10_strand_likelihood_position_model=35.5969	new_cov=55/0	polymorphism_quality=20.4	quality=20.4	quality_position_model=Inf	ref_cov=32/197	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=87/197
RA	752	.	NC_007779	4055394	0	T	.	bias_e_value=1246540	bias_p_value=0.268285	fisher_strand_p_value=0.283316	frequency=8.563995e-03	genotype_quality=1373.4	ks_quality_p_value=0.263382	log10_base_likelihood=-7.92678	log10_qual_likelihood_position_model=1.57151	log10_strand_likelihood_position_model=0.649475	new_cov=0/3	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.28516e-07	ref_cov=137/210	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=137/213
RA	753	.	NC_007779	4059485	0	T	.	bias_e_value=2964970	bias_p_value=0.638131	fisher_strand_p_value=0.435537	frequency=1.758575e-02	genotype_quality=1360.3	ks_quality_p_value=0.645958	log10_base_likelihood=-17.049	log10_qual_likelihood_position_model=2.70814	log10_strand_likelihood_position_model=0.658646	new_cov=4/2	polymorphism_quality=11.7	quality=11.7	quality_position_model=8.93655e-16	ref_cov=161/174	reject=INDEL_HOMOPOLYMER	tot_cov=165/176
RA	754	.	NC_007779	4062114	0	T	G	bias_e_value=2.30399e-19	bias_p_value=4.95874e-26	fisher_strand_p_value=7.81941e-28	frequency=1.147513e-01	genotype_quality=824.3	ks_quality_p_value=1	log10_base_likelihood=-16.1179	log10_qual_likelihood_position_model=41.5566	log10_strand_likelihood_position_model=27.1068	new_cov=52/0	polymorphism_quality=10.8	quality=10.8	quality_position_model=Inf	ref_cov=50/173	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/174
RA	755	.	NC_007779	4064463	0	G	T	bias_e_value=0.00621987	bias_p_value=1.33866e-09	fisher_strand_p_value=5.43381e-11	frequency=7.346010e-02	genotype_quality=1036.0	ks_quality_p_value=1	log10_base_likelihood=-17.9012	log10_qual_likelihood_position_model=23.3365	log10_strand_likelihood_position_model=10.2776	new_cov=0/34	polymorphism_quality=12.6	quality=12.6	quality_position_model=Inf	ref_cov=164/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=164/180
RA	756	.	NC_007779	4079847	0	T	A	bias_e_value=480617	bias_p_value=0.10344	fisher_strand_p_value=0.161605	frequency=1.116943e-02	genotype_quality=1795.1	ks_quality_p_value=0.132052	log10_base_likelihood=-12.1279	log10_qual_likelihood_position_model=2.56291	log10_strand_likelihood_position_model=1.06897	new_cov=5/0	polymorphism_quality=6.7	quality=6.7	quality_position_model=1.72589e-10	ref_cov=269/173	reject=POLYMORPHISM_STRAND	tot_cov=274/173
RA	757	.	NC_007779	4087241	1	.	G	bias_e_value=3932160	bias_p_value=0.846294	fisher_strand_p_value=0.499742	frequency=5.663872e-03	genotype_quality=1757.5	ks_quality_p_value=0.999709	log10_base_likelihood=-6.14759	log10_qual_likelihood_position_model=4.01514	log10_strand_likelihood_position_model=0.562328	new_cov=2/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=0.00312368	ref_cov=183/168	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=185/168
RA	758	.	NC_007779	4087369	0	T	.	bias_e_value=4151640	bias_p_value=0.893531	fisher_strand_p_value=0.609341	frequency=8.076668e-03	genotype_quality=1503.3	ks_quality_p_value=0.944636	log10_base_likelihood=-7.47328	log10_qual_likelihood_position_model=2.19285	log10_strand_likelihood_position_model=0.44353	new_cov=2/1	polymorphism_quality=2.0	quality=2.0	quality_position_model=1.02622e-06	ref_cov=176/192	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=178/193
RA	759	.	NC_007779	4090749	0	A	T	frequency=1	genotype_quality=1406.3	new_cov=165/185	quality=1406.3	ref_cov=0/0	tot_cov=165/185
RA	760	.	NC_007779	4098730	0	G	T	bias_e_value=6.14621e-06	bias_p_value=1.32281e-12	fisher_strand_p_value=4.16041e-14	frequency=6.626844e-02	genotype_quality=1244.2	ks_quality_p_value=0.9995	log10_base_likelihood=-21.681	log10_qual_likelihood_position_model=27.0003	log10_strand_likelihood_position_model=13.3809	new_cov=0/39	polymorphism_quality=16.4	quality=16.4	quality_position_model=Inf	ref_cov=216/160	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=216/200
RA	761	.	NC_007779	4112686	0	A	.	bias_e_value=1400040	bias_p_value=0.301321	fisher_strand_p_value=0.25487	frequency=7.701874e-03	genotype_quality=1544.2	ks_quality_p_value=0.344378	log10_base_likelihood=-7.37592	log10_qual_likelihood_position_model=2.1787	log10_strand_likelihood_position_model=0.787494	new_cov=0/3	polymorphism_quality=1.9	quality=1.9	quality_position_model=2.86376e-06	ref_cov=176/210	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=176/213
RA	762	.	NC_007779	4115400	1	.	C	bias_e_value=383.658	bias_p_value=8.25722e-05	fisher_strand_p_value=6.36934e-06	frequency=4.181004e-02	genotype_quality=1166.3	ks_quality_p_value=1	log10_base_likelihood=-35.0562	log10_qual_likelihood_position_model=12.1235	log10_strand_likelihood_position_model=5.19591	new_cov=0/11	polymorphism_quality=29.9	quality=29.9	quality_position_model=6.94556e-20	ref_cov=171/81	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=171/92
RA	763	.	NC_007779	4124616	1	.	G	bias_e_value=1056880	bias_p_value=0.227465	fisher_strand_p_value=0.074491	frequency=8.173943e-03	genotype_quality=1801.6	ks_quality_p_value=0.799082	log10_base_likelihood=-12.4503	log10_qual_likelihood_position_model=2.86486	log10_strand_likelihood_position_model=1.1279	new_cov=3/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=1.88983e-10	ref_cov=152/212	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=155/212
RA	764	.	NC_007779	4124974	0	G	T	bias_e_value=3.62662e-06	bias_p_value=7.80534e-13	fisher_strand_p_value=2.41236e-14	frequency=9.230280e-02	genotype_quality=1118.1	ks_quality_p_value=1	log10_base_likelihood=-22.814	log10_qual_likelihood_position_model=23.3523	log10_strand_likelihood_position_model=13.85	new_cov=0/47	polymorphism_quality=17.6	quality=17.6	quality_position_model=Inf	ref_cov=175/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=175/204
RA	765	.	NC_007779	4128669	1	.	T	bias_e_value=2078430	bias_p_value=0.447327	fisher_strand_p_value=0.247801	frequency=5.865097e-03	genotype_quality=1669.7	ks_quality_p_value=0.63279	log10_base_likelihood=-8.02623	log10_qual_likelihood_position_model=2.12973	log10_strand_likelihood_position_model=0.605898	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=3.4631e-07	ref_cov=168/171	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=170/171
RA	766	.	NC_007779	4128670	0	T	.	bias_e_value=3831030	bias_p_value=0.824529	fisher_strand_p_value=0.723312	frequency=2.051735e-02	genotype_quality=1313.5	ks_quality_p_value=0.649181	log10_base_likelihood=-20.2463	log10_qual_likelihood_position_model=4.97525	log10_strand_likelihood_position_model=0.560603	new_cov=4/3	polymorphism_quality=15.0	quality=15.0	quality_position_model=8.08456e-17	ref_cov=166/168	reject=INDEL_HOMOPOLYMER	tot_cov=170/171
RA	767	.	NC_007779	4131519	0	T	G	bias_e_value=115910	bias_p_value=0.0249465	fisher_strand_p_value=0.00379609	frequency=1.267242e-02	genotype_quality=1668.8	ks_quality_p_value=0.999612	log10_base_likelihood=-6.38505	log10_qual_likelihood_position_model=15.0019	log10_strand_likelihood_position_model=2.59331	new_cov=0/9	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=209/217	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=209/227
RA	768	.	NC_007779	4148399	0	A	C	bias_e_value=1.3951e-16	bias_p_value=3.00258e-23	fisher_strand_p_value=5.27683e-25	frequency=1.150918e-01	genotype_quality=960.6	ks_quality_p_value=1	log10_base_likelihood=-22.6324	log10_qual_likelihood_position_model=44.6141	log10_strand_likelihood_position_model=24.2776	new_cov=0/55	polymorphism_quality=17.4	quality=17.4	quality_position_model=Inf	ref_cov=184/78	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=184/133
RA	769	.	NC_007779	4157323	0	C	A	bias_e_value=0.359012	bias_p_value=7.72679e-08	fisher_strand_p_value=4.37027e-09	frequency=4.671955e-02	genotype_quality=1205.1	ks_quality_p_value=0.867062	log10_base_likelihood=-11.2368	log10_qual_likelihood_position_model=30.2121	log10_strand_likelihood_position_model=8.35949	new_cov=26/0	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=160/190	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=186/190
RA	770	.	NC_007779	4163966	1	.	T	bias_e_value=4426920	bias_p_value=0.952778	fisher_strand_p_value=1	frequency=5.570412e-03	genotype_quality=1741.4	ks_quality_p_value=0.708863	log10_base_likelihood=-7.59118	log10_qual_likelihood_position_model=1.46062	log10_strand_likelihood_position_model=0.300577	new_cov=1/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=9.55855e-08	ref_cov=171/186	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=172/187
RA	771	.	NC_007779	4165991	0	A	C	frequency=1	genotype_quality=1828.5	new_cov=207/218	quality=1828.5	ref_cov=0/0	tot_cov=207/218
RA	772	.	NC_007779	4174730	0	T	.	bias_e_value=3026770	bias_p_value=0.651433	fisher_strand_p_value=0.726307	frequency=2.246380e-02	genotype_quality=1406.6	ks_quality_p_value=0.402011	log10_base_likelihood=-23.9949	log10_qual_likelihood_position_model=4.21192	log10_strand_likelihood_position_model=0.617304	new_cov=3/5	polymorphism_quality=18.7	quality=18.7	quality_position_model=2.49101e-21	ref_cov=166/182	reject=INDEL_HOMOPOLYMER	tot_cov=169/187
