#=GENOME_DIFF	1.0
#=AUTHOR	breseq 0.25c 
#=CREATED	11:47:02 05 Mar 2015
#=REFSEQ	/data/savita/refseq/NC_007779.gbk
#=READSEQ	2_D10_CAGATC_L001_R2_001.fastq
SNP	1	62	NC_007779	66457	A	frequency=1
SNP	2	68	NC_007779	97880	T	frequency=1
SNP	3	81	NC_007779	167632	A	frequency=1
SNP	4	97	NC_007779	274547	G	frequency=1
DEL	5	734,754	NC_007779	274733	97240	frequency=1
SNP	6	126	NC_007779	547694	G	frequency=1
INS	7	127	NC_007779	547831	G	frequency=1	insert_position=1
SNP	8	129	NC_007779	556858	T	frequency=1
SNP	9	130	NC_007779	569996	C	frequency=1
DEL	10	735,759	NC_007779	654214	1199	frequency=1
SNP	11	174	NC_007779	749354	A	frequency=1
SNP	12	177	NC_007779	758440	A	frequency=1
SNP	13	183	NC_007779	887234	A	frequency=1
SNP	14	195	NC_007779	987574	T	frequency=1
SNP	15	230	NC_007779	1093686	C	frequency=1
SNP	16	231	NC_007779	1097580	T	frequency=1.910977e-01
SNP	17	242	NC_007779	1170573	T	frequency=1
DEL	18	737,768	NC_007779	1301041	1336	frequency=1
SNP	19	255	NC_007779	1318876	A	frequency=1
DEL	20	738,771	NC_007779	1413639	23060	frequency=1
SNP	21	289	NC_007779	1483588	A	frequency=1
DEL	22	293	NC_007779	1496775	1	frequency=1
SNP	23	309	NC_007779	1615814	A	frequency=1
SNP	24	373	NC_007779	1844073	A	frequency=1
SNP	25	385	NC_007779	1918872	A	frequency=1
SNP	26	391	NC_007779	1973476	A	frequency=1
SNP	27	397	NC_007779	2005401	T	frequency=1
SNP	28	406	NC_007779	2170094	A	frequency=1
SNP	29	420	NC_007779	2262756	C	frequency=1.872349e-02
DEL	30	740,778	NC_007779	2320795	1336	frequency=1
SNP	31	439	NC_007779	2406075	T	frequency=1
SNP	32	444	NC_007779	2416102	A	frequency=1
SNP	33	462	NC_007779	2538628	T	frequency=1
INS	34	783	NC_007779	2865274	GCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACG	frequency=3.613223e-01
SNP	35	501	NC_007779	2866111	G	frequency=1
SNP	36	510	NC_007779	2941345	C	frequency=4.854822e-01
SNP	37	516	NC_007779	3003330	A	frequency=1
SNP	38	526	NC_007779	3049815	T	frequency=1
SNP	39	563	NC_007779	3397813	G	frequency=1
DEL	40	743,791	NC_007779	3742936	1336	frequency=1
DEL	41	744,793	NC_007779	3746911	1199	frequency=1
DEL	42	602	NC_007779	3750122	1	frequency=9.685040e-01
SNP	43	603	NC_007779	3750123	T	frequency=3.143501e-02
DEL	44	745,796	NC_007779	3750591	1199	frequency=1
SNP	45	629	NC_007779	3898657	G	frequency=1
DEL	46	746,798	NC_007779	3958123	34	frequency=1
SNP	47	656	NC_007779	4090749	T	frequency=1
SNP	48	661	NC_007779	4165991	C	frequency=1
DEL	49	675,676	NC_007779	4371271	2	frequency=1
SNP	50	722	NC_007779	4546535	A	frequency=1
RA	51	.	NC_007779	286	0	A	C	bias_e_value=65836.4	bias_p_value=0.0141696	fisher_strand_p_value=0.00196968	frequency=4.608917e-02	genotype_quality=804.8	ks_quality_p_value=0.994217	log10_base_likelihood=-6.48603	log10_qual_likelihood_position_model=23.4252	log10_strand_likelihood_position_model=3.04466	new_cov=2/19	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=109/136	reject=EVALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/155
RA	52	.	NC_007779	301	1	.	T	bias_e_value=4331490	bias_p_value=0.932239	fisher_strand_p_value=1	frequency=8.196831e-03	genotype_quality=1153.4	ks_quality_p_value=0.655226	log10_base_likelihood=-7.71519	log10_qual_likelihood_position_model=1.53045	log10_strand_likelihood_position_model=0.316387	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=8.72358e-08	ref_cov=97/145	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/146
RA	53	.	NC_007779	302	0	T	.	bias_e_value=1892870	bias_p_value=0.407391	fisher_strand_p_value=0.565952	frequency=1.213551e-02	genotype_quality=960.8	ks_quality_p_value=0.240354	log10_base_likelihood=-7.90481	log10_qual_likelihood_position_model=2.52075	log10_strand_likelihood_position_model=0.538554	new_cov=2/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.00524e-06	ref_cov=97/147	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=99/148
RA	54	.	NC_007779	11143	0	G	T	bias_e_value=0.0410599	bias_p_value=8.83707e-09	fisher_strand_p_value=3.89897e-10	frequency=8.955622e-02	genotype_quality=860.9	ks_quality_p_value=1	log10_base_likelihood=-25.6172	log10_qual_likelihood_position_model=24.6178	log10_strand_likelihood_position_model=9.49637	new_cov=0/30	polymorphism_quality=20.4	quality=20.4	quality_position_model=Inf	ref_cov=132/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/138
RA	55	.	NC_007779	15391	0	A	C	bias_e_value=478.489	bias_p_value=0.000102982	fisher_strand_p_value=8.09323e-06	frequency=3.970337e-02	genotype_quality=597.4	ks_quality_p_value=1	log10_base_likelihood=-5.79379	log10_qual_likelihood_position_model=14.1897	log10_strand_likelihood_position_model=5.09188	new_cov=9/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=41/123	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=50/123
RA	56	.	NC_007779	29496	0	T	A	bias_e_value=1.1661e-06	bias_p_value=2.50972e-13	fisher_strand_p_value=7.48594e-15	frequency=1.288748e-01	genotype_quality=824.4	ks_quality_p_value=1	log10_base_likelihood=-34.4672	log10_qual_likelihood_position_model=41.0258	log10_strand_likelihood_position_model=14.1258	new_cov=0/35	polymorphism_quality=29.3	quality=29.3	quality_position_model=Inf	ref_cov=146/78	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=146/113
RA	57	.	NC_007779	29503	0	T	C	bias_e_value=1.99499e-09	bias_p_value=4.2937e-16	fisher_strand_p_value=1.07142e-17	frequency=1.170669e-01	genotype_quality=786.4	ks_quality_p_value=1	log10_base_likelihood=-15.7732	log10_qual_likelihood_position_model=31.6563	log10_strand_likelihood_position_model=16.97	new_cov=0/45	polymorphism_quality=10.4	quality=10.4	quality_position_model=Inf	ref_cov=152/88	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=152/133
RA	58	.	NC_007779	34111	1	.	T	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=8.330345e-03	genotype_quality=1174.5	ks_quality_p_value=0.99937	log10_base_likelihood=-6.48261	log10_qual_likelihood_position_model=3.41619	log10_strand_likelihood_position_model=0.301151	new_cov=1/1	polymorphism_quality=1.0	quality=1.0	quality_position_model=0.000155923	ref_cov=127/111	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/112
RA	59	.	NC_007779	39910	0	G	T	bias_e_value=445518	bias_p_value=0.0958859	fisher_strand_p_value=0.0194005	frequency=4.990149e-02	genotype_quality=543.6	ks_quality_p_value=1	log10_base_likelihood=-7.04085	log10_qual_likelihood_position_model=7.63076	log10_strand_likelihood_position_model=2.00929	new_cov=0/12	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=59/119	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=59/132
RA	60	.	NC_007779	47305	0	G	T	bias_e_value=0.00894042	bias_p_value=1.92419e-09	fisher_strand_p_value=7.93235e-11	frequency=7.962227e-02	genotype_quality=919.5	ks_quality_p_value=1	log10_base_likelihood=-14.5463	log10_qual_likelihood_position_model=24.5791	log10_strand_likelihood_position_model=10.2401	new_cov=0/32	polymorphism_quality=9.2	quality=9.2	quality_position_model=Inf	ref_cov=146/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/150
RA	61	.	NC_007779	61542	0	C	G	bias_e_value=0.00240355	bias_p_value=5.17301e-10	fisher_strand_p_value=2.01866e-11	frequency=1.079965e-01	genotype_quality=514.1	ks_quality_p_value=1	log10_base_likelihood=-17.2459	log10_qual_likelihood_position_model=15.2744	log10_strand_likelihood_position_model=10.6949	new_cov=17/0	polymorphism_quality=11.9	quality=11.9	quality_position_model=Inf	ref_cov=24/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=41/106
RA	62	.	NC_007779	66457	0	C	A	frequency=1	genotype_quality=1106.9	new_cov=160/113	quality=1106.9	ref_cov=0/0	tot_cov=160/113
RA	63	.	NC_007779	70602	0	G	T	bias_e_value=0.0763377	bias_p_value=1.64297e-08	fisher_strand_p_value=7.46262e-10	frequency=8.469772e-02	genotype_quality=769.9	ks_quality_p_value=1	log10_base_likelihood=-13.3403	log10_qual_likelihood_position_model=25.3848	log10_strand_likelihood_position_model=9.12711	new_cov=0/27	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=122/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/118
RA	64	.	NC_007779	75074	0	T	G	bias_e_value=7.6585e-39	bias_p_value=1.64829e-45	fisher_strand_p_value=1.51489e-47	frequency=2.505612e-01	genotype_quality=577.0	ks_quality_p_value=1	log10_base_likelihood=-54.4317	log10_qual_likelihood_position_model=55.13	log10_strand_likelihood_position_model=46.8196	new_cov=75/0	polymorphism_quality=49.4	quality=49.4	quality_position_model=Inf	ref_cov=15/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=90/150
RA	65	.	NC_007779	75079	0	C	T	bias_e_value=4.5676e-06	bias_p_value=9.83054e-13	fisher_strand_p_value=3.0608e-14	frequency=7.626486e-02	genotype_quality=683.0	ks_quality_p_value=1	log10_base_likelihood=-15.7411	log10_qual_likelihood_position_model=20	log10_strand_likelihood_position_model=13.5142	new_cov=16/0	polymorphism_quality=10.4	quality=10.4	quality_position_model=Inf	ref_cov=18/156	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=34/156
RA	66	.	NC_007779	89555	0	G	T	bias_e_value=1139.3	bias_p_value=0.000245205	fisher_strand_p_value=2.1131e-05	frequency=5.632734e-02	genotype_quality=787.5	ks_quality_p_value=0.985081	log10_base_likelihood=-11.3933	log10_qual_likelihood_position_model=17.8547	log10_strand_likelihood_position_model=4.69199	new_cov=14/1	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=81/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=95/136
RA	67	.	NC_007779	89566	0	C	T	bias_e_value=399.106	bias_p_value=8.5897e-05	fisher_strand_p_value=6.64774e-06	frequency=4.217148e-02	genotype_quality=835.9	ks_quality_p_value=1	log10_base_likelihood=-5.59501	log10_qual_likelihood_position_model=14.2815	log10_strand_likelihood_position_model=5.17733	new_cov=13/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=83/135	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=96/135
RA	68	.	NC_007779	97880	0	C	T	frequency=1	genotype_quality=913.7	new_cov=122/105	quality=913.7	ref_cov=0/0	tot_cov=122/105
RA	69	.	NC_007779	101246	0	T	G	bias_e_value=1803.97	bias_p_value=0.000388256	fisher_strand_p_value=3.44304e-05	frequency=3.793335e-02	genotype_quality=526.9	ks_quality_p_value=1	log10_base_likelihood=-13.2076	log10_qual_likelihood_position_model=8.06241	log10_strand_likelihood_position_model=4.46306	new_cov=7/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=0.0344834	ref_cov=29/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=36/110
RA	70	.	NC_007779	107544	1	.	T	bias_e_value=3466790	bias_p_value=0.746135	fisher_strand_p_value=0.594913	frequency=1.363659e-02	genotype_quality=1048.6	ks_quality_p_value=0.636067	log10_base_likelihood=-13.0475	log10_qual_likelihood_position_model=1.90647	log10_strand_likelihood_position_model=0.464334	new_cov=2/1	polymorphism_quality=7.7	quality=7.7	quality_position_model=1.02039e-12	ref_cov=99/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=101/119
RA	71	.	NC_007779	107545	0	T	.	bias_e_value=4163660	bias_p_value=0.896117	fisher_strand_p_value=0.594147	frequency=1.331997e-02	genotype_quality=885.3	ks_quality_p_value=0.976731	log10_base_likelihood=-7.80094	log10_qual_likelihood_position_model=3.01156	log10_strand_likelihood_position_model=0.465817	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=3.52401e-06	ref_cov=101/121	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=103/122
RA	72	.	NC_007779	119384	0	T	G	bias_e_value=6.30871e-18	bias_p_value=1.35778e-24	fisher_strand_p_value=2.26103e-26	frequency=1.727748e-01	genotype_quality=583.5	ks_quality_p_value=1	log10_base_likelihood=-31.732	log10_qual_likelihood_position_model=37.4136	log10_strand_likelihood_position_model=25.6457	new_cov=55/0	polymorphism_quality=26.5	quality=26.5	quality_position_model=Inf	ref_cov=41/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=97/128