RA	773	.	NC_007779	4190766	1	.	A	bias_e_value=2759240	bias_p_value=0.593853	fisher_strand_p_value=0.501738	frequency=4.784584e-03	genotype_quality=2065.4	ks_quality_p_value=0.494367	log10_base_likelihood=-7.26571	log10_qual_likelihood_position_model=2.93168	log10_strand_likelihood_position_model=0.538882	new_cov=0/2	polymorphism_quality=1.8	quality=1.8	quality_position_model=1.26277e-05	ref_cov=193/223	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=193/225
RA	774	.	NC_007779	4197139	0	T	G	bias_e_value=1.07282e-13	bias_p_value=2.30897e-20	fisher_strand_p_value=4.606e-22	frequency=8.987045e-02	genotype_quality=847.5	ks_quality_p_value=1	log10_base_likelihood=-16.4653	log10_qual_likelihood_position_model=35.0082	log10_strand_likelihood_position_model=21.3367	new_cov=28/0	polymorphism_quality=11.1	quality=11.1	quality_position_model=Inf	ref_cov=26/189	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=54/189
RA	775	.	NC_007779	4207565	0	C	A	bias_e_value=4.1761e-06	bias_p_value=8.98795e-13	fisher_strand_p_value=2.79042e-14	frequency=1.061869e-01	genotype_quality=1020.0	ks_quality_p_value=1	log10_base_likelihood=-33.3586	log10_qual_likelihood_position_model=30.6257	log10_strand_likelihood_position_model=13.5938	new_cov=45/0	polymorphism_quality=28.2	quality=28.2	quality_position_model=Inf	ref_cov=139/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=184/162
RA	776	.	NC_007779	4214471	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	777	.	NC_007779	4214472	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	778	.	NC_007779	4214473	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	779	.	NC_007779	4214474	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	780	.	NC_007779	4214475	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	781	.	NC_007779	4214478	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	782	.	NC_007779	4214479	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	783	.	NC_007779	4214480	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	784	.	NC_007779	4214482	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	785	.	NC_007779	4214483	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	786	.	NC_007779	4214484	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	787	.	NC_007779	4214485	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	788	.	NC_007779	4214486	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	789	.	NC_007779	4214487	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	790	.	NC_007779	4214488	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	791	.	NC_007779	4214489	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	792	.	NC_007779	4214490	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	793	.	NC_007779	4214491	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	794	.	NC_007779	4214492	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	795	.	NC_007779	4218761	0	C	G	bias_e_value=178209	bias_p_value=0.0383547	fisher_strand_p_value=0.00632592	frequency=2.261257e-02	genotype_quality=1203.7	ks_quality_p_value=1	log10_base_likelihood=-6.85551	log10_qual_likelihood_position_model=13.2261	log10_strand_likelihood_position_model=2.3464	new_cov=0/10	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=125/169	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=125/179
RA	796	.	NC_007779	4218770	0	C	A	bias_e_value=845385	bias_p_value=0.181947	fisher_strand_p_value=0.0441634	frequency=1.942539e-02	genotype_quality=1164.5	ks_quality_p_value=1	log10_base_likelihood=-8.34928	log10_qual_likelihood_position_model=10.8332	log10_strand_likelihood_position_model=1.67301	new_cov=0/7	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=124/165	reject=POLYMORPHISM_STRAND	tot_cov=125/172
RA	797	.	NC_007779	4220019	0	A	C	bias_e_value=1.48364e-11	bias_p_value=3.19314e-18	fisher_strand_p_value=7.08103e-20	frequency=6.491899e-02	genotype_quality=1171.6	ks_quality_p_value=1	log10_base_likelihood=-9.0664	log10_qual_likelihood_position_model=62.3278	log10_strand_likelihood_position_model=19.1499	new_cov=0/55	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=199/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=199/190
RA	798	.	NC_007779	4224248	1	.	T	bias_e_value=4306340	bias_p_value=0.926826	fisher_strand_p_value=1	frequency=5.347252e-03	genotype_quality=1863.7	ks_quality_p_value=0.642706	log10_base_likelihood=-7.77768	log10_qual_likelihood_position_model=1.46443	log10_strand_likelihood_position_model=0.300178	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=6.18026e-08	ref_cov=181/191	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=182/192
RA	799	.	NC_007779	4226513	0	C	A	bias_e_value=0.0960444	bias_p_value=2.0671e-08	fisher_strand_p_value=9.49287e-10	frequency=3.482246e-02	genotype_quality=1278.0	ks_quality_p_value=1	log10_base_likelihood=-6.53645	log10_qual_likelihood_position_model=23.6327	log10_strand_likelihood_position_model=9.0226	new_cov=25/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=147/207	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=172/207
RA	800	.	NC_007779	4227183	0	T	G	bias_e_value=6.17437e-17	bias_p_value=1.32887e-23	fisher_strand_p_value=2.30183e-25	frequency=9.043837e-02	genotype_quality=1125.3	ks_quality_p_value=1	log10_base_likelihood=-20.4689	log10_qual_likelihood_position_model=41.3798	log10_strand_likelihood_position_model=24.6379	new_cov=51/0	polymorphism_quality=15.2	quality=15.2	quality_position_model=Inf	ref_cov=86/226	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/226
RA	801	.	NC_007779	4231874	0	G	T	bias_e_value=99.9268	bias_p_value=2.15066e-05	fisher_strand_p_value=1.49191e-06	frequency=3.500938e-02	genotype_quality=1310.1	ks_quality_p_value=1	log10_base_likelihood=-11.0843	log10_qual_likelihood_position_model=12.9712	log10_strand_likelihood_position_model=5.84117	new_cov=1/18	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=222/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=223/166
RA	802	.	NC_007779	4289840	0	G	T	bias_e_value=0.00203852	bias_p_value=4.38737e-10	fisher_strand_p_value=1.7007e-11	frequency=4.055786e-02	genotype_quality=1311.0	ks_quality_p_value=1	log10_base_likelihood=-9.80049	log10_qual_likelihood_position_model=23.529	log10_strand_likelihood_position_model=10.7694	new_cov=0/33	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=227/186	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=227/220
RA	803	.	NC_007779	4321435	0	G	C	bias_e_value=1.29001	bias_p_value=2.77641e-07	fisher_strand_p_value=1.45839e-08	frequency=3.170681e-02	genotype_quality=870.2	ks_quality_p_value=0.999678	log10_base_likelihood=-8.96334	log10_qual_likelihood_position_model=11.2832	log10_strand_likelihood_position_model=7.83613	new_cov=7/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=12/193	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=19/193
RA	804	.	NC_007779	4337469	0	A	C	bias_e_value=3.33785e-13	bias_p_value=7.18384e-20	fisher_strand_p_value=1.46695e-21	frequency=8.218336e-02	genotype_quality=896.4	ks_quality_p_value=1	log10_base_likelihood=-15.9224	log10_qual_likelihood_position_model=34.237	log10_strand_likelihood_position_model=20.8336	new_cov=0/46	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=175/73	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=175/119
RA	805	.	NC_007779	4345371	0	T	.	bias_e_value=1302810	bias_p_value=0.280395	fisher_strand_p_value=0.132114	frequency=9.762764e-03	genotype_quality=1644.3	ks_quality_p_value=0.600562	log10_base_likelihood=-9.7638	log10_qual_likelihood_position_model=4.00545	log10_strand_likelihood_position_model=0.934405	new_cov=1/3	polymorphism_quality=4.3	quality=4.3	quality_position_model=1.0586e-06	ref_cov=262/143	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=263/146
RA	806	.	NC_007779	4346634	0	A	T	bias_e_value=2460340	bias_p_value=0.529523	fisher_strand_p_value=0.246293	frequency=1.786804e-02	genotype_quality=1489.3	ks_quality_p_value=0.831448	log10_base_likelihood=-14.604	log10_qual_likelihood_position_model=5.06806	log10_strand_likelihood_position_model=0.968356	new_cov=1/6	polymorphism_quality=9.2	quality=9.2	quality_position_model=1.45782e-10	ref_cov=159/212	reject=POLYMORPHISM_STRAND	tot_cov=160/218
RA	807	.	NC_007779	4347492	0	C	A	bias_e_value=3727370	bias_p_value=0.802218	fisher_strand_p_value=0.447545	frequency=1.566410e-02	genotype_quality=1593.4	ks_quality_p_value=0.985832	log10_base_likelihood=-11.736	log10_qual_likelihood_position_model=4.2651	log10_strand_likelihood_position_model=0.633623	new_cov=2/4	polymorphism_quality=6.3	quality=6.3	quality_position_model=8.72052e-09	ref_cov=189/185	tot_cov=192/189
RA	808	.	NC_007779	4348529	0	T	G	bias_e_value=3.02713e-08	bias_p_value=6.51511e-15	fisher_strand_p_value=1.74746e-16	frequency=5.503988e-02	genotype_quality=983.8	ks_quality_p_value=1	log10_base_likelihood=-8.33335	log10_qual_likelihood_position_model=38.9413	log10_strand_likelihood_position_model=15.7576	new_cov=33/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=80/193	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/193
RA	809	.	NC_007779	4351353	0	T	G	bias_e_value=7.25635e-15	bias_p_value=1.56174e-21	fisher_strand_p_value=2.95356e-23	frequency=6.468773e-02	genotype_quality=1045.4	ks_quality_p_value=1	log10_base_likelihood=-5.83606	log10_qual_likelihood_position_model=56.1092	log10_strand_likelihood_position_model=22.5297	new_cov=48/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=81/203	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/203
RA	810	.	NC_007779	4371271	0	A	.	frequency=1	genotype_quality=1524.4	new_cov=156/147	quality=1524.4	ref_cov=1/0	tot_cov=157/147