RA	73	.	NC_007779	119389	0	C	A	bias_e_value=2.43901	bias_p_value=5.24932e-07	fisher_strand_p_value=2.85743e-08	frequency=5.751133e-02	genotype_quality=784.2	ks_quality_p_value=1	log10_base_likelihood=-7.42982	log10_qual_likelihood_position_model=14.5581	log10_strand_likelihood_position_model=7.54402	new_cov=20/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=83/129	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/129
RA	74	.	NC_007779	134366	0	G	T	bias_e_value=44.2	bias_p_value=9.51289e-06	fisher_strand_p_value=6.22161e-07	frequency=5.239630e-02	genotype_quality=858.8	ks_quality_p_value=1	log10_base_likelihood=-8.2801	log10_qual_likelihood_position_model=17.3412	log10_strand_likelihood_position_model=6.2061	new_cov=0/19	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=131/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/126
RA	75	.	NC_007779	137009	0	G	T	bias_e_value=0.549657	bias_p_value=1.18299e-07	fisher_strand_p_value=7.22787e-09	frequency=7.407808e-02	genotype_quality=772.0	ks_quality_p_value=0.820695	log10_base_likelihood=-19.1424	log10_qual_likelihood_position_model=25.5694	log10_strand_likelihood_position_model=8.14099	new_cov=21/0	polymorphism_quality=13.8	quality=13.8	quality_position_model=Inf	ref_cov=85/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/138
RA	76	.	NC_007779	151656	0	T	G	bias_e_value=0.0325869	bias_p_value=7.01347e-09	fisher_strand_p_value=3.06173e-10	frequency=7.575464e-02	genotype_quality=815.7	ks_quality_p_value=1	log10_base_likelihood=-12.5924	log10_qual_likelihood_position_model=23.6166	log10_strand_likelihood_position_model=9.51403	new_cov=26/0	polymorphism_quality=7.2	quality=7.2	quality_position_model=Inf	ref_cov=92/139	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/139
RA	77	.	NC_007779	158557	0	G	T	bias_e_value=2069.75	bias_p_value=0.000445459	fisher_strand_p_value=4.00389e-05	frequency=5.012703e-02	genotype_quality=739.9	ks_quality_p_value=1	log10_base_likelihood=-6.07838	log10_qual_likelihood_position_model=16.5063	log10_strand_likelihood_position_model=4.55595	new_cov=0/17	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=104/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/130
RA	78	.	NC_007779	164597	1	.	C	bias_e_value=1074090	bias_p_value=0.231169	fisher_strand_p_value=0.0680603	frequency=2.479362e-02	genotype_quality=485.7	ks_quality_p_value=0.893948	log10_base_likelihood=-13.449	log10_qual_likelihood_position_model=3.53508	log10_strand_likelihood_position_model=1.16711	new_cov=3/0	polymorphism_quality=8.1	quality=8.1	quality_position_model=9.55396e-11	ref_cov=47/71	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=50/71
RA	79	.	NC_007779	164601	0	T	C	bias_e_value=410.352	bias_p_value=8.83174e-05	fisher_strand_p_value=6.85103e-06	frequency=8.162355e-02	genotype_quality=307.7	ks_quality_p_value=1	log10_base_likelihood=-10.0856	log10_qual_likelihood_position_model=10.9396	log10_strand_likelihood_position_model=5.16424	new_cov=9/0	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=21/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=30/71
RA	80	.	NC_007779	164603	0	A	C	bias_e_value=1661.16	bias_p_value=0.000357521	fisher_strand_p_value=3.14525e-05	frequency=6.687927e-02	genotype_quality=298.9	ks_quality_p_value=1	log10_base_likelihood=-8.33612	log10_qual_likelihood_position_model=7.85608	log10_strand_likelihood_position_model=4.50235	new_cov=8/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=22/70	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=30/71
RA	81	.	NC_007779	167632	0	C	A	frequency=1	genotype_quality=970.5	new_cov=113/127	quality=970.5	ref_cov=0/0	tot_cov=113/127
RA	82	.	NC_007779	173073	0	A	C	bias_e_value=72.2413	bias_p_value=1.5548e-05	fisher_strand_p_value=1.05312e-06	frequency=3.277397e-02	genotype_quality=691.9	ks_quality_p_value=1	log10_base_likelihood=-5.75416	log10_qual_likelihood_position_model=15.6457	log10_strand_likelihood_position_model=5.97752	new_cov=0/15	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=117/70	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/85
RA	83	.	NC_007779	175694	0	T	G	bias_e_value=3.24485e-13	bias_p_value=6.98369e-20	fisher_strand_p_value=1.42524e-21	frequency=1.442790e-01	genotype_quality=564.7	ks_quality_p_value=1	log10_base_likelihood=-19.4681	log10_qual_likelihood_position_model=33.6076	log10_strand_likelihood_position_model=20.8461	new_cov=51/0	polymorphism_quality=14.2	quality=14.2	quality_position_model=Inf	ref_cov=49/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/114
RA	84	.	NC_007779	193477	1	.	G	bias_e_value=2264890	bias_p_value=0.487458	fisher_strand_p_value=0.206971	frequency=8.771896e-03	genotype_quality=1117.4	ks_quality_p_value=0.866292	log10_base_likelihood=-8.2743	log10_qual_likelihood_position_model=0.913244	log10_strand_likelihood_position_model=0.68409	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.27561e-08	ref_cov=102/124	reject=POLYMORPHISM_STRAND	tot_cov=104/124
RA	85	.	NC_007779	193480	0	C	G	bias_e_value=1.51928e-14	bias_p_value=3.26986e-21	fisher_strand_p_value=6.27333e-23	frequency=2.061534e-01	genotype_quality=606.2	ks_quality_p_value=1	log10_base_likelihood=-65.0634	log10_qual_likelihood_position_model=31.72	log10_strand_likelihood_position_model=22.2025	new_cov=43/0	polymorphism_quality=60.0	quality=60.0	quality_position_model=3.43323e-13	ref_cov=35/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=78/127
RA	86	.	NC_007779	193483	0	C	G	bias_e_value=1.13037e-06	bias_p_value=2.43282e-13	fisher_strand_p_value=7.24963e-15	frequency=1.112533e-01	genotype_quality=634.3	ks_quality_p_value=1	log10_base_likelihood=-16.6793	log10_qual_likelihood_position_model=23.8377	log10_strand_likelihood_position_model=14.1397	new_cov=28/0	polymorphism_quality=11.4	quality=11.4	quality_position_model=Inf	ref_cov=44/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=72/127
RA	87	.	NC_007779	193489	0	G	T	bias_e_value=0.00193264	bias_p_value=4.15949e-10	fisher_strand_p_value=1.60891e-11	frequency=9.668350e-02	genotype_quality=735.5	ks_quality_p_value=1	log10_base_likelihood=-16.5483	log10_qual_likelihood_position_model=18.5963	log10_strand_likelihood_position_model=10.7935	new_cov=25/0	polymorphism_quality=11.2	quality=11.2	quality_position_model=Inf	ref_cov=65/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=90/132
RA	88	.	NC_007779	193496	0	A	T	bias_e_value=1.57456e-06	bias_p_value=3.38882e-13	fisher_strand_p_value=1.02023e-14	frequency=1.285734e-01	genotype_quality=725.2	ks_quality_p_value=1	log10_base_likelihood=-39.7774	log10_qual_likelihood_position_model=33.6635	log10_strand_likelihood_position_model=13.9913	new_cov=27/0	polymorphism_quality=34.6	quality=34.6	quality_position_model=Inf	ref_cov=45/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=72/134
RA	89	.	NC_007779	194247	0	G	T	bias_e_value=500.469	bias_p_value=0.000107713	fisher_strand_p_value=8.50296e-06	frequency=4.390717e-02	genotype_quality=704.8	ks_quality_p_value=0.999365	log10_base_likelihood=-6.98079	log10_qual_likelihood_position_model=15.6434	log10_strand_likelihood_position_model=5.07043	new_cov=0/14	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=119/84	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/100
RA	90	.	NC_007779	194839	1	.	T	bias_e_value=1397000	bias_p_value=0.300667	fisher_strand_p_value=1	frequency=7.812500e-03	genotype_quality=1249.7	ks_quality_p_value=0.0875027	log10_base_likelihood=-8.23545	log10_qual_likelihood_position_model=1.31072	log10_strand_likelihood_position_model=0.299993	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.44396e-08	ref_cov=122/132	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/133
RA	91	.	NC_007779	204470	0	C	A	bias_e_value=95269.5	bias_p_value=0.0205042	fisher_strand_p_value=0.00303095	frequency=2.934265e-02	genotype_quality=708.5	ks_quality_p_value=0.994154	log10_base_likelihood=-5.96463	log10_qual_likelihood_position_model=11.7596	log10_strand_likelihood_position_model=2.51842	new_cov=0/8	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=108/97	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=108/105
RA	92	.	NC_007779	212548	0	T	G	bias_e_value=0.000479481	bias_p_value=1.03196e-10	fisher_strand_p_value=3.77988e-12	frequency=9.824276e-02	genotype_quality=654.0	ks_quality_p_value=1	log10_base_likelihood=-13.0817	log10_qual_likelihood_position_model=31.6888	log10_strand_likelihood_position_model=11.4225	new_cov=31/0	polymorphism_quality=7.7	quality=7.7	quality_position_model=Inf	ref_cov=70/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=101/114
RA	93	.	NC_007779	222957	1	.	A	bias_e_value=1474450	bias_p_value=0.317336	fisher_strand_p_value=0.250781	frequency=1.171875e-02	genotype_quality=1236.5	ks_quality_p_value=0.376646	log10_base_likelihood=-13.095	log10_qual_likelihood_position_model=1.92985	log10_strand_likelihood_position_model=0.819021	new_cov=3/0	polymorphism_quality=7.7	quality=7.7	quality_position_model=2.21768e-12	ref_cov=134/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=137/119
RA	94	.	NC_007779	222958	0	A	.	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=1.145935e-02	genotype_quality=1045.8	ks_quality_p_value=0.999911	log10_base_likelihood=-6.91888	log10_qual_likelihood_position_model=4.00737	log10_strand_likelihood_position_model=0.395864	new_cov=2/1	polymorphism_quality=1.4	quality=1.4	quality_position_model=0.000288844	ref_cov=138/120	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=140/121
RA	95	.	NC_007779	233118	0	T	C	bias_e_value=0.122834	bias_p_value=2.64367e-08	fisher_strand_p_value=1.22862e-09	frequency=7.472515e-02	genotype_quality=428.3	ks_quality_p_value=1	log10_base_likelihood=-11.4442	log10_qual_likelihood_position_model=13.9276	log10_strand_likelihood_position_model=8.91058	new_cov=0/11	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=102/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/24
RA	96	.	NC_007779	265564	0	T	G	bias_e_value=2.69836e-08	bias_p_value=5.8075e-15	fisher_strand_p_value=1.55275e-16	frequency=9.551907e-02	genotype_quality=638.2	ks_quality_p_value=1	log10_base_likelihood=-9.79044	log10_qual_likelihood_position_model=29.847	log10_strand_likelihood_position_model=15.8089	new_cov=42/0	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=66/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/119
RA	97	.	NC_007779	274547	0	A	G	frequency=1	genotype_quality=1206.5	new_cov=151/129	quality=1206.5	ref_cov=0/0	tot_cov=151/129
RA	98	.	NC_007779	280372	0	G	T	deleted=1	frequency=1	genotype_quality=2.6	new_cov=0/1	quality=2.6	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	99	.	NC_007779	298993	0	G	T	deleted=1	frequency=1	genotype_quality=3.3	new_cov=1/0	quality=3.3	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	100	.	NC_007779	336330	0	A	G	deleted=1	frequency=1	genotype_quality=1.0	new_cov=0/1	quality=1.0	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	101	.	NC_007779	365514	0	C	T	deleted=1	frequency=1	genotype_quality=13.1	new_cov=3/0	quality=13.1	ref_cov=0/0	tot_cov=3/0
RA	102	.	NC_007779	365524	0	G	.	deleted=1	frequency=1	genotype_quality=14.7	new_cov=3/0	quality=14.7	ref_cov=0/0	tot_cov=3/0
RA	103	.	NC_007779	374799	0	T	G	bias_e_value=8.06969e-17	bias_p_value=1.73679e-23	fisher_strand_p_value=3.02268e-25	frequency=1.147428e-01	genotype_quality=683.0	ks_quality_p_value=1	log10_base_likelihood=-11.5683	log10_qual_likelihood_position_model=34.8439	log10_strand_likelihood_position_model=24.5196	new_cov=34/0	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=20/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=54/153