RA	811	.	NC_007779	4371272	0	A	.	frequency=1	genotype_quality=1524.4	new_cov=156/147	quality=1524.4	ref_cov=1/0	tot_cov=157/147
RA	812	.	NC_007779	4403969	0	T	.	bias_e_value=4550160	bias_p_value=0.979301	fisher_strand_p_value=1	frequency=6.953239e-03	genotype_quality=1736.2	ks_quality_p_value=0.803559	log10_base_likelihood=-7.62935	log10_qual_likelihood_position_model=1.32669	log10_strand_likelihood_position_model=0.419986	new_cov=1/2	polymorphism_quality=2.1	quality=2.1	quality_position_model=8.43082e-08	ref_cov=212/216	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=213/218
RA	813	.	NC_007779	4414724	1	.	T	bias_e_value=1112920	bias_p_value=0.239527	fisher_strand_p_value=0.0702271	frequency=2.549553e-02	genotype_quality=1675.9	ks_quality_p_value=0.909253	log10_base_likelihood=-41.5976	log10_qual_likelihood_position_model=4.16565	log10_strand_likelihood_position_model=1.39588	new_cov=6/3	polymorphism_quality=36.5	quality=36.5	quality_position_model=2.46086e-38	ref_cov=117/227	reject=INDEL_HOMOPOLYMER	tot_cov=123/230
RA	814	.	NC_007779	4414725	0	T	.	bias_e_value=2597780	bias_p_value=0.559104	fisher_strand_p_value=0.669046	frequency=1.665878e-02	genotype_quality=1426.6	ks_quality_p_value=0.33478	log10_base_likelihood=-17.3757	log10_qual_likelihood_position_model=2.83479	log10_strand_likelihood_position_model=0.609866	new_cov=1/5	polymorphism_quality=12.1	quality=12.1	quality_position_model=4.99512e-16	ref_cov=124/229	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/235
RA	815	.	NC_007779	4419586	0	T	G	bias_e_value=18.2261	bias_p_value=3.92268e-06	fisher_strand_p_value=2.41605e-07	frequency=3.998852e-02	genotype_quality=1051.2	ks_quality_p_value=1	log10_base_likelihood=-6.91617	log10_qual_likelihood_position_model=21.9252	log10_strand_likelihood_position_model=6.79173	new_cov=22/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=148/165	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=170/165
RA	816	.	NC_007779	4420066	0	C	A	bias_e_value=0.000911846	bias_p_value=1.96251e-10	fisher_strand_p_value=7.36848e-12	frequency=3.638840e-02	genotype_quality=1324.9	ks_quality_p_value=1	log10_base_likelihood=-7.63006	log10_qual_likelihood_position_model=20.5294	log10_strand_likelihood_position_model=11.1326	new_cov=28/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=142/234	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=170/234
RA	817	.	NC_007779	4429120	0	G	T	bias_e_value=1.69797e-06	bias_p_value=3.65443e-13	fisher_strand_p_value=2.02486e-14	frequency=7.168007e-02	genotype_quality=1087.6	ks_quality_p_value=0.544619	log10_base_likelihood=-19.5639	log10_qual_likelihood_position_model=43.0148	log10_strand_likelihood_position_model=13.6936	new_cov=0/41	polymorphism_quality=14.3	quality=14.3	quality_position_model=Inf	ref_cov=181/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=181/177
RA	818	.	NC_007779	4429129	1	.	A	bias_e_value=1996150	bias_p_value=0.429618	fisher_strand_p_value=0.247774	frequency=8.875847e-03	genotype_quality=1654.5	ks_quality_p_value=0.594907	log10_base_likelihood=-12.4681	log10_qual_likelihood_position_model=1.77945	log10_strand_likelihood_position_model=0.906973	new_cov=0/3	polymorphism_quality=7.1	quality=7.1	quality_position_model=8.3572e-12	ref_cov=169/166	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=169/169
RA	819	.	NC_007779	4429130	0	A	.	bias_e_value=4645490	bias_p_value=0.999819	fisher_strand_p_value=1	frequency=8.865356e-03	genotype_quality=1357.9	ks_quality_p_value=0.981053	log10_base_likelihood=-7.52318	log10_qual_likelihood_position_model=2.213	log10_strand_likelihood_position_model=0.424682	new_cov=1/2	polymorphism_quality=2.0	quality=2.0	quality_position_model=9.13337e-07	ref_cov=168/167	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=169/169
RA	820	.	NC_007779	4455463	0	T	G	bias_e_value=2.20369e-06	bias_p_value=4.74286e-13	fisher_strand_p_value=1.44294e-14	frequency=4.379368e-02	genotype_quality=1068.0	ks_quality_p_value=1	log10_base_likelihood=-6.9564	log10_qual_likelihood_position_model=34.7469	log10_strand_likelihood_position_model=13.8408	new_cov=28/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=84/208	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/208
RA	821	.	NC_007779	4467463	0	T	.	bias_e_value=1682790	bias_p_value=0.362176	fisher_strand_p_value=0.114922	frequency=8.253098e-03	genotype_quality=1455.3	ks_quality_p_value=0.99446	log10_base_likelihood=-7.40093	log10_qual_likelihood_position_model=2.71842	log10_strand_likelihood_position_model=0.939598	new_cov=3/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=1.43316e-05	ref_cov=174/186	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=177/186
RA	822	.	NC_007779	4470575	1	.	T	bias_e_value=3248090	bias_p_value=0.699065	fisher_strand_p_value=0.5	frequency=6.172180e-03	genotype_quality=1592.8	ks_quality_p_value=0.665807	log10_base_likelihood=-7.04703	log10_qual_likelihood_position_model=2.64684	log10_strand_likelihood_position_model=0.556303	new_cov=2/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=1.12217e-05	ref_cov=169/153	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=171/153
RA	823	.	NC_007779	4477098	1	.	A	bias_e_value=2178130	bias_p_value=0.468785	fisher_strand_p_value=1	frequency=8.474350e-03	genotype_quality=1717.6	ks_quality_p_value=0.168622	log10_base_likelihood=-12.2774	log10_qual_likelihood_position_model=2.13278	log10_strand_likelihood_position_model=0.360332	new_cov=2/1	polymorphism_quality=6.9	quality=6.9	quality_position_model=8.30597e-12	ref_cov=213/138	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=215/139
RA	824	.	NC_007779	4479134	0	G	T	bias_e_value=9.73283	bias_p_value=2.09473e-06	fisher_strand_p_value=1.2427e-07	frequency=3.078651e-02	genotype_quality=1260.4	ks_quality_p_value=0.997204	log10_base_likelihood=-7.12677	log10_qual_likelihood_position_model=21.213	log10_strand_likelihood_position_model=6.92896	new_cov=0/24	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=191/190	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=191/214
RA	825	.	NC_007779	4479209	0	G	T	bias_e_value=0.594122	bias_p_value=1.27869e-07	fisher_strand_p_value=6.4382e-09	frequency=4.526234e-02	genotype_quality=1366.7	ks_quality_p_value=1	log10_base_likelihood=-12.6252	log10_qual_likelihood_position_model=22.4401	log10_strand_likelihood_position_model=8.21186	new_cov=0/28	polymorphism_quality=7.2	quality=7.2	quality_position_model=Inf	ref_cov=198/191	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=198/219
RA	826	.	NC_007779	4484644	1	.	T	bias_e_value=4223350	bias_p_value=0.908964	fisher_strand_p_value=1	frequency=5.633354e-03	genotype_quality=1762.5	ks_quality_p_value=0.60487	log10_base_likelihood=-7.91587	log10_qual_likelihood_position_model=1.1901	log10_strand_likelihood_position_model=0.301051	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.32195e-08	ref_cov=186/167	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=187/168
RA	827	.	NC_007779	4485617	1	.	G	bias_e_value=3780520	bias_p_value=0.813656	fisher_strand_p_value=0.498716	frequency=6.005287e-03	genotype_quality=1623.0	ks_quality_p_value=0.913269	log10_base_likelihood=-7.60181	log10_qual_likelihood_position_model=3.56646	log10_strand_likelihood_position_model=0.585247	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=2.91823e-05	ref_cov=168/163	reject=POLYMORPHISM_STRAND	tot_cov=170/163
RA	828	.	NC_007779	4486358	0	G	T	bias_e_value=14753.8	bias_p_value=0.00317536	fisher_strand_p_value=0.000367293	frequency=1.962280e-02	genotype_quality=1210.0	ks_quality_p_value=0.966688	log10_base_likelihood=-5.99038	log10_qual_likelihood_position_model=13.1252	log10_strand_likelihood_position_model=3.43499	new_cov=8/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=117/205	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/206
RA	829	.	NC_007779	4495728	0	T	.	bias_e_value=4068130	bias_p_value=0.875557	fisher_strand_p_value=1	frequency=9.699821e-03	genotype_quality=1657.7	ks_quality_p_value=0.544602	log10_base_likelihood=-10.3813	log10_qual_likelihood_position_model=2.33568	log10_strand_likelihood_position_model=0.424367	new_cov=2/2	polymorphism_quality=5.0	quality=5.0	quality_position_model=1.36218e-09	ref_cov=209/199	reject=INDEL_HOMOPOLYMER	tot_cov=211/201
RA	830	.	NC_007779	4510865	1	.	A	bias_e_value=2714010	bias_p_value=0.584118	fisher_strand_p_value=0.622137	frequency=7.614136e-03	genotype_quality=1944.7	ks_quality_p_value=0.387584	log10_base_likelihood=-12.2927	log10_qual_likelihood_position_model=2.59609	log10_strand_likelihood_position_model=0.427098	new_cov=1/2	polymorphism_quality=6.9	quality=6.9	quality_position_model=2.78883e-11	ref_cov=197/194	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=198/196
RA	831	.	NC_007779	4514698	0	A	G	bias_e_value=2206190	bias_p_value=0.474825	fisher_strand_p_value=0.581229	frequency=7.650375e-03	genotype_quality=1540.3	ks_quality_p_value=0.295983	log10_base_likelihood=-5.66542	log10_qual_likelihood_position_model=2.30065	log10_strand_likelihood_position_model=0.495136	new_cov=2/1	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.000120618	ref_cov=167/220	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=169/221
RA	832	.	NC_007779	4526048	1	.	G	bias_e_value=1928090	bias_p_value=0.41497	fisher_strand_p_value=0.215136	frequency=5.665779e-03	genotype_quality=1765.1	ks_quality_p_value=0.650075	log10_base_likelihood=-7.58561	log10_qual_likelihood_position_model=1.5166	log10_strand_likelihood_position_model=0.667286	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=2.6554e-07	ref_cov=162/189	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=164/189
RA	833	.	NC_007779	4537339	0	G	A	bias_e_value=3275770	bias_p_value=0.705023	fisher_strand_p_value=0.341115	frequency=1.037884e-02	genotype_quality=1574.4	ks_quality_p_value=0.991927	log10_base_likelihood=-5.92939	log10_qual_likelihood_position_model=3.59069	log10_strand_likelihood_position_model=0.669004	new_cov=3/1	polymorphism_quality=0.4	quality=0.4	quality_position_model=0.00241928	ref_cov=173/202	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=176/204
RA	834	.	NC_007779	4540870	0	T	G	bias_e_value=4.7393e-23	bias_p_value=1.02001e-29	fisher_strand_p_value=1.41605e-31	frequency=7.935190e-02	genotype_quality=1173.5	ks_quality_p_value=1	log10_base_likelihood=-10.6448	log10_qual_likelihood_position_model=47.114	log10_strand_likelihood_position_model=30.8489	new_cov=64/0	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=85/235	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=150/235
RA	835	.	NC_007779	4540877	0	A	T	bias_e_value=3.26533e-19	bias_p_value=7.02775e-26	fisher_strand_p_value=1.11443e-27	frequency=1.366415e-01	genotype_quality=1154.9	ks_quality_p_value=1	log10_base_likelihood=-41.8353	log10_qual_likelihood_position_model=38.0102	log10_strand_likelihood_position_model=26.9529	new_cov=55/0	polymorphism_quality=36.7	quality=36.7	quality_position_model=Inf	ref_cov=84/231	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/231
RA	836	.	NC_007779	4546535	0	T	A	frequency=1	genotype_quality=1202.2	new_cov=154/139	quality=1202.2	ref_cov=0/0	tot_cov=154/139
RA	837	.	NC_007779	4554525	1	.	T	bias_e_value=379366	bias_p_value=0.0816484	fisher_strand_p_value=0.0165536	frequency=1.593590e-02	genotype_quality=1160.1	ks_quality_p_value=0.959053	log10_base_likelihood=-16.6302	log10_qual_likelihood_position_model=5.10768	log10_strand_likelihood_position_model=1.78111	new_cov=4/0	polymorphism_quality=11.3	quality=11.3	quality_position_model=9.18732e-12	ref_cov=87/160	reject=POLYMORPHISM_STRAND	tot_cov=91/160
RA	838	.	NC_007779	4554532	0	T	C	bias_e_value=1.48137	bias_p_value=3.18826e-07	fisher_strand_p_value=1.68712e-08	frequency=5.883455e-02	genotype_quality=686.0	ks_quality_p_value=1	log10_base_likelihood=-13.3829	log10_qual_likelihood_position_model=16.5103	log10_strand_likelihood_position_model=7.78082	new_cov=15/1	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=48/161	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=63/162
RA	839	.	NC_007779	4554534	0	A	C	bias_e_value=16192.9	bias_p_value=0.00348509	fisher_strand_p_value=0.000394314	frequency=5.423450e-02	genotype_quality=614.4	ks_quality_p_value=1	log10_base_likelihood=-8.74901	log10_qual_likelihood_position_model=18.9576	log10_strand_likelihood_position_model=3.4861	new_cov=14/8	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=52/154	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=66/163
RA	840	.	NC_007779	4561440	1	.	T	bias_e_value=3039910	bias_p_value=0.65426	fisher_strand_p_value=1	frequency=2.272701e-02	genotype_quality=1452.2	ks_quality_p_value=0.294288	log10_base_likelihood=-31.6937	log10_qual_likelihood_position_model=4.01564	log10_strand_likelihood_position_model=0.541384	new_cov=5/2	polymorphism_quality=26.5	quality=26.5	quality_position_model=2.2451e-29	ref_cov=189/112	reject=INDEL_HOMOPOLYMER	tot_cov=194/114
RA	841	.	NC_007779	4561441	0	T	.	bias_e_value=2658860	bias_p_value=0.572248	fisher_strand_p_value=0.556304	frequency=9.574890e-03	genotype_quality=1204.0	ks_quality_p_value=0.41863	log10_base_likelihood=-7.66003	log10_qual_likelihood_position_model=1.9682	log10_strand_likelihood_position_model=0.592475	new_cov=3/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=5.47193e-07	ref_cov=196/114	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=199/114
RA	842	.	NC_007779	4573184	0	T	G	bias_e_value=1.36593e-09	bias_p_value=2.9398e-16	fisher_strand_p_value=7.26533e-18	frequency=4.592419e-02	genotype_quality=1181.3	ks_quality_p_value=1	log10_base_likelihood=-5.89663	log10_qual_likelihood_position_model=35.9421	log10_strand_likelihood_position_model=17.1892	new_cov=53/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=155/201	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=213/201
RA	843	.	NC_007779	4576471	0	G	T	bias_e_value=11.6955	bias_p_value=2.51715e-06	fisher_strand_p_value=1.50653e-07	frequency=6.208801e-02	genotype_quality=748.9	ks_quality_p_value=1	log10_base_likelihood=-6.81069	log10_qual_likelihood_position_model=19.4845	log10_strand_likelihood_position_model=6.85609	new_cov=0/25	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=108/110	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/136
RA	844	.	NC_007779	4584556	0	C	A	bias_e_value=0.00015669	bias_p_value=3.37234e-11	fisher_strand_p_value=1.18542e-12	frequency=5.934429e-02	genotype_quality=1276.1	ks_quality_p_value=0.999543	log10_base_likelihood=-17.2131	log10_qual_likelihood_position_model=31.3783	log10_strand_likelihood_position_model=11.9261	new_cov=33/0	polymorphism_quality=11.9	quality=11.9	quality_position_model=Inf	ref_cov=149/215	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=182/215
RA	845	.	NC_007779	4599760	0	C	A	bias_e_value=1.07708e-09	bias_p_value=2.31813e-16	fisher_strand_p_value=5.69467e-18	frequency=9.904146e-02	genotype_quality=1213.7	ks_quality_p_value=1	log10_base_likelihood=-29.0124	log10_qual_likelihood_position_model=33.2229	log10_strand_likelihood_position_model=17.2445	new_cov=50/0	polymorphism_quality=23.8	quality=23.8	quality_position_model=Inf	ref_cov=142/202	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=192/202
RA	846	.	NC_007779	4601746	1	.	T	bias_e_value=4559000	bias_p_value=0.981203	fisher_strand_p_value=1	frequency=5.050659e-03	genotype_quality=1953.7	ks_quality_p_value=0.812483	log10_base_likelihood=-7.65594	log10_qual_likelihood_position_model=1.45393	log10_strand_likelihood_position_model=0.303145	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=8.1119e-08	ref_cov=214/180	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=215/181
RA	847	.	NC_007779	4610781	0	A	C	bias_e_value=8.78376e-15	bias_p_value=1.89047e-21	fisher_strand_p_value=3.58848e-23	frequency=8.723068e-02	genotype_quality=1055.6	ks_quality_p_value=1	log10_base_likelihood=-31.9703	log10_qual_likelihood_position_model=36.8274	log10_strand_likelihood_position_model=22.4451	new_cov=0/47	polymorphism_quality=26.8	quality=26.8	quality_position_model=Inf	ref_cov=212/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=212/130
RA	848	.	NC_007779	4622730	0	G	T	bias_e_value=612.605	bias_p_value=0.000131847	fisher_strand_p_value=1.15355e-05	frequency=2.298355e-02	genotype_quality=1227.1	ks_quality_p_value=0.9176	log10_base_likelihood=-5.72593	log10_qual_likelihood_position_model=17.9173	log10_strand_likelihood_position_model=4.93796	new_cov=0/14	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=211/161	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=211/177
RA	849	.	NC_007779	4635770	0	G	T	bias_e_value=6.34595	bias_p_value=1.3658e-06	fisher_strand_p_value=7.86849e-08	frequency=4.360008e-02	genotype_quality=1066.4	ks_quality_p_value=1	log10_base_likelihood=-10.1726	log10_qual_likelihood_position_model=17.494	log10_strand_likelihood_position_model=7.19851	new_cov=0/26	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=167/174	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=168/200
RA	850	.	NC_007779	4636470	0	C	G	bias_e_value=0.00835949	bias_p_value=1.79916e-09	fisher_strand_p_value=7.39556e-11	frequency=4.196262e-02	genotype_quality=1064.7	ks_quality_p_value=1	log10_base_likelihood=-8.45812	log10_qual_likelihood_position_model=17.442	log10_strand_likelihood_position_model=10.131	new_cov=16/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=56/212	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=72/212
RA	851	.	NC_007779	4642414	1	.	A	bias_e_value=2089690	bias_p_value=0.44975	fisher_strand_p_value=0.187811	frequency=1.453400e-02	genotype_quality=1651.0	ks_quality_p_value=0.841889	log10_base_likelihood=-20.3393	log10_qual_likelihood_position_model=4.83389	log10_strand_likelihood_position_model=0.90625	new_cov=4/1	polymorphism_quality=15.1	quality=15.1	quality_position_model=1.04843e-16	ref_cov=156/183	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=160/184
RA	852	.	NC_007779	4644244	1	.	T	bias_e_value=3593700	bias_p_value=0.773448	fisher_strand_p_value=0.524282	frequency=6.493568e-03	genotype_quality=1485.7	ks_quality_p_value=0.777529	log10_base_likelihood=-7.51662	log10_qual_likelihood_position_model=2.16411	log10_strand_likelihood_position_model=0.425069	new_cov=2/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=8.25982e-07	ref_cov=187/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=189/119
MC	853	.	NC_007779	274733	371972	0	0	left_inside_cov=0	left_outside_cov=367	right_inside_cov=2	right_outside_cov=372
MC	854	.	NC_007779	654214	655412	1196	0	left_inside_cov=0	left_outside_cov=400	right_inside_cov=0	right_outside_cov=395
MC	855	.	NC_007779	1288306	1288526	69	67	left_inside_cov=289	left_outside_cov=293	right_inside_cov=291	right_outside_cov=295