RA	104	.	NC_007779	379236	1	.	G	bias_e_value=2254510	bias_p_value=0.485223	fisher_strand_p_value=0.66501	frequency=3.488445e-02	genotype_quality=767.6	ks_quality_p_value=0.267666	log10_base_likelihood=-28.5554	log10_qual_likelihood_position_model=3.09641	log10_strand_likelihood_position_model=0.58739	new_cov=5/1	polymorphism_quality=23.3	quality=23.3	quality_position_model=4.3146e-27	ref_cov=109/57	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/58
RA	105	.	NC_007779	379237	0	G	.	bias_e_value=821686	bias_p_value=0.176846	fisher_strand_p_value=0.0474925	frequency=1.612091e-02	genotype_quality=767.8	ks_quality_p_value=0.895681	log10_base_likelihood=-8.62452	log10_qual_likelihood_position_model=1.54601	log10_strand_likelihood_position_model=1.32337	new_cov=0/3	polymorphism_quality=3.2	quality=3.2	quality_position_model=1.14254e-07	ref_cov=118/65	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=118/68
RA	106	.	NC_007779	379261	1	.	G	bias_e_value=3834810	bias_p_value=0.825341	fisher_strand_p_value=0.49936	frequency=1.052570e-02	genotype_quality=897.8	ks_quality_p_value=0.942482	log10_base_likelihood=-7.79737	log10_qual_likelihood_position_model=0.970884	log10_strand_likelihood_position_model=0.550894	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=3.3096e-08	ref_cov=99/89	reject=POLYMORPHISM_STRAND	tot_cov=101/89
RA	107	.	NC_007779	379266	0	G	C	bias_e_value=2319.04	bias_p_value=0.000499112	fisher_strand_p_value=7.22758e-05	frequency=6.904221e-02	genotype_quality=527.2	ks_quality_p_value=0.627752	log10_base_likelihood=-10.0682	log10_qual_likelihood_position_model=17.3658	log10_strand_likelihood_position_model=4.3139	new_cov=14/0	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=73/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/83
RA	108	.	NC_007779	387560	0	A	C	bias_e_value=5.09526e-12	bias_p_value=1.09662e-18	fisher_strand_p_value=2.3743e-20	frequency=7.834053e-02	genotype_quality=727.0	ks_quality_p_value=1	log10_base_likelihood=-8.93874	log10_qual_likelihood_position_model=35.2331	log10_strand_likelihood_position_model=19.6245	new_cov=0/44	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=140/57	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/101
RA	109	.	NC_007779	407306	0	C	A	bias_e_value=6.15406	bias_p_value=1.3245e-06	fisher_strand_p_value=7.61627e-08	frequency=6.149769e-02	genotype_quality=749.7	ks_quality_p_value=1	log10_base_likelihood=-10.354	log10_qual_likelihood_position_model=17.4614	log10_strand_likelihood_position_model=7.11826	new_cov=20/0	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=89/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/126
RA	110	.	NC_007779	414911	0	T	G	bias_e_value=0.0521992	bias_p_value=1.12345e-08	fisher_strand_p_value=5.01228e-10	frequency=3.565598e-02	genotype_quality=722.1	ks_quality_p_value=1	log10_base_likelihood=-6.38353	log10_qual_likelihood_position_model=19.4182	log10_strand_likelihood_position_model=9.29996	new_cov=22/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=69/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=91/132
RA	111	.	NC_007779	418928	0	C	G	bias_e_value=0.311628	bias_p_value=6.70698e-08	fisher_strand_p_value=3.26534e-09	frequency=6.499481e-02	genotype_quality=593.5	ks_quality_p_value=1	log10_base_likelihood=-7.63867	log10_qual_likelihood_position_model=11.7641	log10_strand_likelihood_position_model=8.48607	new_cov=13/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=29/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=42/125
RA	112	.	NC_007779	432858	0	T	G	bias_e_value=3.73193e-08	bias_p_value=8.03199e-15	fisher_strand_p_value=2.16682e-16	frequency=1.343360e-01	genotype_quality=569.4	ks_quality_p_value=1	log10_base_likelihood=-16.7395	log10_qual_likelihood_position_model=30.5304	log10_strand_likelihood_position_model=15.7647	new_cov=51/0	polymorphism_quality=11.4	quality=11.4	quality_position_model=Inf	ref_cov=73/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/101
RA	113	.	NC_007779	440767	0	G	T	bias_e_value=0.00408953	bias_p_value=8.80162e-10	fisher_strand_p_value=3.51044e-11	frequency=1.015606e-01	genotype_quality=762.2	ks_quality_p_value=1	log10_base_likelihood=-26.476	log10_qual_likelihood_position_model=21.3565	log10_strand_likelihood_position_model=10.4546	new_cov=0/29	polymorphism_quality=21.3	quality=21.3	quality_position_model=Inf	ref_cov=130/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/118
RA	114	.	NC_007779	465801	0	C	A	bias_e_value=1.50499	bias_p_value=3.23909e-07	fisher_strand_p_value=1.7224e-08	frequency=7.296944e-02	genotype_quality=610.0	ks_quality_p_value=0.996014	log10_base_likelihood=-14.8512	log10_qual_likelihood_position_model=16.1091	log10_strand_likelihood_position_model=7.76387	new_cov=0/15	polymorphism_quality=9.5	quality=9.5	quality_position_model=Inf	ref_cov=121/45	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/60
RA	115	.	NC_007779	468401	0	C	A	bias_e_value=2801.43	bias_p_value=0.000602934	fisher_strand_p_value=5.63983e-05	frequency=4.367256e-02	genotype_quality=737.6	ks_quality_p_value=0.990558	log10_base_likelihood=-6.82913	log10_qual_likelihood_position_model=12.4167	log10_strand_likelihood_position_model=4.24873	new_cov=13/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=92/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/111
RA	116	.	NC_007779	468787	1	.	A	bias_e_value=4475510	bias_p_value=0.963236	fisher_strand_p_value=1	frequency=8.510590e-03	genotype_quality=1141.7	ks_quality_p_value=0.741393	log10_base_likelihood=-8.41873	log10_qual_likelihood_position_model=0.789432	log10_strand_likelihood_position_model=0.299564	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.71515e-09	ref_cov=113/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/121
RA	117	.	NC_007779	494823	0	T	G	bias_e_value=3.33411e-10	bias_p_value=7.1758e-17	fisher_strand_p_value=1.71224e-18	frequency=1.430111e-01	genotype_quality=486.0	ks_quality_p_value=1	log10_base_likelihood=-13.5625	log10_qual_likelihood_position_model=31.5081	log10_strand_likelihood_position_model=17.7664	new_cov=32/0	polymorphism_quality=8.2	quality=8.2	quality_position_model=Inf	ref_cov=25/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=57/104
RA	118	.	NC_007779	497079	0	C	G	bias_e_value=4782.25	bias_p_value=0.00102925	fisher_strand_p_value=0.000100893	frequency=4.175472e-02	genotype_quality=684.8	ks_quality_p_value=1	log10_base_likelihood=-7.42611	log10_qual_likelihood_position_model=11.1746	log10_strand_likelihood_position_model=3.99614	new_cov=0/9	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=112/58	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/67
RA	119	.	NC_007779	503058	0	T	C	bias_e_value=0.000336039	bias_p_value=7.23235e-11	fisher_strand_p_value=2.61377e-12	frequency=9.766626e-02	genotype_quality=581.9	ks_quality_p_value=1	log10_base_likelihood=-12.0661	log10_qual_likelihood_position_model=23.3615	log10_strand_likelihood_position_model=11.5827	new_cov=0/23	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=117/42	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/65
RA	120	.	NC_007779	513848	0	A	C	bias_e_value=3.16803e-22	bias_p_value=6.81834e-29	fisher_strand_p_value=9.72584e-31	frequency=1.485476e-01	genotype_quality=539.5	ks_quality_p_value=1	log10_base_likelihood=-14.9957	log10_qual_likelihood_position_model=37.3451	log10_strand_likelihood_position_model=30.0121	new_cov=0/43	polymorphism_quality=9.6	quality=9.6	quality_position_model=Inf	ref_cov=128/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=128/56
RA	121	.	NC_007779	522430	1	.	T	bias_e_value=4641720	bias_p_value=0.999008	fisher_strand_p_value=1	frequency=1.142883e-02	genotype_quality=849.8	ks_quality_p_value=0.955788	log10_base_likelihood=-8.52613	log10_qual_likelihood_position_model=1.20805	log10_strand_likelihood_position_model=0.301744	new_cov=1/1	polymorphism_quality=3.1	quality=3.1	quality_position_model=5.70392e-09	ref_cov=94/79	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=95/80
RA	122	.	NC_007779	522431	0	T	.	bias_e_value=4195160	bias_p_value=0.902898	fisher_strand_p_value=0.593155	frequency=1.711941e-02	genotype_quality=705.4	ks_quality_p_value=0.999801	log10_base_likelihood=-7.42543	log10_qual_likelihood_position_model=4.39941	log10_strand_likelihood_position_model=0.466071	new_cov=1/2	polymorphism_quality=1.9	quality=1.9	quality_position_model=0.00025884	ref_cov=94/78	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=95/80
RA	123	.	NC_007779	522578	0	A	C	bias_e_value=72608.4	bias_p_value=0.015627	fisher_strand_p_value=0.00219421	frequency=4.074955e-02	genotype_quality=508.9	ks_quality_p_value=1	log10_base_likelihood=-11.0131	log10_qual_likelihood_position_model=7.11303	log10_strand_likelihood_position_model=2.65872	new_cov=7/0	polymorphism_quality=5.6	quality=5.6	quality_position_model=0.00736026	ref_cov=59/88	reject=POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=66/88
RA	124	.	NC_007779	524490	0	T	G	bias_e_value=0.00022056	bias_p_value=4.74697e-11	fisher_strand_p_value=1.6889e-12	frequency=9.126472e-02	genotype_quality=593.7	ks_quality_p_value=1	log10_base_likelihood=-7.83735	log10_qual_likelihood_position_model=23.7198	log10_strand_likelihood_position_model=11.7724	new_cov=23/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=41/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=64/118
RA	125	.	NC_007779	527270	0	A	C	bias_e_value=0.000399497	bias_p_value=8.59812e-11	fisher_strand_p_value=3.12764e-12	frequency=1.156163e-01	genotype_quality=623.0	ks_quality_p_value=1	log10_base_likelihood=-19.1696	log10_qual_likelihood_position_model=27.7227	log10_strand_likelihood_position_model=11.5048	new_cov=0/29	polymorphism_quality=13.9	quality=13.9	quality_position_model=Inf	ref_cov=114/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/91
RA	126	.	NC_007779	547694	0	A	G	frequency=1	genotype_quality=941.4	new_cov=108/117	quality=941.4	ref_cov=0/0	tot_cov=108/117
RA	127	.	NC_007779	547831	1	.	G	frequency=1	genotype_quality=914.3	new_cov=108/105	quality=914.3	ref_cov=1/0	tot_cov=109/105
RA	128	.	NC_007779	556653	0	A	C	bias_e_value=4.11922e-07	bias_p_value=8.86553e-14	fisher_strand_p_value=2.56245e-15	frequency=5.913210e-02	genotype_quality=540.3	ks_quality_p_value=1	log10_base_likelihood=-7.66166	log10_qual_likelihood_position_model=21.9746	log10_strand_likelihood_position_model=14.5913	new_cov=0/19	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=123/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/35
RA	129	.	NC_007779	556858	0	A	T	frequency=1	genotype_quality=1005.0	new_cov=125/123	quality=1005.0	ref_cov=0/0	tot_cov=125/123
RA	130	.	NC_007779	569996	0	G	C	frequency=1	genotype_quality=1097.9	new_cov=114/136	quality=1097.9	ref_cov=0/0	tot_cov=114/136
RA	131	.	NC_007779	583702	1	.	T	bias_e_value=3965970	bias_p_value=0.853569	fisher_strand_p_value=1	frequency=9.174347e-03	genotype_quality=1067.5	ks_quality_p_value=0.510243	log10_base_likelihood=-7.87535	log10_qual_likelihood_position_model=1.43939	log10_strand_likelihood_position_model=0.307337	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=4.69437e-08	ref_cov=123/93	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/94
RA	132	.	NC_007779	589157	0	T	G	bias_e_value=6.5628e-18	bias_p_value=1.41247e-24	fisher_strand_p_value=2.35367e-26	frequency=1.537628e-01	genotype_quality=547.4	ks_quality_p_value=1	log10_base_likelihood=-17.5212	log10_qual_likelihood_position_model=41.1507	log10_strand_likelihood_position_model=25.6283	new_cov=48/0	polymorphism_quality=12.2	quality=12.2	quality_position_model=Inf	ref_cov=28/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=76/121