MC	856	.	NC_007779	1301041	1302376	1326	0	left_inside_cov=0	left_outside_cov=379	right_inside_cov=0	right_outside_cov=385
MC	857	.	NC_007779	1413639	1436698	0	0	left_inside_cov=0	left_outside_cov=426	right_inside_cov=0	right_outside_cov=429
MC	858	.	NC_007779	2176983	2178208	0	0	left_inside_cov=0	left_outside_cov=460	right_inside_cov=0	right_outside_cov=349
MC	859	.	NC_007779	2320795	2322130	1330	0	left_inside_cov=0	left_outside_cov=405	right_inside_cov=0	right_outside_cov=403
MC	860	.	NC_007779	3128819	3147473	1183	0	left_inside_cov=287	left_outside_cov=293	right_inside_cov=0	right_outside_cov=609
MC	861	.	NC_007779	3261134	3262337	1198	0	left_inside_cov=0	left_outside_cov=416	right_inside_cov=0	right_outside_cov=308
MC	862	.	NC_007779	3742936	3744271	1328	0	left_inside_cov=0	left_outside_cov=430	right_inside_cov=2	right_outside_cov=426
MC	863	.	NC_007779	3746911	3748109	0	0	left_inside_cov=0	left_outside_cov=418	right_inside_cov=1	right_outside_cov=419
MC	864	.	NC_007779	3750591	3751789	1197	0	left_inside_cov=0	left_outside_cov=433	right_inside_cov=0	right_outside_cov=433
MC	865	.	NC_007779	3958123	3958156	0	0	left_inside_cov=0	left_outside_cov=398	right_inside_cov=0	right_outside_cov=401
MC	866	.	NC_007779	4310363	4311561	0	0	left_inside_cov=0	left_outside_cov=431	right_inside_cov=0	right_outside_cov=430
JC	867	.	NC_007779	1	1	NC_007779	4646332	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=180	coverage_plus=184	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1__1__NC_007779__4646332__-1__0____101__101__0__0	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.03	new_junction_frequency=1.000000e+00	new_junction_read_count=364	pos_hash_score=151	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=364
JC	868	.	NC_007779	105357	-1	NC_007779	105361	1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=1.864002e-01	junction_possible_overlap_registers=90	key=NC_007779__105357__-1__NC_007779__105361__1__0____101__101__0__0	max_left=66	max_left_minus=66	max_left_plus=63	max_min_left=24	max_min_left_minus=0	max_min_left_plus=24	max_min_right=43	max_min_right_minus=35	max_min_right_plus=43	max_pos_hash_score=156	max_right=77	max_right_minus=35	max_right_plus=77	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.19	new_junction_frequency=1.864002e-01	new_junction_read_count=66	pos_hash_score=4	side_1_annotate_key=gene	side_1_continuation=12	side_1_coverage=0.81	side_1_overlap=0	side_1_possible_overlap_registers=78	side_1_read_count=248	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.82	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=290	side_2_redundant=0	total_non_overlap_reads=4
JC	869	.	NC_007779	273179	1	NC_007779	657877	1	0	alignment_overlap=0	coverage_minus=153	coverage_plus=179	flanking_left=101	flanking_right=101	frequency=9.736070e-01	junction_possible_overlap_registers=90	key=NC_007779__273179__1__NC_007779__657877__1__0____101__101__1__0	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.94	new_junction_frequency=9.736070e-01	new_junction_read_count=332	pos_hash_score=151	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=9	side_2_redundant=0	total_non_overlap_reads=332
JC	870	.	NC_007779	274373	-1	NC_007779	657880	-1	0	alignment_overlap=0	coverage_minus=126	coverage_plus=149	flanking_left=101	flanking_right=101	frequency=9.683099e-01	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__657880__-1__0____101__101__1__0	max_left=83	max_left_minus=83	max_left_plus=83	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.78	new_junction_frequency=9.683099e-01	new_junction_read_count=275	pos_hash_score=132	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=9	side_2_redundant=0	total_non_overlap_reads=275
JC	871	.	NC_007779	274373	-1	NC_007779	679371	1	0	alignment_overlap=0	coverage_minus=17	coverage_plus=30	flanking_left=101	flanking_right=101	frequency=1.287879e-01	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__679371__1__0____101__101__1__0	max_left=90	max_left_minus=89	max_left_plus=90	max_min_left=50	max_min_left_minus=40	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=94	max_right_minus=94	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.14	new_junction_frequency=1.287879e-01	new_junction_read_count=51	pos_hash_score=38	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.98	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=345	side_2_redundant=0	total_non_overlap_reads=47
JC	872	.	NC_007779	274732	-1	NC_007779	371973	1	0	alignment_overlap=8	coverage_minus=147	coverage_plus=148	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=80	key=NC_007779__274732__-1__NC_007779__371965__1__8____101__101__0__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=46	max_min_left_minus=45	max_min_left_plus=46	max_min_right=46	max_min_right_minus=46	max_min_right_plus=46	max_pos_hash_score=160	max_right=87	max_right_minus=87	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=1.000000e+00	new_junction_read_count=289	pos_hash_score=138	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=2	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=80	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=295
JC	873	.	NC_007779	289856	1	NC_007779	2176982	-1	-33	alignment_overlap=-33	coverage_minus=130	coverage_plus=159	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=57	key=NC_007779__289856__1__NC_007779__2176982__-1__-33__CTATTGCAATACCGCATTGTGAGGCGATTCATG__101__101__1__0	max_left=62	max_left_minus=62	max_left_plus=62	max_min_left=33	max_min_left_minus=33	max_min_left_plus=33	max_min_right=34	max_min_right_minus=34	max_min_right_plus=34	max_pos_hash_score=114	max_right=62	max_right_minus=62	max_right_plus=62	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.29	new_junction_frequency=1.000000e+00	new_junction_read_count=290	pos_hash_score=106	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=289	unique_read_sequence=CTATTGCAATACCGCATTGTGAGGCGATTCATG
JC	874	.	NC_007779	380484	1	NC_007779	381407	-1	0	alignment_overlap=0	coverage_minus=217	coverage_plus=151	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=90	key=NC_007779__380484__1__NC_007779__381407__-1__0____101__101__1__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=NA	new_junction_read_count=371	pos_hash_score=152	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=368
JC	875	.	NC_007779	381401	1	NC_007779	381812	-1	0	alignment_overlap=2	coverage_minus=161	coverage_plus=203	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=88	key=NC_007779__381401__1__NC_007779__381814__-1__2____101__101__1__1	max_left=92	max_left_minus=92	max_left_plus=92	max_min_left=49	max_min_left_minus=49	max_min_left_plus=48	max_min_right=49	max_min_right_minus=48	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=92	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=NA	new_junction_read_count=365	pos_hash_score=143	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=2	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=364
JC	876	.	NC_007779	608570	-1	NC_007779	1305025	1	0	alignment_overlap=3	coverage_minus=156	coverage_plus=193	flanking_left=101	flanking_right=101	frequency=9.501403e-01	junction_possible_overlap_registers=87	key=NC_007779__608573__-1__NC_007779__1305025__1__3____101__101__1__0	max_left=92	max_left_minus=92	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=49	max_min_right_minus=47	max_min_right_plus=49	max_pos_hash_score=174	max_right=92	max_right_minus=92	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.02	new_junction_frequency=9.501403e-01	new_junction_read_count=350	pos_hash_score=135	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.05	side_2_overlap=3	side_2_possible_overlap_registers=90	side_2_read_count=19	side_2_redundant=0	total_non_overlap_reads=349
JC	877	.	NC_007779	654213	-1	NC_007779	655413	1	0	alignment_overlap=5	coverage_minus=175	coverage_plus=156	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=85	key=NC_007779__654213__-1__NC_007779__655408__1__5____101__101__0__0	max_left=90	max_left_minus=90	max_left_plus=88	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=170	max_right=90	max_right_minus=90	max_right_plus=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.00	new_junction_frequency=1.000000e+00	new_junction_read_count=333	pos_hash_score=142	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=5	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=85	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=331
JC	878	.	NC_007779	1209367	1	NC_007779	1211196	1	0	alignment_overlap=16	coverage_minus=14	coverage_plus=26	flanking_left=101	flanking_right=101	frequency=2.339029e-01	junction_possible_overlap_registers=74	key=NC_007779__1209367__1__NC_007779__1211180__1__16____101__101__0__0	max_left=79	max_left_minus=79	max_left_plus=76	max_min_left=42	max_min_left_minus=41	max_min_left_plus=42	max_min_right=42	max_min_right_minus=37	max_min_right_plus=42	max_pos_hash_score=148	max_right=79	max_right_minus=69	max_right_plus=79	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.14	new_junction_frequency=2.339029e-01	new_junction_read_count=40	pos_hash_score=34	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.46	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=163	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.44	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=128	side_2_redundant=0	total_non_overlap_reads=40