RA	133	.	NC_007779	595732	0	T	.	bias_e_value=3634290	bias_p_value=0.782184	fisher_strand_p_value=1	frequency=1.213551e-02	genotype_quality=956.2	ks_quality_p_value=0.417512	log10_base_likelihood=-7.89617	log10_qual_likelihood_position_model=3.66225	log10_strand_likelihood_position_model=0.400004	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.14961e-05	ref_cov=115/129	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/131
RA	134	.	NC_007779	598799	0	T	G	bias_e_value=1.95788e-13	bias_p_value=4.21383e-20	fisher_strand_p_value=8.5101e-22	frequency=1.602836e-01	genotype_quality=474.0	ks_quality_p_value=1	log10_base_likelihood=-28.9318	log10_qual_likelihood_position_model=28.6208	log10_strand_likelihood_position_model=21.0701	new_cov=31/0	polymorphism_quality=23.7	quality=23.7	quality_position_model=Inf	ref_cov=15/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=46/111
RA	135	.	NC_007779	598802	0	T	G	bias_e_value=1.20102e-10	bias_p_value=2.58488e-17	fisher_strand_p_value=6.01774e-19	frequency=1.023631e-01	genotype_quality=499.0	ks_quality_p_value=1	log10_base_likelihood=-7.81278	log10_qual_likelihood_position_model=27.7349	log10_strand_likelihood_position_model=18.2206	new_cov=27/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=17/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=44/111
RA	136	.	NC_007779	599704	1	.	A	bias_e_value=4561880	bias_p_value=0.981824	fisher_strand_p_value=1	frequency=9.174347e-03	genotype_quality=1060.7	ks_quality_p_value=0.815496	log10_base_likelihood=-8.48424	log10_qual_likelihood_position_model=0.842024	log10_strand_likelihood_position_model=0.302704	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=2.65303e-09	ref_cov=118/98	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/99
RA	137	.	NC_007779	606687	1	.	T	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=7.842064e-03	genotype_quality=1247.9	ks_quality_p_value=0.999008	log10_base_likelihood=-7.11216	log10_qual_likelihood_position_model=3.03322	log10_strand_likelihood_position_model=0.299651	new_cov=1/1	polymorphism_quality=1.6	quality=1.6	quality_position_model=1.31223e-05	ref_cov=130/123	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/124
RA	138	.	NC_007779	606911	1	.	G	bias_e_value=236965	bias_p_value=0.0510005	fisher_strand_p_value=0.00988467	frequency=2.138996e-02	genotype_quality=907.7	ks_quality_p_value=0.902042	log10_base_likelihood=-18.2413	log10_qual_likelihood_position_model=1.95203	log10_strand_likelihood_position_model=2.00504	new_cov=4/0	polymorphism_quality=12.9	quality=12.9	quality_position_model=2.18814e-16	ref_cov=56/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=60/127
RA	139	.	NC_007779	606915	0	T	G	bias_e_value=1790.97	bias_p_value=0.00038546	fisher_strand_p_value=3.43559e-05	frequency=2.562046e-02	genotype_quality=575.0	ks_quality_p_value=0.99425	log10_base_likelihood=-6.58398	log10_qual_likelihood_position_model=5.81315	log10_strand_likelihood_position_model=4.464	new_cov=4/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=9/138	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=13/138
RA	140	.	NC_007779	612991	0	C	G	bias_e_value=0.0015709	bias_p_value=3.38094e-10	fisher_strand_p_value=1.29695e-11	frequency=6.612873e-02	genotype_quality=547.6	ks_quality_p_value=1	log10_base_likelihood=-12.0279	log10_qual_likelihood_position_model=14.4896	log10_strand_likelihood_position_model=10.8871	new_cov=0/10	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=125/6	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/17
RA	141	.	NC_007779	616029	0	C	A	bias_e_value=104.368	bias_p_value=2.24626e-05	fisher_strand_p_value=1.61202e-06	frequency=5.111933e-02	genotype_quality=679.0	ks_quality_p_value=0.969777	log10_base_likelihood=-9.64951	log10_qual_likelihood_position_model=15.6735	log10_strand_likelihood_position_model=5.79263	new_cov=0/11	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=132/50	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=132/61
RA	142	.	NC_007779	617601	0	C	A	bias_e_value=3.76865	bias_p_value=8.11101e-07	fisher_strand_p_value=4.5287e-08	frequency=4.745197e-02	genotype_quality=687.0	ks_quality_p_value=1	log10_base_likelihood=-5.80769	log10_qual_likelihood_position_model=14.1595	log10_strand_likelihood_position_model=7.34403	new_cov=12/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=37/134	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=49/134
RA	143	.	NC_007779	645484	0	A	C	bias_e_value=0.00167685	bias_p_value=3.60897e-10	fisher_strand_p_value=1.38804e-11	frequency=9.177208e-02	genotype_quality=738.9	ks_quality_p_value=1	log10_base_likelihood=-14.3974	log10_qual_likelihood_position_model=24.4703	log10_strand_likelihood_position_model=10.8576	new_cov=0/29	polymorphism_quality=9.0	quality=9.0	quality_position_model=Inf	ref_cov=132/82	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/111
RA	144	.	NC_007779	645970	0	T	G	bias_e_value=1.27857e-12	bias_p_value=2.75179e-19	fisher_strand_p_value=5.78111e-21	frequency=1.910896e-01	genotype_quality=398.5	ks_quality_p_value=1	log10_base_likelihood=-53.5639	log10_qual_likelihood_position_model=23.4485	log10_strand_likelihood_position_model=20.238	new_cov=29/0	polymorphism_quality=48.5	quality=48.5	quality_position_model=6.67216e-12	ref_cov=12/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=41/101
RA	145	.	NC_007779	646433	0	A	C	bias_e_value=24.185	bias_p_value=5.20518e-06	fisher_strand_p_value=3.26799e-07	frequency=3.240299e-02	genotype_quality=695.1	ks_quality_p_value=0.999589	log10_base_likelihood=-6.47469	log10_qual_likelihood_position_model=11.1676	log10_strand_likelihood_position_model=6.48572	new_cov=0/7	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=163/18	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=163/26
RA	146	.	NC_007779	646440	0	C	A	bias_e_value=6.28149e-14	bias_p_value=1.35192e-20	fisher_strand_p_value=2.6678e-22	frequency=1.103182e-01	genotype_quality=708.7	ks_quality_p_value=1	log10_base_likelihood=-57.9444	log10_qual_likelihood_position_model=18.4701	log10_strand_likelihood_position_model=21.5738	new_cov=0/21	polymorphism_quality=52.9	quality=52.9	quality_position_model=4.74301e-20	ref_cov=162/7	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=162/28
RA	147	.	NC_007779	649677	0	T	G	bias_e_value=2.38388e-09	bias_p_value=5.13067e-16	fisher_strand_p_value=1.28613e-17	frequency=6.261253e-02	genotype_quality=559.4	ks_quality_p_value=1	log10_base_likelihood=-6.81764	log10_qual_likelihood_position_model=25.1641	log10_strand_likelihood_position_model=16.8907	new_cov=30/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=30/118	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=60/118
RA	148	.	NC_007779	660356	0	T	G	bias_e_value=2.03696e-18	bias_p_value=4.38402e-25	fisher_strand_p_value=7.16334e-27	frequency=1.846528e-01	genotype_quality=506.3	ks_quality_p_value=1	log10_base_likelihood=-21.5977	log10_qual_likelihood_position_model=39.8215	log10_strand_likelihood_position_model=26.1449	new_cov=52/0	polymorphism_quality=16.3	quality=16.3	quality_position_model=Inf	ref_cov=29/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/115
RA	149	.	NC_007779	665062	0	C	A	bias_e_value=3.4649	bias_p_value=7.45728e-07	fisher_strand_p_value=4.2596e-08	frequency=6.869602e-02	genotype_quality=708.7	ks_quality_p_value=0.972653	log10_base_likelihood=-17.6252	log10_qual_likelihood_position_model=21.5538	log10_strand_likelihood_position_model=7.37063	new_cov=0/15	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=134/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/71
RA	150	.	NC_007779	676904	0	T	.	bias_e_value=4598750	bias_p_value=0.989759	fisher_strand_p_value=1	frequency=2.258301e-03	genotype_quality=7187.8	ks_quality_p_value=0.860343	log10_base_likelihood=-8.04894	log10_qual_likelihood_position_model=1.78628	log10_strand_likelihood_position_model=0.427592	new_cov=2/2	polymorphism_quality=2.6	quality=2.6	quality_position_model=9.4434e-08	ref_cov=837/924	reject=INDEL_HOMOPOLYMER	tot_cov=839/926
RA	151	.	NC_007779	678446	0	T	C	bias_e_value=4453970	bias_p_value=0.958599	fisher_strand_p_value=0.726405	frequency=1.068115e-03	genotype_quality=25368.9	ks_quality_p_value=1	log10_base_likelihood=-6.60346	log10_qual_likelihood_position_model=6.82005	log10_strand_likelihood_position_model=0.656476	new_cov=3/5	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=3121/3144	reject=EVALUE	tot_cov=3124/3150
RA	152	.	NC_007779	679793	0	A	.	bias_e_value=4264860	bias_p_value=0.917899	fisher_strand_p_value=0.633877	frequency=5.903244e-04	genotype_quality=27467.9	ks_quality_p_value=0.983139	log10_base_likelihood=-5.73683	log10_qual_likelihood_position_model=2.55318	log10_strand_likelihood_position_model=0.516813	new_cov=1/3	polymorphism_quality=0.2	quality=0.2	quality_position_model=0.00019875	ref_cov=2971/3702	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=2972/3707
RA	153	.	NC_007779	680037	0	A	.	bias_e_value=2458530	bias_p_value=0.529134	fisher_strand_p_value=0.212446	frequency=7.038116e-04	genotype_quality=28502.5	ks_quality_p_value=0.96276	log10_base_likelihood=-6.68144	log10_qual_likelihood_position_model=3.66634	log10_strand_likelihood_position_model=0.824137	new_cov=4/1	polymorphism_quality=1.2	quality=1.2	quality_position_model=0.000647999	ref_cov=3424/3521	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=3429/3523
RA	154	.	NC_007779	680412	0	T	.	bias_e_value=2268430	bias_p_value=0.48822	fisher_strand_p_value=1	frequency=9.098053e-04	genotype_quality=26291.3	ks_quality_p_value=0.179741	log10_base_likelihood=-9.56666	log10_qual_likelihood_position_model=2.93168	log10_strand_likelihood_position_model=0.531384	new_cov=3/3	polymorphism_quality=4.1	quality=4.1	quality_position_model=4.98247e-08	ref_cov=3724/2799	reject=INDEL_HOMOPOLYMER	tot_cov=3727/2802
RA	155	.	NC_007779	681240	0	T	.	bias_e_value=3531150	bias_p_value=0.759986	fisher_strand_p_value=0.453248	frequency=9.632111e-04	genotype_quality=28428.2	ks_quality_p_value=0.866944	log10_base_likelihood=-10.3323	log10_qual_likelihood_position_model=3.85739	log10_strand_likelihood_position_model=0.766273	new_cov=2/5	polymorphism_quality=4.9	quality=4.9	quality_position_model=1.27648e-07	ref_cov=3529/3631	reject=INDEL_HOMOPOLYMER	tot_cov=3531/3637
RA	156	.	NC_007779	681973	0	A	.	bias_e_value=2260940	bias_p_value=0.486608	fisher_strand_p_value=0.635255	frequency=6.093979e-04	genotype_quality=26753.0	ks_quality_p_value=0.281467	log10_base_likelihood=-5.93364	log10_qual_likelihood_position_model=1.93374	log10_strand_likelihood_position_model=0.511247	new_cov=1/3	polymorphism_quality=0.4	quality=0.4	quality_position_model=2.65702e-05	ref_cov=2859/3622	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=2860/3626
RA	157	.	NC_007779	682232	0	A	.	bias_e_value=4111550	bias_p_value=0.884903	fisher_strand_p_value=1	frequency=7.610321e-04	genotype_quality=25699.3	ks_quality_p_value=0.560353	log10_base_likelihood=-6.59589	log10_qual_likelihood_position_model=4.28928	log10_strand_likelihood_position_model=0.497606	new_cov=2/3	polymorphism_quality=1.1	quality=1.1	quality_position_model=0.00169616	ref_cov=3109/3221	reject=EVALUE,INDEL_HOMOPOLYMER	tot_cov=3111/3225
RA	158	.	NC_007779	685600	0	T	.	bias_e_value=4406550	bias_p_value=0.948393	fisher_strand_p_value=1	frequency=2.695084e-03	genotype_quality=26653.3	ks_quality_p_value=0.696437	log10_base_likelihood=-34.774	log10_qual_likelihood_position_model=7.08646	log10_strand_likelihood_position_model=0.7289	new_cov=8/10	polymorphism_quality=29.6	quality=29.6	quality_position_model=3.39379e-29	ref_cov=2973/3645	reject=INDEL_HOMOPOLYMER	tot_cov=2985/3659