JC	879	.	NC_007779	1209382	-1	NC_007779	1211179	-1	0	alignment_overlap=16	coverage_minus=26	coverage_plus=12	flanking_left=101	flanking_right=101	frequency=2.253855e-01	junction_possible_overlap_registers=74	key=NC_007779__1209382__-1__NC_007779__1211195__-1__16____101__101__0__0	max_left=79	max_left_minus=79	max_left_plus=60	max_min_left=39	max_min_left_minus=38	max_min_left_plus=39	max_min_right=42	max_min_right_minus=42	max_min_right_plus=37	max_pos_hash_score=148	max_right=79	max_right_minus=79	max_right_plus=76	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.13	new_junction_frequency=2.253855e-01	new_junction_read_count=38	pos_hash_score=34	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.46	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=162	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.44	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=128	side_2_redundant=0	total_non_overlap_reads=38
JC	880	.	NC_007779	1221489	1	NC_007779	1301041	1	0	alignment_overlap=2	coverage_minus=153	coverage_plus=163	flanking_left=101	flanking_right=101	frequency=9.787996e-01	junction_possible_overlap_registers=88	key=NC_007779__1221489__1__NC_007779__1301039__1__2____101__101__0__1	max_left=93	max_left_minus=92	max_left_plus=93	max_min_left=49	max_min_left_minus=48	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=176	max_right=86	max_right_minus=84	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.91	new_junction_frequency=9.787996e-01	new_junction_read_count=316	pos_hash_score=135	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=7	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=316
JC	881	.	NC_007779	1221495	-1	NC_007779	1302369	-1	0	alignment_overlap=0	coverage_minus=161	coverage_plus=129	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1221495__-1__NC_007779__1302369__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=88	max_right_minus=88	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.82	new_junction_frequency=1.000000e+00	new_junction_read_count=291	pos_hash_score=132	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=290
JC	882	.	NC_007779	1301040	-1	NC_007779	1302377	1	0	alignment_overlap=7	coverage_minus=164	coverage_plus=142	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=83	key=NC_007779__1301040__-1__NC_007779__1302370__1__7____101__101__0__0	max_left=88	max_left_minus=88	max_left_plus=88	max_min_left=46	max_min_left_minus=46	max_min_left_plus=46	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=166	max_right=88	max_right_minus=88	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.94	new_junction_frequency=1.000000e+00	new_junction_read_count=306	pos_hash_score=127	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=7	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=83	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=306
JC	883	.	NC_007779	1305037	-1	NC_007779	2519723	1	0	alignment_overlap=4	coverage_minus=185	coverage_plus=208	flanking_left=101	flanking_right=101	frequency=9.537386e-01	junction_possible_overlap_registers=86	key=NC_007779__1305037__-1__NC_007779__2519719__1__4____101__101__0__1	max_left=91	max_left_minus=90	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.17	new_junction_frequency=9.537386e-01	new_junction_read_count=394	pos_hash_score=144	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.06	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=20	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=393
JC	884	.	NC_007779	1397758	1	NC_007779	1672777	1	0	alignment_overlap=0	coverage_minus=143	coverage_plus=157	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1397758__1__NC_007779__1672777__1__0____101__101__1__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=1.000000e+00	new_junction_read_count=300	pos_hash_score=130	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=300
JC	885	.	NC_007779	1413638	-1	NC_007779	1436699	1	0	alignment_overlap=26	coverage_minus=133	coverage_plus=135	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=64	key=NC_007779__1413638__-1__NC_007779__1436673__1__26____101__101__0__0	max_left=69	max_left_minus=69	max_left_plus=69	max_min_left=37	max_min_left_minus=36	max_min_left_plus=37	max_min_right=37	max_min_right_minus=37	max_min_right_plus=37	max_pos_hash_score=128	max_right=69	max_right_minus=69	max_right_plus=69	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=268	pos_hash_score=113	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=26	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=64	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=268
JC	886	.	NC_007779	1672780	-1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=152	coverage_plus=144	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1672780__-1__NC_007779__1980209__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=86	max_right_minus=85	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.84	new_junction_frequency=1.000000e+00	new_junction_read_count=298	pos_hash_score=136	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=296
JC	887	.	NC_007779	1907280	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=195	coverage_plus=149	flanking_left=101	flanking_right=101	frequency=9.690141e-01	junction_possible_overlap_registers=90	key=NC_007779__1907280__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.97	new_junction_frequency=9.690141e-01	new_junction_read_count=344	pos_hash_score=148	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=11	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=344
JC	888	.	NC_007779	1907288	-1	NC_007779	2411458	1	0	alignment_overlap=0	coverage_minus=161	coverage_plus=191	flanking_left=101	flanking_right=101	frequency=9.513514e-01	junction_possible_overlap_registers=90	key=NC_007779__1907288__-1__NC_007779__2411458__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=46	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=9.513514e-01	new_junction_read_count=352	pos_hash_score=159	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.05	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=18	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=352
JC	889	.	NC_007779	1980091	1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=160	coverage_plus=64	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1980091__1__NC_007779__1980209__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=47	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=82	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.63	new_junction_frequency=1.000000e+00	new_junction_read_count=224	pos_hash_score=112	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=224
JC	890	.	NC_007779	1980095	-1	NC_007779	2176984	1	0	alignment_overlap=1	coverage_minus=191	coverage_plus=151	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__1980095__-1__NC_007779__2176983__1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=92	max_right_minus=92	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=1.000000e+00	new_junction_read_count=342	pos_hash_score=139	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=342
JC	891	.	NC_007779	2178209	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=151	coverage_plus=173	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2178209__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=87	max_right_minus=87	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=1.000000e+00	new_junction_read_count=325	pos_hash_score=132	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=324
JC	892	.	NC_007779	2320794	-1	NC_007779	2322131	1	0	alignment_overlap=6	coverage_minus=175	coverage_plus=161	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__2320794__-1__NC_007779__2322125__1__6____101__101__0__0	max_left=89	max_left_minus=89	max_left_plus=89	max_min_left=47	max_min_left_minus=47	max_min_left_plus=46	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.03	new_junction_frequency=1.000000e+00	new_junction_read_count=339	pos_hash_score=143	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=6	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=84	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=336
JC	893	.	NC_007779	2320794	1	NC_007779	2589834	-1	0	alignment_overlap=0	coverage_minus=109	coverage_plus=173	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2320794__1__NC_007779__2589834__-1__0____101__101__1__0	max_left=85	max_left_minus=83	max_left_plus=85	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.80	new_junction_frequency=1.000000e+00	new_junction_read_count=283	pos_hash_score=125	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=282
JC	894	.	NC_007779	2322124	-1	NC_007779	2589830	1	0	alignment_overlap=0	coverage_minus=183	coverage_plus=240	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2322124__-1__NC_007779__2589830__1__0____101__101__1__0	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.20	new_junction_frequency=1.000000e+00	new_junction_read_count=423	pos_hash_score=161	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=423
JC	895	.	NC_007779	2411458	1	NC_007779	2985055	-1	0	alignment_overlap=0	coverage_minus=151	coverage_plus=192	flanking_left=101	flanking_right=101	frequency=9.426230e-01	junction_possible_overlap_registers=90	key=NC_007779__2411458__1__NC_007779__2985055__-1__0____101__101__1__0	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=9.426230e-01	new_junction_read_count=345	pos_hash_score=145	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.06	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=21	side_2_redundant=0	total_non_overlap_reads=343