RA	159	.	NC_007779	686495	0	A	C	bias_e_value=0	bias_p_value=0	fisher_strand_p_value=0	frequency=1.348619e-01	genotype_quality=16826.0	ks_quality_p_value=1	log10_base_likelihood=-990.766	log10_qual_likelihood_position_model=Inf	log10_strand_likelihood_position_model=Inf	new_cov=0/783	polymorphism_quality=inf	quality=inf	quality_position_model=Inf	ref_cov=3787/602	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=3788/1387
RA	160	.	NC_007779	686663	1	.	T	bias_e_value=78410.9	bias_p_value=0.0168759	fisher_strand_p_value=0.0275542	frequency=7.619858e-04	genotype_quality=32178.4	ks_quality_p_value=0.0870915	log10_base_likelihood=-14.9983	log10_qual_likelihood_position_model=3.35672	log10_strand_likelihood_position_model=1.55981	new_cov=5/0	polymorphism_quality=9.6	quality=9.6	quality_position_model=4.12736e-12	ref_cov=3194/3360	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=3199/3360
RA	161	.	NC_007779	686664	0	T	.	bias_e_value=1693690	bias_p_value=0.364522	fisher_strand_p_value=0.25624	frequency=1.797676e-03	genotype_quality=26133.5	ks_quality_p_value=0.450237	log10_base_likelihood=-22.2322	log10_qual_likelihood_position_model=5.22739	log10_strand_likelihood_position_model=0.961902	new_cov=8/4	polymorphism_quality=17.0	quality=17.0	quality_position_model=3.6046e-18	ref_cov=3231/3397	reject=INDEL_HOMOPOLYMER	tot_cov=3239/3401
RA	162	.	NC_007779	686943	0	A	.	bias_e_value=1740010	bias_p_value=0.374492	fisher_strand_p_value=0.221489	frequency=9.126663e-04	genotype_quality=26548.0	ks_quality_p_value=0.541917	log10_base_likelihood=-9.33542	log10_qual_likelihood_position_model=2.43577	log10_strand_likelihood_position_model=0.951347	new_cov=5/1	polymorphism_quality=3.9	quality=3.9	quality_position_model=7.21089e-08	ref_cov=3394/3100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=3399/3103
RA	163	.	NC_007779	687060	0	A	.	bias_e_value=3502040	bias_p_value=0.753721	fisher_strand_p_value=0.688777	frequency=8.420944e-04	genotype_quality=28481.6	ks_quality_p_value=0.560842	log10_base_likelihood=-8.80144	log10_qual_likelihood_position_model=4.3198	log10_strand_likelihood_position_model=0.598253	new_cov=4/2	polymorphism_quality=3.3	quality=3.3	quality_position_model=1.01985e-05	ref_cov=3651/3380	reject=INDEL_HOMOPOLYMER	tot_cov=3655/3382
RA	164	.	NC_007779	687068	0	A	C	bias_e_value=6.50447e-79	bias_p_value=1.39991e-85	fisher_strand_p_value=6.94092e-88	frequency=8.254051e-03	genotype_quality=24737.9	ks_quality_p_value=1	log10_base_likelihood=-27.3777	log10_qual_likelihood_position_model=269.893	log10_strand_likelihood_position_model=87.1586	new_cov=0/256	polymorphism_quality=22.2	quality=22.2	quality_position_model=Inf	ref_cov=3886/3138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=3887/3425
RA	165	.	NC_007779	687133	0	A	C	bias_e_value=8.12557e-252	bias_p_value=1.74881e-258	fisher_strand_p_value=2.91029e-261	frequency=4.719543e-02	genotype_quality=20039.7	ks_quality_p_value=1	log10_base_likelihood=-251.361	log10_qual_likelihood_position_model=Inf	log10_strand_likelihood_position_model=260.536	new_cov=1/500	polymorphism_quality=246.6	quality=246.6	quality_position_model=Inf	ref_cov=3956/1435	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=3958/1945
RA	166	.	NC_007779	687378	0	T	.	bias_e_value=4058550	bias_p_value=0.873495	fisher_strand_p_value=0.72683	frequency=1.101494e-03	genotype_quality=29088.1	ks_quality_p_value=0.744641	log10_base_likelihood=-13.2769	log10_qual_likelihood_position_model=3.33717	log10_strand_likelihood_position_model=0.643572	new_cov=5/3	polymorphism_quality=7.9	quality=7.9	quality_position_model=2.61929e-11	ref_cov=3666/3527	reject=INDEL_HOMOPOLYMER	tot_cov=3671/3533
RA	167	.	NC_007779	687748	0	T	.	bias_e_value=2766220	bias_p_value=0.595357	fisher_strand_p_value=0.290979	frequency=1.191139e-03	genotype_quality=27183.1	ks_quality_p_value=0.856154	log10_base_likelihood=-13.2753	log10_qual_likelihood_position_model=4.23366	log10_strand_likelihood_position_model=0.904971	new_cov=6/2	polymorphism_quality=7.9	quality=7.9	quality_position_model=4.03e-10	ref_cov=3431/3212	reject=INDEL_HOMOPOLYMER	tot_cov=3439/3214
RA	168	.	NC_007779	687804	0	T	.	bias_e_value=2442030	bias_p_value=0.525582	fisher_strand_p_value=0.770171	frequency=1.625061e-03	genotype_quality=26517.0	ks_quality_p_value=0.262673	log10_base_likelihood=-19.4362	log10_qual_likelihood_position_model=4.74653	log10_strand_likelihood_position_model=0.656064	new_cov=5/6	polymorphism_quality=14.1	quality=14.1	quality_position_model=3.93037e-16	ref_cov=3424/3288	reject=INDEL_HOMOPOLYMER	tot_cov=3431/3294
RA	169	.	NC_007779	688155	0	T	G	bias_e_value=2.48859e-272	bias_p_value=5.35603e-279	fisher_strand_p_value=8.26271e-282	frequency=3.824806e-02	genotype_quality=22608.0	ks_quality_p_value=1	log10_base_likelihood=-94.4854	log10_qual_likelihood_position_model=Inf	log10_strand_likelihood_position_model=281.083	new_cov=763/0	polymorphism_quality=89.5	quality=89.5	quality_position_model=Inf	ref_cov=2503/3837	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=3270/3840
RA	170	.	NC_007779	702753	1	.	T	bias_e_value=4344240	bias_p_value=0.934983	fisher_strand_p_value=1	frequency=1.030922e-02	genotype_quality=942.0	ks_quality_p_value=0.661794	log10_base_likelihood=-8.49601	log10_qual_likelihood_position_model=1.00399	log10_strand_likelihood_position_model=0.298832	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=3.75149e-09	ref_cov=95/97	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=96/98
RA	171	.	NC_007779	706278	1	.	G	bias_e_value=1170640	bias_p_value=0.251948	fisher_strand_p_value=0.0765628	frequency=1.092911e-02	genotype_quality=891.3	ks_quality_p_value=0.893741	log10_base_likelihood=-8.34507	log10_qual_likelihood_position_model=2.06313	log10_strand_likelihood_position_model=1.11598	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=4.66575e-07	ref_cov=49/132	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=51/132
RA	172	.	NC_007779	706282	0	T	G	bias_e_value=1.89471	bias_p_value=4.07785e-07	fisher_strand_p_value=2.18796e-08	frequency=4.029846e-02	genotype_quality=559.3	ks_quality_p_value=1	log10_base_likelihood=-13.2407	log10_qual_likelihood_position_model=7.87878	log10_strand_likelihood_position_model=7.65996	new_cov=7/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=8/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=15/135
RA	173	.	NC_007779	706386	0	T	.	bias_e_value=4504530	bias_p_value=0.969482	fisher_strand_p_value=1	frequency=2.689743e-02	genotype_quality=871.8	ks_quality_p_value=0.763341	log10_base_likelihood=-18.3557	log10_qual_likelihood_position_model=1.92077	log10_strand_likelihood_position_model=0.499908	new_cov=3/3	polymorphism_quality=13.1	quality=13.1	quality_position_model=4.63634e-18	ref_cov=106/111	reject=INDEL_HOMOPOLYMER	tot_cov=109/114
RA	174	.	NC_007779	749354	0	C	A	frequency=1	genotype_quality=1031.7	new_cov=138/116	quality=1031.7	ref_cov=0/0	tot_cov=138/116
RA	175	.	NC_007779	752693	0	A	C	bias_e_value=6.55293e-16	bias_p_value=1.41035e-22	fisher_strand_p_value=2.54914e-24	frequency=1.847577e-01	genotype_quality=533.0	ks_quality_p_value=1	log10_base_likelihood=-25.2532	log10_qual_likelihood_position_model=37.4103	log10_strand_likelihood_position_model=23.5936	new_cov=0/47	polymorphism_quality=20.0	quality=20.0	quality_position_model=Inf	ref_cov=117/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/79
RA	176	.	NC_007779	753547	0	T	A	bias_e_value=1.29197e-07	bias_p_value=2.78063e-14	fisher_strand_p_value=7.76902e-16	frequency=1.436095e-01	genotype_quality=701.7	ks_quality_p_value=1	log10_base_likelihood=-32.8039	log10_qual_likelihood_position_model=37.2668	log10_strand_likelihood_position_model=15.1096	new_cov=0/34	polymorphism_quality=27.6	quality=27.6	quality_position_model=Inf	ref_cov=133/58	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/92
RA	177	.	NC_007779	758440	0	C	A	frequency=1	genotype_quality=958.9	new_cov=116/120	quality=958.9	ref_cov=0/0	tot_cov=116/120
RA	178	.	NC_007779	759019	0	C	G	bias_e_value=1.33874e-14	bias_p_value=2.88129e-21	fisher_strand_p_value=5.51421e-23	frequency=1.534548e-01	genotype_quality=547.2	ks_quality_p_value=1	log10_base_likelihood=-57.0002	log10_qual_likelihood_position_model=24.0413	log10_strand_likelihood_position_model=22.2585	new_cov=0/24	polymorphism_quality=51.9	quality=51.9	quality_position_model=9.65115e-13	ref_cov=126/6	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/30
RA	179	.	NC_007779	829585	0	G	T	bias_e_value=0.503298	bias_p_value=1.08322e-07	fisher_strand_p_value=7.13625e-09	frequency=8.101177e-02	genotype_quality=585.1	ks_quality_p_value=0.757602	log10_base_likelihood=-18.0395	log10_qual_likelihood_position_model=20.2678	log10_strand_likelihood_position_model=8.14653	new_cov=15/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=40/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=55/119
RA	180	.	NC_007779	837856	1	.	A	bias_e_value=3739640	bias_p_value=0.804859	fisher_strand_p_value=0.504687	frequency=8.657455e-03	genotype_quality=1129.3	ks_quality_p_value=0.880637	log10_base_likelihood=-8.274	log10_qual_likelihood_position_model=0.981047	log10_strand_likelihood_position_model=0.50754	new_cov=0/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=9.86211e-09	ref_cov=102/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=102/129
RA	181	.	NC_007779	847635	0	A	C	bias_e_value=5.93038	bias_p_value=1.27636e-06	fisher_strand_p_value=7.3229e-08	frequency=6.714916e-02	genotype_quality=617.0	ks_quality_p_value=1	log10_base_likelihood=-11.3024	log10_qual_likelihood_position_model=20.435	log10_strand_likelihood_position_model=7.13532	new_cov=15/0	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=49/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=64/113
RA	182	.	NC_007779	853114	0	C	G	bias_e_value=0.209612	bias_p_value=4.51133e-08	fisher_strand_p_value=2.15495e-09	frequency=6.741190e-02	genotype_quality=586.3	ks_quality_p_value=0.99896	log10_base_likelihood=-11.3089	log10_qual_likelihood_position_model=14.7285	log10_strand_likelihood_position_model=8.66656	new_cov=0/11	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=122/18	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=122/29
RA	183	.	NC_007779	887234	0	C	A	frequency=1	genotype_quality=671.2	new_cov=88/90	quality=671.2	ref_cov=0/0	tot_cov=88/90
RA	184	.	NC_007779	891727	1	.	T	bias_e_value=2169530	bias_p_value=0.466933	fisher_strand_p_value=0.498319	frequency=9.708405e-03	genotype_quality=998.8	ks_quality_p_value=0.336298	log10_base_likelihood=-8.31557	log10_qual_likelihood_position_model=2.06932	log10_strand_likelihood_position_model=0.570931	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.38204e-07	ref_cov=105/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=107/99
RA	185	.	NC_007779	894943	0	T	G	bias_e_value=1.18655e-12	bias_p_value=2.55373e-19	fisher_strand_p_value=5.35643e-21	frequency=1.244383e-01	genotype_quality=550.7	ks_quality_p_value=1	log10_base_likelihood=-13.4279	log10_qual_likelihood_position_model=30.8731	log10_strand_likelihood_position_model=20.2711	new_cov=33/0	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=23/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=56/120
RA	186	.	NC_007779	901188	0	T	C	bias_e_value=0.000634892	bias_p_value=1.36644e-10	fisher_strand_p_value=5.05903e-12	frequency=6.118774e-02	genotype_quality=715.1	ks_quality_p_value=1	log10_base_likelihood=-5.58039	log10_qual_likelihood_position_model=19.4045	log10_strand_likelihood_position_model=11.2959	new_cov=0/21	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=151/51	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/72
RA	187	.	NC_007779	904838	0	C	A	bias_e_value=2.21285e-06	bias_p_value=4.76257e-13	fisher_strand_p_value=1.50095e-14	frequency=9.561682e-02	genotype_quality=869.8	ks_quality_p_value=0.96547	log10_base_likelihood=-23.2185	log10_qual_likelihood_position_model=29.9619	log10_strand_likelihood_position_model=13.8236	new_cov=31/0	polymorphism_quality=18.0	quality=18.0	quality_position_model=Inf	ref_cov=75/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/162
RA	188	.	NC_007779	911333	0	T	G	bias_e_value=35.2022	bias_p_value=7.57634e-06	fisher_strand_p_value=4.87743e-07	frequency=4.921055e-02	genotype_quality=496.3	ks_quality_p_value=1	log10_base_likelihood=-7.86889	log10_qual_likelihood_position_model=13.6497	log10_strand_likelihood_position_model=6.31181	new_cov=10/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=27/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=37/106
RA	189	.	NC_007779	918503	0	A	.	bias_e_value=4638060	bias_p_value=0.99822	fisher_strand_p_value=1	frequency=1.180649e-02	genotype_quality=1020.2	ks_quality_p_value=0.940936	log10_base_likelihood=-6.77599	log10_qual_likelihood_position_model=3.2552	log10_strand_likelihood_position_model=0.387275	new_cov=2/1	polymorphism_quality=1.3	quality=1.3	quality_position_model=6.31667e-05	ref_cov=137/113	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/114
RA	190	.	NC_007779	930612	0	G	T	bias_e_value=2095300	bias_p_value=0.450959	fisher_strand_p_value=0.247585	frequency=1.344299e-02	genotype_quality=930.0	ks_quality_p_value=0.641286	log10_base_likelihood=-5.90132	log10_qual_likelihood_position_model=3.30955	log10_strand_likelihood_position_model=0.862487	new_cov=0/3	polymorphism_quality=0.4	quality=0.4	quality_position_model=0.00207768	ref_cov=107/112	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=107/116
RA	191	.	NC_007779	932754	1	.	A	bias_e_value=2341190	bias_p_value=0.503879	fisher_strand_p_value=0.501316	frequency=8.196831e-03	genotype_quality=1199.1	ks_quality_p_value=0.377012	log10_base_likelihood=-8.4683	log10_qual_likelihood_position_model=1.18461	log10_strand_likelihood_position_model=0.535151	new_cov=2/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.07637e-08	ref_cov=130/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/112
RA	192	.	NC_007779	947970	0	C	A	bias_e_value=3.55207	bias_p_value=7.64489e-07	fisher_strand_p_value=4.25356e-08	frequency=6.015539e-02	genotype_quality=838.4	ks_quality_p_value=1	log10_base_likelihood=-10.5743	log10_qual_likelihood_position_model=18.3728	log10_strand_likelihood_position_model=7.37125	new_cov=20/0	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=90/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/134
RA	193	.	NC_007779	954820	0	A	C	bias_e_value=1.12061e-12	bias_p_value=2.41181e-19	fisher_strand_p_value=5.05256e-21	frequency=1.189222e-01	genotype_quality=571.5	ks_quality_p_value=1	log10_base_likelihood=-11.8193	log10_qual_likelihood_position_model=31.3394	log10_strand_likelihood_position_model=20.2965	new_cov=0/49	polymorphism_quality=6.4	quality=6.4	quality_position_model=Inf	ref_cov=115/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/98
RA	194	.	NC_007779	975332	1	.	G	bias_e_value=741990	bias_p_value=0.159694	fisher_strand_p_value=0.0924135	frequency=1.587296e-02	genotype_quality=920.9	ks_quality_p_value=0.402709	log10_base_likelihood=-13.457	log10_qual_likelihood_position_model=1.35927	log10_strand_likelihood_position_model=1.03426	new_cov=3/0	polymorphism_quality=8.1	quality=8.1	quality_position_model=4.11667e-13	ref_cov=83/103	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=86/103
RA	195	.	NC_007779	987574	0	G	T	frequency=1	genotype_quality=885.9	new_cov=84/133	quality=885.9	ref_cov=0/0	tot_cov=84/133
RA	196	.	NC_007779	987916	0	T	G	bias_e_value=5.14949e-07	bias_p_value=1.10829e-13	fisher_strand_p_value=3.22479e-15	frequency=5.802393e-02	genotype_quality=629.5	ks_quality_p_value=1	log10_base_likelihood=-15.7564	log10_qual_likelihood_position_model=17.2744	log10_strand_likelihood_position_model=14.4915	new_cov=12/0	polymorphism_quality=10.4	quality=10.4	quality_position_model=Inf	ref_cov=4/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=16/149
RA	197	.	NC_007779	991407	0	G	T	bias_e_value=0.933782	bias_p_value=2.00972e-07	fisher_strand_p_value=1.12849e-08	frequency=7.626295e-02	genotype_quality=829.9	ks_quality_p_value=0.918714	log10_base_likelihood=-15.9117	log10_qual_likelihood_position_model=28.0666	log10_strand_likelihood_position_model=8.00304	new_cov=0/26	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=126/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/138
RA	198	.	NC_007779	1002413	0	T	G	bias_e_value=2.38227e-15	bias_p_value=5.1272e-22	fisher_strand_p_value=9.49278e-24	frequency=1.463537e-01	genotype_quality=653.5	ks_quality_p_value=1	log10_base_likelihood=-23.6518	log10_qual_likelihood_position_model=36.2293	log10_strand_likelihood_position_model=23.0226	new_cov=50/0	polymorphism_quality=18.4	quality=18.4	quality_position_model=Inf	ref_cov=48/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=99/135
RA	199	.	NC_007779	1002640	0	G	.	bias_e_value=941756	bias_p_value=0.202688	fisher_strand_p_value=0.247934	frequency=1.234055e-02	genotype_quality=1040.6	ks_quality_p_value=0.205586	log10_base_likelihood=-8.74219	log10_qual_likelihood_position_model=1.93301	log10_strand_likelihood_position_model=0.860736	new_cov=0/3	polymorphism_quality=3.3	quality=3.3	quality_position_model=7.20839e-08	ref_cov=117/123	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/126
RA	200	.	NC_007779	1005103	0	T	.	bias_e_value=2174430	bias_p_value=0.467989	fisher_strand_p_value=0.586091	frequency=1.647377e-02	genotype_quality=708.4	ks_quality_p_value=0.286943	log10_base_likelihood=-8.429	log10_qual_likelihood_position_model=1.6615	log10_strand_likelihood_position_model=0.480005	new_cov=2/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=3.21728e-08	ref_cov=79/100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=81/101
RA	201	.	NC_007779	1006080	0	C	A	bias_e_value=3960.59	bias_p_value=0.000852413	fisher_strand_p_value=8.18822e-05	frequency=4.544830e-02	genotype_quality=769.5	ks_quality_p_value=1	log10_base_likelihood=-6.11837	log10_qual_likelihood_position_model=14.291	log10_strand_likelihood_position_model=4.29636	new_cov=16/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=119/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/110
RA	202	.	NC_007779	1013042	0	G	C	bias_e_value=0.0368851	bias_p_value=7.93854e-09	fisher_strand_p_value=3.48907e-10	frequency=6.699371e-02	genotype_quality=556.5	ks_quality_p_value=0.998916	log10_base_likelihood=-11.6936	log10_qual_likelihood_position_model=13.1029	log10_strand_likelihood_position_model=9.45729	new_cov=0/11	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=123/14	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/25
RA	203	.	NC_007779	1020667	0	A	.	bias_e_value=4164060	bias_p_value=0.896203	fisher_strand_p_value=1	frequency=1.280975e-02	genotype_quality=942.5	ks_quality_p_value=0.58048	log10_base_likelihood=-8.00855	log10_qual_likelihood_position_model=2.13661	log10_strand_likelihood_position_model=0.409893	new_cov=1/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.29914e-07	ref_cov=112/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=113/121
RA	204	.	NC_007779	1037604	0	C	G	bias_e_value=5.05437e-15	bias_p_value=1.08782e-21	fisher_strand_p_value=2.04304e-23	frequency=1.990390e-01	genotype_quality=461.1	ks_quality_p_value=1	log10_base_likelihood=-45.0682	log10_qual_likelihood_position_model=25.7369	log10_strand_likelihood_position_model=22.6897	new_cov=30/0	polymorphism_quality=40.0	quality=40.0	quality_position_model=Inf	ref_cov=9/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=39/106
RA	205	.	NC_007779	1049998	0	C	A	bias_e_value=2792.55	bias_p_value=0.000601022	fisher_strand_p_value=5.56705e-05	frequency=4.425335e-02	genotype_quality=663.3	ks_quality_p_value=1	log10_base_likelihood=-6.35285	log10_qual_likelihood_position_model=14.4252	log10_strand_likelihood_position_model=4.25438	new_cov=12/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=76/104	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=88/104
RA	206	.	NC_007779	1050580	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	207	.	NC_007779	1050581	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	208	.	NC_007779	1050584	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	209	.	NC_007779	1050586	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	210	.	NC_007779	1050587	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	211	.	NC_007779	1050588	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	212	.	NC_007779	1050589	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	213	.	NC_007779	1050590	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	214	.	NC_007779	1050591	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	215	.	NC_007779	1050593	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	216	.	NC_007779	1050595	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	217	.	NC_007779	1050596	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	218	.	NC_007779	1050597	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	219	.	NC_007779	1050598	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	220	.	NC_007779	1050599	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	221	.	NC_007779	1050600	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	222	.	NC_007779	1050601	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	223	.	NC_007779	1050602	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	224	.	NC_007779	1050603	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	225	.	NC_007779	1050604	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	226	.	NC_007779	1070200	0	A	C	bias_e_value=19.7285	bias_p_value=4.24604e-06	fisher_strand_p_value=2.63575e-07	frequency=4.425812e-02	genotype_quality=553.0	ks_quality_p_value=0.997393	log10_base_likelihood=-10.9352	log10_qual_likelihood_position_model=8.54114	log10_strand_likelihood_position_model=6.5791	new_cov=0/7	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=130/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/20
RA	227	.	NC_007779	1072424	1	.	G	bias_e_value=3938740	bias_p_value=0.847709	fisher_strand_p_value=0.50204	frequency=9.345055e-03	genotype_quality=1047.3	ks_quality_p_value=0.999207	log10_base_likelihood=-7.61819	log10_qual_likelihood_position_model=2.2714	log10_strand_likelihood_position_model=0.52615	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.06703e-06	ref_cov=115/97	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/97
RA	228	.	NC_007779	1077331	0	A	C	bias_e_value=6.1812e-06	bias_p_value=1.33034e-12	fisher_strand_p_value=4.18277e-14	frequency=7.898998e-02	genotype_quality=646.2	ks_quality_p_value=1	log10_base_likelihood=-6.82635	log10_qual_likelihood_position_model=33.912	log10_strand_likelihood_position_model=13.3785	new_cov=0/33	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=116/59	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/92
RA	229	.	NC_007779	1086017	0	A	C	bias_e_value=4.40823e-05	bias_p_value=9.48754e-12	fisher_strand_p_value=3.18645e-13	frequency=8.723164e-02	genotype_quality=613.8	ks_quality_p_value=1	log10_base_likelihood=-8.44852	log10_qual_likelihood_position_model=27.2491	log10_strand_likelihood_position_model=12.4967	new_cov=0/34	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=106/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/97
RA	230	.	NC_007779	1093686	0	T	C	frequency=1	genotype_quality=1226.5	new_cov=128/151	quality=1226.5	ref_cov=0/0	tot_cov=128/151