JC	896	.	NC_007779	2412225	-1	NC_007779	2985047	1	0	alignment_overlap=0	coverage_minus=139	coverage_plus=143	flanking_left=101	flanking_right=101	frequency=9.463087e-01	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2985047__1__0____101__101__1__0	max_left=89	max_left_minus=87	max_left_plus=89	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.80	new_junction_frequency=9.463087e-01	new_junction_read_count=282	pos_hash_score=134	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.05	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=16	side_2_redundant=0	total_non_overlap_reads=282
JC	897	.	NC_007779	2865229	1	NC_007779	2865274	-1	0	alignment_overlap=4	coverage_minus=21	coverage_plus=22	flanking_left=101	flanking_right=101	frequency=1.437785e-01	junction_possible_overlap_registers=86	key=NC_007779__2865229__1__NC_007779__2865278__-1__4____101__101__0__0	max_left=91	max_left_minus=86	max_left_plus=91	max_min_left=46	max_min_left_minus=45	max_min_left_plus=46	max_min_right=46	max_min_right_minus=44	max_min_right_plus=46	max_pos_hash_score=172	max_right=91	max_right_minus=87	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.16	new_junction_frequency=1.437785e-01	new_junction_read_count=54	pos_hash_score=35	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.94	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=334	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.96	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=324	side_2_redundant=0	total_non_overlap_reads=43
JC	898	.	NC_007779	3147474	1	NC_007779	3262328	-1	0	alignment_overlap=0	coverage_minus=194	coverage_plus=201	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3147474__1__NC_007779__3262328__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.12	new_junction_frequency=1.000000e+00	new_junction_read_count=395	pos_hash_score=164	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=395
JC	899	.	NC_007779	3186081	-1	NC_007779	3512753	1	0	alignment_overlap=1	coverage_minus=169	coverage_plus=182	flanking_left=101	flanking_right=101	frequency=9.672974e-01	junction_possible_overlap_registers=89	key=NC_007779__3186082__-1__NC_007779__3512753__1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=47	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.00	new_junction_frequency=9.672974e-01	new_junction_read_count=351	pos_hash_score=145	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=12	side_2_redundant=0	total_non_overlap_reads=351
JC	900	.	NC_007779	3261133	-1	NC_007779	3748109	-1	-6	alignment_overlap=-6	coverage_minus=198	coverage_plus=176	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__3261133__-1__NC_007779__3748109__-1__-6__CTTTGC__101__101__0__1	max_left=89	max_left_minus=89	max_left_plus=89	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.13	new_junction_frequency=1.000000e+00	new_junction_read_count=374	pos_hash_score=153	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=374	unique_read_sequence=CTTTGC
JC	901	.	NC_007779	3261134	1	NC_007779	3265774	1	0	alignment_overlap=0	coverage_minus=184	coverage_plus=169	flanking_left=101	flanking_right=101	frequency=9.971751e-01	junction_possible_overlap_registers=90	key=NC_007779__3261134__1__NC_007779__3265774__1__0____101__101__1__0	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.00	new_junction_frequency=9.971751e-01	new_junction_read_count=353	pos_hash_score=156	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=353
JC	902	.	NC_007779	3261135	1	NC_007779	3262338	1	0	alignment_overlap=1	coverage_minus=137	coverage_plus=157	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__3261134__1__NC_007779__3262338__1__1____101__101__1__0	max_left=85	max_left_minus=84	max_left_plus=85	max_min_left=49	max_min_left_minus=48	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.84	new_junction_frequency=1.000000e+00	new_junction_read_count=294	pos_hash_score=130	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=294
JC	903	.	NC_007779	3265777	-1	NC_007779	3365411	1	0	alignment_overlap=0	coverage_minus=204	coverage_plus=191	flanking_left=101	flanking_right=101	frequency=9.974811e-01	junction_possible_overlap_registers=90	key=NC_007779__3265777__-1__NC_007779__3365411__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.12	new_junction_frequency=9.974811e-01	new_junction_read_count=396	pos_hash_score=161	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=1	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=395
JC	904	.	NC_007779	3512759	-1	NC_007779	3744262	-1	0	alignment_overlap=1	coverage_minus=132	coverage_plus=197	flanking_left=101	flanking_right=101	frequency=9.681823e-01	junction_possible_overlap_registers=89	key=NC_007779__3512759__-1__NC_007779__3744263__-1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=91	max_right_minus=84	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.95	new_junction_frequency=9.681823e-01	new_junction_read_count=331	pos_hash_score=133	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=11	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=329
JC	905	.	NC_007779	3742935	-1	NC_007779	3744272	1	0	alignment_overlap=8	coverage_minus=187	coverage_plus=152	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=82	key=NC_007779__3742935__-1__NC_007779__3744264__1__8____101__101__0__0	max_left=87	max_left_minus=87	max_left_plus=86	max_min_left=46	max_min_left_minus=46	max_min_left_plus=46	max_min_right=46	max_min_right_minus=44	max_min_right_plus=46	max_pos_hash_score=164	max_right=87	max_right_minus=87	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.06	new_junction_frequency=1.000000e+00	new_junction_read_count=343	pos_hash_score=134	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=82	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=339
JC	906	.	NC_007779	3744263	-1	NC_007779	3903274	1	0	alignment_overlap=0	coverage_minus=191	coverage_plus=152	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3744263__-1__NC_007779__3903274__1__0____101__101__1__0	max_left=88	max_left_minus=87	max_left_plus=88	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.97	new_junction_frequency=1.000000e+00	new_junction_read_count=343	pos_hash_score=146	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=343
JC	907	.	NC_007779	3746910	-1	NC_007779	3748110	1	0	alignment_overlap=4	coverage_minus=160	coverage_plus=196	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3746910__-1__NC_007779__3748106__1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=89	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=90	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.06	new_junction_frequency=1.000000e+00	new_junction_read_count=357	pos_hash_score=145	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=356
JC	908	.	NC_007779	3746911	1	NC_007779	3748646	-1	0	alignment_overlap=0	coverage_minus=167	coverage_plus=137	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3746911__1__NC_007779__3748646__-1__0____101__101__1__0	max_left=92	max_left_minus=92	max_left_plus=92	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.10	new_junction_frequency=1.000000e+00	new_junction_read_count=390	pos_hash_score=149	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=304
JC	909	.	NC_007779	3748105	-1	NC_007779	3748643	1	0	alignment_overlap=0	coverage_minus=170	coverage_plus=185	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3748105__-1__NC_007779__3748643__1__0____101__101__1__0	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=356	pos_hash_score=147	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=355
JC	910	.	NC_007779	3750590	-1	NC_007779	3751790	1	0	alignment_overlap=4	coverage_minus=190	coverage_plus=190	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3750590__-1__NC_007779__3751786__1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.13	new_junction_frequency=1.000000e+00	new_junction_read_count=381	pos_hash_score=150	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=380
JC	911	.	NC_007779	3903279	-1	NC_007779	4504190	-1	0	alignment_overlap=1	coverage_minus=176	coverage_plus=174	flanking_left=101	flanking_right=101	frequency=9.806058e-01	junction_possible_overlap_registers=89	key=NC_007779__3903279__-1__NC_007779__4504191__-1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.00	new_junction_frequency=9.806058e-01	new_junction_read_count=350	pos_hash_score=146	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=7	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=350
JC	912	.	NC_007779	3958122	-1	NC_007779	3958157	1	0	alignment_overlap=2	coverage_minus=159	coverage_plus=180	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=88	key=NC_007779__3958122__-1__NC_007779__3958155__1__2____101__101__0__0	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=47	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=1.000000e+00	new_junction_read_count=339	pos_hash_score=147	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=88	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=339