RA	231	.	NC_007779	1097580	0	C	T	bias_e_value=1101170	bias_p_value=0.236998	fisher_strand_p_value=0.441705	frequency=1.910977e-01	genotype_quality=688.0	ks_quality_p_value=0.142488	log10_base_likelihood=-129.862	log10_qual_likelihood_position_model=21.9578	log10_strand_likelihood_position_model=1.0612	new_cov=19/35	polymorphism_quality=125.0	quality=125.0	quality_position_model=2.23791e-109	ref_cov=93/131	tot_cov=112/166
RA	232	.	NC_007779	1097729	1	.	G	bias_e_value=337870	bias_p_value=0.0727175	fisher_strand_p_value=0.157664	frequency=3.081322e-03	genotype_quality=2479.5	ks_quality_p_value=0.0872479	log10_base_likelihood=-7.43372	log10_qual_likelihood_position_model=2.64155	log10_strand_likelihood_position_model=0.802267	new_cov=2/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=7.88251e-06	ref_cov=256/391	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=258/391
RA	233	.	NC_007779	1115091	0	C	A	bias_e_value=3.32454	bias_p_value=7.1552e-07	fisher_strand_p_value=3.96867e-08	frequency=6.162167e-02	genotype_quality=706.8	ks_quality_p_value=0.999236	log10_base_likelihood=-12.0036	log10_qual_likelihood_position_model=13.4771	log10_strand_likelihood_position_model=7.40136	new_cov=0/13	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=135/43	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/56
RA	234	.	NC_007779	1115100	0	C	G	bias_e_value=212.317	bias_p_value=4.56956e-05	fisher_strand_p_value=3.45406e-06	frequency=5.081224e-02	genotype_quality=830.2	ks_quality_p_value=0.972483	log10_base_likelihood=-7.12703	log10_qual_likelihood_position_model=21.6239	log10_strand_likelihood_position_model=5.46167	new_cov=0/17	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=128/108	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/126
RA	235	.	NC_007779	1116582	0	G	C	bias_e_value=5.89557e-21	bias_p_value=1.26886e-27	fisher_strand_p_value=1.88992e-29	frequency=1.746211e-01	genotype_quality=482.3	ks_quality_p_value=1	log10_base_likelihood=-56.2609	log10_qual_likelihood_position_model=24.0211	log10_strand_likelihood_position_model=28.7236	new_cov=0/26	polymorphism_quality=51.2	quality=51.2	quality_position_model=2.48474e-05	ref_cov=121/0	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=121/26
RA	236	.	NC_007779	1120197	0	C	A	bias_e_value=759.706	bias_p_value=0.000163507	fisher_strand_p_value=1.33782e-05	frequency=4.808807e-02	genotype_quality=598.8	ks_quality_p_value=1	log10_base_likelihood=-6.89644	log10_qual_likelihood_position_model=11.67	log10_strand_likelihood_position_model=4.8736	new_cov=13/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=69/104	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/104
RA	237	.	NC_007779	1154556	0	T	G	bias_e_value=396.61	bias_p_value=8.53598e-05	fisher_strand_p_value=6.60269e-06	frequency=3.915501e-02	genotype_quality=520.5	ks_quality_p_value=1	log10_base_likelihood=-8.93561	log10_qual_likelihood_position_model=9.0117	log10_strand_likelihood_position_model=5.18028	new_cov=6/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=15/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=21/116
RA	238	.	NC_007779	1158848	0	T	G	bias_e_value=2.64262e-25	bias_p_value=5.68754e-32	fisher_strand_p_value=7.35851e-34	frequency=1.950593e-01	genotype_quality=625.7	ks_quality_p_value=1	log10_base_likelihood=-29.2401	log10_qual_likelihood_position_model=48.2841	log10_strand_likelihood_position_model=33.1332	new_cov=71/0	polymorphism_quality=24.0	quality=24.0	quality_position_model=Inf	ref_cov=39/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/137
RA	239	.	NC_007779	1163018	0	T	G	bias_e_value=8.61581e-06	bias_p_value=1.85433e-12	fisher_strand_p_value=5.8938e-14	frequency=1.193833e-01	genotype_quality=721.1	ks_quality_p_value=1	log10_base_likelihood=-18.6884	log10_qual_likelihood_position_model=32.1657	log10_strand_likelihood_position_model=13.2296	new_cov=36/0	polymorphism_quality=13.4	quality=13.4	quality_position_model=Inf	ref_cov=77/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/126
RA	240	.	NC_007779	1164942	0	A	G	bias_e_value=1.13196	bias_p_value=2.43624e-07	fisher_strand_p_value=1.27009e-08	frequency=5.852699e-02	genotype_quality=490.7	ks_quality_p_value=1	log10_base_likelihood=-6.40385	log10_qual_likelihood_position_model=13.2203	log10_strand_likelihood_position_model=7.89616	new_cov=10/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=17/115	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=27/116
RA	241	.	NC_007779	1164944	0	T	G	bias_e_value=1.31151e-06	bias_p_value=2.82269e-13	fisher_strand_p_value=8.45e-15	frequency=6.552553e-02	genotype_quality=497.7	ks_quality_p_value=1	log10_base_likelihood=-6.98346	log10_qual_likelihood_position_model=22.3875	log10_strand_likelihood_position_model=14.0731	new_cov=18/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=13/110	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=31/110
RA	242	.	NC_007779	1170573	0	C	T	frequency=1	genotype_quality=1067.8	new_cov=172/88	quality=1067.8	ref_cov=0/0	tot_cov=172/88
RA	243	.	NC_007779	1177683	0	A	G	bias_e_value=0.000238629	bias_p_value=5.13585e-11	fisher_strand_p_value=1.83258e-12	frequency=8.889818e-02	genotype_quality=565.0	ks_quality_p_value=1	log10_base_likelihood=-16.6695	log10_qual_likelihood_position_model=18.3436	log10_strand_likelihood_position_model=11.7369	new_cov=17/0	polymorphism_quality=11.3	quality=11.3	quality_position_model=Inf	ref_cov=25/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=42/132
RA	244	.	NC_007779	1206762	1	.	C	bias_e_value=2747310	bias_p_value=0.591285	fisher_strand_p_value=0.246544	frequency=9.216309e-03	genotype_quality=1036.9	ks_quality_p_value=0.998629	log10_base_likelihood=-7.37242	log10_qual_likelihood_position_model=2.6217	log10_strand_likelihood_position_model=0.608106	new_cov=2/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=5.45123e-06	ref_cov=106/109	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/109
RA	245	.	NC_007779	1213001	0	T	C	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=1.403618e-02	genotype_quality=1122.6	ks_quality_p_value=1	log10_base_likelihood=-6.62869	log10_qual_likelihood_position_model=4.12052	log10_strand_likelihood_position_model=0.4242	new_cov=2/2	polymorphism_quality=1.1	quality=1.1	quality_position_model=0.00084723	ref_cov=143/132	reject=EVALUE	tot_cov=145/134
RA	246	.	NC_007779	1213013	0	T	C	bias_e_value=4189520	bias_p_value=0.901683	fisher_strand_p_value=0.607091	frequency=1.056480e-02	genotype_quality=1145.4	ks_quality_p_value=0.973036	log10_base_likelihood=-6.10855	log10_qual_likelihood_position_model=1.78104	log10_strand_likelihood_position_model=0.44592	new_cov=1/2	polymorphism_quality=0.6	quality=0.6	quality_position_model=1.02431e-05	ref_cov=147/133	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=148/135
RA	247	.	NC_007779	1224173	0	G	A	bias_e_value=0.000389563	bias_p_value=8.38431e-11	fisher_strand_p_value=3.04697e-12	frequency=1.141205e-01	genotype_quality=581.9	ks_quality_p_value=1	log10_base_likelihood=-14.225	log10_qual_likelihood_position_model=23.1239	log10_strand_likelihood_position_model=11.5161	new_cov=0/25	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=116/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/74
RA	248	.	NC_007779	1262472	0	A	C	bias_e_value=1.19914e-12	bias_p_value=2.58084e-19	fisher_strand_p_value=5.41452e-21	frequency=1.517916e-01	genotype_quality=659.1	ks_quality_p_value=1	log10_base_likelihood=-20.5941	log10_qual_likelihood_position_model=36.7774	log10_strand_likelihood_position_model=20.3726	new_cov=0/61	polymorphism_quality=15.3	quality=15.3	quality_position_model=Inf	ref_cov=119/74	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/135
RA	249	.	NC_007779	1273395	1	.	G	bias_e_value=1786690	bias_p_value=0.384538	fisher_strand_p_value=0.151141	frequency=8.298874e-03	genotype_quality=1186.7	ks_quality_p_value=0.825794	log10_base_likelihood=-8.35908	log10_qual_likelihood_position_model=1.09198	log10_strand_likelihood_position_model=0.820617	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.20494e-08	ref_cov=92/147	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=94/147
RA	250	.	NC_007779	1273399	0	T	G	bias_e_value=3.79022e-32	bias_p_value=8.15745e-39	fisher_strand_p_value=8.74915e-41	frequency=2.271943e-01	genotype_quality=573.7	ks_quality_p_value=1	log10_base_likelihood=-41.0634	log10_qual_likelihood_position_model=50.2487	log10_strand_likelihood_position_model=40.058	new_cov=63/0	polymorphism_quality=35.9	quality=35.9	quality_position_model=Inf	ref_cov=15/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=78/140
RA	251	.	NC_007779	1288364	0	G	A	deleted=1	frequency=1	genotype_quality=32.6	new_cov=6/6	quality=32.6	ref_cov=0/0	tot_cov=6/6
RA	252	.	NC_007779	1288370	0	A	G	deleted=1	frequency=1	genotype_quality=8.0	new_cov=1/4	quality=8.0	ref_cov=0/0	reject=EVALUE	tot_cov=1/4
RA	253	.	NC_007779	1288462	0	T	C	deleted=1	frequency=1	genotype_quality=28.2	new_cov=11/2	quality=28.2	ref_cov=0/0	tot_cov=11/2
RA	254	.	NC_007779	1289980	0	G	T	bias_e_value=2030.14	bias_p_value=0.000436933	fisher_strand_p_value=3.91978e-05	frequency=5.129814e-02	genotype_quality=766.0	ks_quality_p_value=1	log10_base_likelihood=-10.0199	log10_qual_likelihood_position_model=10.8322	log10_strand_likelihood_position_model=4.6449	new_cov=0/17	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=112/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/136
RA	255	.	NC_007779	1318876	0	G	A	frequency=1	genotype_quality=1033.2	new_cov=125/130	quality=1033.2	ref_cov=0/0	tot_cov=125/130
RA	256	.	NC_007779	1324190	0	T	C	bias_e_value=1.62813	bias_p_value=3.50411e-07	fisher_strand_p_value=1.8641e-08	frequency=6.403065e-02	genotype_quality=719.9	ks_quality_p_value=1	log10_base_likelihood=-7.5206	log10_qual_likelihood_position_model=17.7605	log10_strand_likelihood_position_model=7.73984	new_cov=1/21	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=139/74	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/95
RA	257	.	NC_007779	1330179	0	T	G	bias_e_value=9.0938e-05	bias_p_value=1.9572e-11	fisher_strand_p_value=6.74313e-13	frequency=5.959511e-02	genotype_quality=693.1	ks_quality_p_value=1	log10_base_likelihood=-8.64524	log10_qual_likelihood_position_model=29.0432	log10_strand_likelihood_position_model=12.1711	new_cov=29/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=63/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=93/126
RA	258	.	NC_007779	1337405	0	T	G	bias_e_value=7.22304e-09	bias_p_value=1.55457e-15	fisher_strand_p_value=4.01129e-17	frequency=8.264685e-02	genotype_quality=749.0	ks_quality_p_value=1	log10_base_likelihood=-11.2191	log10_qual_likelihood_position_model=30.1441	log10_strand_likelihood_position_model=16.3967	new_cov=37/0	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=62/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=99/142
RA	259	.	NC_007779	1352913	1	.	T	bias_e_value=293298	bias_p_value=0.0631246	fisher_strand_p_value=0.0132758	frequency=1.960754e-02	genotype_quality=716.5	ks_quality_p_value=0.870837	log10_base_likelihood=-13.0974	log10_qual_likelihood_position_model=2.15099	log10_strand_likelihood_position_model=1.87694	new_cov=3/0	polymorphism_quality=7.7	quality=7.7	quality_position_model=4.46685e-11	ref_cov=34/116	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=37/116
RA	260	.	NC_007779	1371749	1	.	T	bias_e_value=2059390	bias_p_value=0.44323	fisher_strand_p_value=0.280597	frequency=3.448296e-02	genotype_quality=1052.0	ks_quality_p_value=0.550979	log10_base_likelihood=-36.352	log10_qual_likelihood_position_model=5.09338	log10_strand_likelihood_position_model=0.953611	new_cov=2/6	polymorphism_quality=31.2	quality=31.2	quality_position_model=1.44303e-32	ref_cov=113/111	reject=INDEL_HOMOPOLYMER	tot_cov=115/117