JC	913	.	NC_007779	3987186	1	NC_007779	4009203	-1	0	alignment_overlap=1	coverage_minus=176	coverage_plus=170	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__3987185__1__NC_007779__4009203__-1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=1.000000e+00	new_junction_read_count=346	pos_hash_score=151	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=346
JC	914	.	NC_007779	3988379	-1	NC_007779	4009199	1	0	alignment_overlap=0	coverage_minus=163	coverage_plus=184	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3988379__-1__NC_007779__4009199__1__0____101__101__1__0	max_left=86	max_left_minus=86	max_left_plus=86	max_min_left=50	max_min_left_minus=50	max_min_left_plus=48	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=1.000000e+00	new_junction_read_count=348	pos_hash_score=143	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=347
JC	915	.	NC_007779	4310362	-1	NC_007779	4311562	1	0	alignment_overlap=4	coverage_minus=204	coverage_plus=163	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__4310362__-1__NC_007779__4311558__1__4____101__101__0__0	max_left=91	max_left_minus=90	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=47	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.09	new_junction_frequency=1.000000e+00	new_junction_read_count=370	pos_hash_score=147	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=367
JC	916	.	NC_007779	4310363	1	NC_007779	4353540	1	0	alignment_overlap=0	coverage_minus=161	coverage_plus=184	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4310363__1__NC_007779__4353540__1__0____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=1.000000e+00	new_junction_read_count=350	pos_hash_score=153	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=345
JC	917	.	NC_007779	4311557	-1	NC_007779	4353543	-1	0	alignment_overlap=0	coverage_minus=165	coverage_plus=156	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4311557__-1__NC_007779__4353543__-1__0____101__101__1__0	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.96	new_junction_frequency=1.000000e+00	new_junction_read_count=339	pos_hash_score=145	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=321
JC	918	.	NC_007779	4355060	1	NC_007779	4502861	1	0	alignment_overlap=0	coverage_minus=157	coverage_plus=218	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4355060__1__NC_007779__4502861__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.06	new_junction_frequency=1.000000e+00	new_junction_read_count=375	pos_hash_score=152	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=375
JC	919	.	NC_007779	4355066	-1	NC_007779	4504189	-1	0	alignment_overlap=2	coverage_minus=176	coverage_plus=189	flanking_left=101	flanking_right=101	frequency=9.920275e-01	junction_possible_overlap_registers=88	key=NC_007779__4355066__-1__NC_007779__4504191__-1__2____101__101__0__1	max_left=93	max_left_minus=93	max_left_plus=90	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=9.920275e-01	new_junction_read_count=365	pos_hash_score=152	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.01	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=3	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=365
JC	920	.	NC_007779	4547362	1	NC_007779	4547676	1	0	alignment_overlap=9	coverage_minus=14	coverage_plus=14	flanking_left=101	flanking_right=101	frequency=9.546539e-02	junction_possible_overlap_registers=81	key=NC_007779__4547362__1__NC_007779__4547667__1__9____101__101__0__0	max_left=86	max_left_minus=86	max_left_plus=84	max_min_left=44	max_min_left_minus=32	max_min_left_plus=44	max_min_right=43	max_min_right_minus=33	max_min_right_plus=43	max_pos_hash_score=162	max_right=85	max_right_minus=82	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.09	new_junction_frequency=9.546539e-02	new_junction_read_count=28	pos_hash_score=23	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.86	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=304	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.81	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=257	side_2_redundant=0	total_non_overlap_reads=28
JC	921	.	NC_007779	4547370	-1	NC_007779	4547666	-1	0	alignment_overlap=9	coverage_minus=11	coverage_plus=12	flanking_left=101	flanking_right=101	frequency=7.952974e-02	junction_possible_overlap_registers=81	key=NC_007779__4547370__-1__NC_007779__4547675__-1__9____101__101__0__0	max_left=86	max_left_minus=86	max_left_plus=67	max_min_left=42	max_min_left_minus=38	max_min_left_plus=42	max_min_right=43	max_min_right_minus=43	max_min_right_plus=25	max_pos_hash_score=162	max_right=86	max_right_minus=86	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.07	new_junction_frequency=7.952974e-02	new_junction_read_count=23	pos_hash_score=20	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.86	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=306	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.81	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=257	side_2_redundant=0	total_non_overlap_reads=23
UN	922	.	NC_007779	15485	16634
UN	923	.	NC_007779	19895	20465
UN	924	.	NC_007779	223637	223642
UN	925	.	NC_007779	223840	224673
UN	926	.	NC_007779	224989	225488
UN	927	.	NC_007779	225835	225923
UN	928	.	NC_007779	226121	226202
UN	929	.	NC_007779	226399	226505
UN	930	.	NC_007779	226701	226871
UN	931	.	NC_007779	227085	228591
UN	932	.	NC_007779	228787	228911
UN	933	.	NC_007779	269859	270423
UN	934	.	NC_007779	270706	270712
UN	935	.	NC_007779	273277	274276
UN	936	.	NC_007779	274733	371972
UN	937	.	NC_007779	380576	381723
UN	938	.	NC_007779	391029	392101
UN	939	.	NC_007779	525194	525848
UN	940	.	NC_007779	566089	567161
UN	941	.	NC_007779	573905	574918
UN	942	.	NC_007779	580439	580490
UN	943	.	NC_007779	607325	608476
UN	944	.	NC_007779	654214	655412
UN	945	.	NC_007779	688366	689375
UN	946	.	NC_007779	730321	730467
UN	947	.	NC_007779	730827	730860
UN	948	.	NC_007779	732504	732614
UN	949	.	NC_007779	733122	733151
UN	950	.	NC_007779	734995	735022
UN	951	.	NC_007779	1050349	1050399
UN	952	.	NC_007779	1050560	1050736
UN	953	.	NC_007779	1094763	1095829
UN	954	.	NC_007779	1105719	1106860
UN	955	.	NC_007779	1270768	1270799
UN	956	.	NC_007779	1271823	1271823
UN	957	.	NC_007779	1271838	1271869
UN	958	.	NC_007779	1288372	1288460
UN	959	.	NC_007779	1301041	1302376
UN	960	.	NC_007779	1397851	1398861
UN	961	.	NC_007779	1413639	1436698
UN	962	.	NC_007779	1469722	1470864
UN	963	.	NC_007779	1471108	1472133
UN	964	.	NC_007779	1530140	1530792
UN	965	.	NC_007779	1533980	1534024
UN	966	.	NC_007779	1572480	1572486
UN	967	.	NC_007779	1572681	1572963
UN	968	.	NC_007779	1573218	1573420
UN	969	.	NC_007779	1634761	1634838
UN	970	.	NC_007779	1635034	1635244
UN	971	.	NC_007779	1635440	1635539
UN	972	.	NC_007779	1635910	1636254
UN	973	.	NC_007779	1636451	1636637
UN	974	.	NC_007779	1637648	1637699
UN	975	.	NC_007779	1652655	1653165
UN	976	.	NC_007779	1980303	1981310
UN	977	.	NC_007779	2068410	2068504
UN	978	.	NC_007779	2068701	2068747
UN	979	.	NC_007779	2068962	2069337
UN	980	.	NC_007779	2071175	2072318
UN	981	.	NC_007779	2103980	2104988
UN	982	.	NC_007779	2172403	2173467
UN	983	.	NC_007779	2176983	2178208
UN	984	.	NC_007779	2292349	2293349
UN	985	.	NC_007779	2308005	2308023
UN	986	.	NC_007779	2308231	2308249
UN	987	.	NC_007779	2320795	2322130
UN	988	.	NC_007779	2411554	2412127
UN	989	.	NC_007779	2519817	2520966
UN	990	.	NC_007779	2724816	2727806
UN	991	.	NC_007779	2728092	2728121
UN	992	.	NC_007779	2728321	2729507
UN	993	.	NC_007779	2729833	2729930
UN	994	.	NC_007779	2995113	2996257
UN	995	.	NC_007779	3128895	3147473
UN	996	.	NC_007779	3184842	3185985
UN	997	.	NC_007779	3261134	3262337
UN	998	.	NC_007779	3365505	3366513
UN	999	.	NC_007779	3423615	3424411
UN	1000	.	NC_007779	3424605	3426562
UN	1001	.	NC_007779	3426760	3426847
UN	1002	.	NC_007779	3427045	3428592
UN	1003	.	NC_007779	3459669	3460042
UN	1004	.	NC_007779	3460237	3460348
UN	1005	.	NC_007779	3465132	3468011
UN	1006	.	NC_007779	3468300	3468330
UN	1007	.	NC_007779	3468559	3470288
UN	1008	.	NC_007779	3596172	3597191
UN	1009	.	NC_007779	3597394	3597855
UN	1010	.	NC_007779	3598088	3598748
UN	1011	.	NC_007779	3598944	3599186
UN	1012	.	NC_007779	3599298	3599491
UN	1013	.	NC_007779	3599687	3600853
UN	1014	.	NC_007779	3601046	3601421
UN	1015	.	NC_007779	3689826	3689895
UN	1016	.	NC_007779	3690160	3690355
UN	1017	.	NC_007779	3690552	3690668
UN	1018	.	NC_007779	3690874	3691014
UN	1019	.	NC_007779	3691208	3692523
UN	1020	.	NC_007779	3692789	3693186
UN	1021	.	NC_007779	3693384	3694550
UN	1022	.	NC_007779	3694746	3694931
UN	1023	.	NC_007779	3742936	3744271
UN	1024	.	NC_007779	3746911	3748109
UN	1025	.	NC_007779	3750591	3751789
UN	1026	.	NC_007779	3874863	3874904
UN	1027	.	NC_007779	3875223	3876241
UN	1028	.	NC_007779	3876438	3878053
UN	1029	.	NC_007779	3958123	3958156
UN	1030	.	NC_007779	3973174	3973377
UN	1031	.	NC_007779	3973631	3973913
UN	1032	.	NC_007779	3974108	3974114
UN	1033	.	NC_007779	3987277	3988286
UN	1034	.	NC_007779	4015543	4015587
UN	1035	.	NC_007779	4017854	4017897
UN	1036	.	NC_007779	4018215	4019232
UN	1037	.	NC_007779	4019430	4021044
UN	1038	.	NC_007779	4056314	4056890
UN	1039	.	NC_007779	4169476	4169587
UN	1040	.	NC_007779	4169782	4170155
UN	1041	.	NC_007779	4211518	4211763
UN	1042	.	NC_007779	4211959	4213508
UN	1043	.	NC_007779	4213667	4215789
UN	1044	.	NC_007779	4215987	4216657
UN	1045	.	NC_007779	4299523	4299551
UN	1046	.	NC_007779	4299750	4299777
UN	1047	.	NC_007779	4310363	4311561
UN	1048	.	NC_007779	4502953	4504095
UN	1049	.	NC_007779	4512236	4513265