RA	261	.	NC_007779	1374596	0	C	A	bias_e_value=578.038	bias_p_value=0.000124407	fisher_strand_p_value=1.05339e-05	frequency=6.441975e-02	genotype_quality=725.7	ks_quality_p_value=0.943362	log10_base_likelihood=-14.0271	log10_qual_likelihood_position_model=17.2841	log10_strand_likelihood_position_model=5.05555	new_cov=17/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=101/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/108
RA	262	.	NC_007779	1374996	0	A	C	bias_e_value=1.93841	bias_p_value=4.17191e-07	fisher_strand_p_value=2.24132e-08	frequency=5.655670e-02	genotype_quality=509.2	ks_quality_p_value=1	log10_base_likelihood=-11.2449	log10_qual_likelihood_position_model=12.4257	log10_strand_likelihood_position_model=7.6495	new_cov=11/0	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=22/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=33/110
RA	263	.	NC_007779	1378219	0	A	C	bias_e_value=1.54393e-06	bias_p_value=3.3229e-13	fisher_strand_p_value=9.99776e-15	frequency=1.247597e-01	genotype_quality=512.1	ks_quality_p_value=1	log10_base_likelihood=-8.94177	log10_qual_likelihood_position_model=37.9691	log10_strand_likelihood_position_model=14.0001	new_cov=0/37	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=90/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=90/85
RA	264	.	NC_007779	1378854	0	A	C	bias_e_value=1.71227e-12	bias_p_value=3.68521e-19	fisher_strand_p_value=7.79091e-21	frequency=1.227365e-01	genotype_quality=652.5	ks_quality_p_value=1	log10_base_likelihood=-13.3106	log10_qual_likelihood_position_model=35.1334	log10_strand_likelihood_position_model=20.1084	new_cov=0/52	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=123/61	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/114
RA	265	.	NC_007779	1405508	0	G	T	bias_e_value=4.6473e-09	bias_p_value=1.00021e-15	fisher_strand_p_value=2.55893e-17	frequency=1.567864e-01	genotype_quality=417.7	ks_quality_p_value=0.996926	log10_base_likelihood=-51.2459	log10_qual_likelihood_position_model=20.062	log10_strand_likelihood_position_model=16.5919	new_cov=19/0	polymorphism_quality=46.2	quality=46.2	quality_position_model=1.06624e-16	ref_cov=6/96	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=25/96
RA	266	.	NC_007779	1409137	0	G	T	bias_e_value=9.35556e-14	bias_p_value=2.01354e-20	fisher_strand_p_value=4.00551e-22	frequency=2.012644e-01	genotype_quality=713.2	ks_quality_p_value=1	log10_base_likelihood=-52.1534	log10_qual_likelihood_position_model=32.9055	log10_strand_likelihood_position_model=21.3973	new_cov=0/55	polymorphism_quality=47.1	quality=47.1	quality_position_model=Inf	ref_cov=129/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/118
RA	267	.	NC_007779	1429451	0	T	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=1/0	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	268	.	NC_007779	1429452	0	T	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=1/0	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	269	.	NC_007779	1429455	0	G	A	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=1/0	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	270	.	NC_007779	1429463	0	C	G	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=1/0	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	271	.	NC_007779	1429497	0	A	.	deleted=1	frequency=1	genotype_quality=-0.2	new_cov=1/0	quality=-0.2	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	272	.	NC_007779	1429607	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	273	.	NC_007779	1429625	0	A	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	274	.	NC_007779	1429683	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	275	.	NC_007779	1429684	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	276	.	NC_007779	1429685	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	277	.	NC_007779	1429686	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	278	.	NC_007779	1429687	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	279	.	NC_007779	1429688	0	C	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	280	.	NC_007779	1429691	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	281	.	NC_007779	1429692	0	G	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	282	.	NC_007779	1429693	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	283	.	NC_007779	1429694	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	284	.	NC_007779	1429695	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	285	.	NC_007779	1429696	0	T	A	deleted=1	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	286	.	NC_007779	1437441	0	G	A	bias_e_value=12.6975	bias_p_value=2.7328e-06	fisher_strand_p_value=1.69132e-07	frequency=5.695629e-02	genotype_quality=605.6	ks_quality_p_value=0.972138	log10_base_likelihood=-13.8176	log10_qual_likelihood_position_model=12.0551	log10_strand_likelihood_position_model=6.77177	new_cov=0/9	polymorphism_quality=8.5	quality=8.5	quality_position_model=Inf	ref_cov=125/22	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/31
RA	287	.	NC_007779	1437447	0	G	C	bias_e_value=1.6395e-08	bias_p_value=3.52859e-15	fisher_strand_p_value=9.30703e-17	frequency=1.430912e-01	genotype_quality=630.4	ks_quality_p_value=1	log10_base_likelihood=-32.4197	log10_qual_likelihood_position_model=26.2965	log10_strand_likelihood_position_model=16.0312	new_cov=0/32	polymorphism_quality=27.2	quality=27.2	quality_position_model=Inf	ref_cov=127/43	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/75
RA	288	.	NC_007779	1442205	0	G	C	bias_e_value=0.0116431	bias_p_value=2.50588e-09	fisher_strand_p_value=1.0449e-10	frequency=8.796787e-02	genotype_quality=557.2	ks_quality_p_value=1	log10_base_likelihood=-17.6791	log10_qual_likelihood_position_model=16.0454	log10_strand_likelihood_position_model=9.98092	new_cov=0/14	polymorphism_quality=12.4	quality=12.4	quality_position_model=Inf	ref_cov=113/20	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/34
RA	289	.	NC_007779	1483588	0	G	A	frequency=1	genotype_quality=626.1	new_cov=116/43	quality=626.1	ref_cov=0/0	tot_cov=116/43
RA	290	.	NC_007779	1483616	0	C	G	bias_e_value=0.00520683	bias_p_value=1.12063e-09	fisher_strand_p_value=4.51484e-11	frequency=7.006741e-02	genotype_quality=607.1	ks_quality_p_value=1	log10_base_likelihood=-15.2607	log10_qual_likelihood_position_model=15.452	log10_strand_likelihood_position_model=10.3454	new_cov=0/12	polymorphism_quality=9.9	quality=9.9	quality_position_model=Inf	ref_cov=133/15	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/27
RA	291	.	NC_007779	1493616	0	G	A	bias_e_value=939.005	bias_p_value=0.000202096	fisher_strand_p_value=1.68541e-05	frequency=3.143311e-02	genotype_quality=1027.6	ks_quality_p_value=1	log10_base_likelihood=-7.82899	log10_qual_likelihood_position_model=15.2299	log10_strand_likelihood_position_model=4.77329	new_cov=0/10	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=175/82	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=175/92
RA	292	.	NC_007779	1493621	0	T	C	bias_e_value=0.0475456	bias_p_value=1.02329e-08	fisher_strand_p_value=4.5456e-10	frequency=4.586411e-02	genotype_quality=885.4	ks_quality_p_value=1	log10_base_likelihood=-9.06343	log10_qual_likelihood_position_model=21.1488	log10_strand_likelihood_position_model=9.34241	new_cov=0/19	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=174/73	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/92
RA	293	.	NC_007779	1496775	0	T	.	frequency=1	genotype_quality=1158.7	new_cov=117/117	quality=1158.7	ref_cov=0/0	tot_cov=117/117
RA	294	.	NC_007779	1507752	0	A	C	bias_e_value=0.000305175	bias_p_value=6.56809e-11	fisher_strand_p_value=2.36516e-12	frequency=7.094049e-02	genotype_quality=583.0	ks_quality_p_value=1	log10_base_likelihood=-9.64127	log10_qual_likelihood_position_model=21.6986	log10_strand_likelihood_position_model=11.6261	new_cov=0/25	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=112/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/71
RA	295	.	NC_007779	1512930	0	T	C	bias_e_value=1.14476e-05	bias_p_value=2.46379e-12	fisher_strand_p_value=7.90467e-14	frequency=1.108770e-01	genotype_quality=617.6	ks_quality_p_value=1	log10_base_likelihood=-10.1857	log10_qual_likelihood_position_model=22.7153	log10_strand_likelihood_position_model=13.1021	new_cov=0/34	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=121/68	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=121/102
RA	296	.	NC_007779	1515709	0	A	G	bias_e_value=1.20885e-15	bias_p_value=2.60172e-22	fisher_strand_p_value=4.75612e-24	frequency=2.229815e-01	genotype_quality=525.2	ks_quality_p_value=1	log10_base_likelihood=-61.8503	log10_qual_likelihood_position_model=46.6194	log10_strand_likelihood_position_model=23.3227	new_cov=55/0	polymorphism_quality=56.8	quality=56.8	quality_position_model=Inf	ref_cov=51/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/127
RA	297	.	NC_007779	1515714	0	A	T	bias_e_value=0.0100526	bias_p_value=2.16355e-09	fisher_strand_p_value=8.96431e-11	frequency=1.109676e-01	genotype_quality=698.2	ks_quality_p_value=1	log10_base_likelihood=-21.0573	log10_qual_likelihood_position_model=27.1054	log10_strand_likelihood_position_model=10.0475	new_cov=27/0	polymorphism_quality=15.8	quality=15.8	quality_position_model=Inf	ref_cov=75/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=102/120
RA	298	.	NC_007779	1527466	0	T	A	bias_e_value=0.0150089	bias_p_value=3.23027e-09	fisher_strand_p_value=1.36201e-10	frequency=9.949589e-02	genotype_quality=671.6	ks_quality_p_value=1	log10_base_likelihood=-23.0218	log10_qual_likelihood_position_model=24.2523	log10_strand_likelihood_position_model=9.86582	new_cov=0/21	polymorphism_quality=17.8	quality=17.8	quality_position_model=Inf	ref_cov=126/54	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/75
RA	299	.	NC_007779	1527474	0	G	A	bias_e_value=2.10845e-13	bias_p_value=4.53789e-20	fisher_strand_p_value=9.17858e-22	frequency=1.907387e-01	genotype_quality=605.7	ks_quality_p_value=1	log10_base_likelihood=-58.972	log10_qual_likelihood_position_model=37.6283	log10_strand_likelihood_position_model=21.0372	new_cov=0/46	polymorphism_quality=53.9	quality=53.9	quality_position_model=0.116239	ref_cov=136/51	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/97
RA	300	.	NC_007779	1527479	0	C	A	bias_e_value=2.50934e-05	bias_p_value=5.40068e-12	fisher_strand_p_value=2.12162e-13	frequency=1.194544e-01	genotype_quality=764.7	ks_quality_p_value=0.838522	log10_base_likelihood=-37.3395	log10_qual_likelihood_position_model=33.4546	log10_strand_likelihood_position_model=12.6733	new_cov=0/30	polymorphism_quality=32.2	quality=32.2	quality_position_model=Inf	ref_cov=138/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=138/99
RA	301	.	NC_007779	1531018	0	A	C	bias_e_value=3.18159e-05	bias_p_value=6.84754e-12	fisher_strand_p_value=2.27402e-13	frequency=1.212578e-01	genotype_quality=486.6	ks_quality_p_value=1	log10_base_likelihood=-15.3537	log10_qual_likelihood_position_model=22.4944	log10_strand_likelihood_position_model=12.6432	new_cov=0/23	polymorphism_quality=10.0	quality=10.0	quality_position_model=Inf	ref_cov=100/28	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/51
RA	302	.	NC_007779	1537499	0	A	G	bias_e_value=1.68944e-09	bias_p_value=3.63608e-16	fisher_strand_p_value=9.03475e-18	frequency=1.345263e-01	genotype_quality=632.2	ks_quality_p_value=1	log10_base_likelihood=-20.202	log10_qual_likelihood_position_model=26.5462	log10_strand_likelihood_position_model=17.0441	new_cov=40/0	polymorphism_quality=14.9	quality=14.9	quality_position_model=Inf	ref_cov=61/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/134
RA	303	.	NC_007779	1552367	0	G	T	bias_e_value=0.472995	bias_p_value=1.018e-07	fisher_strand_p_value=5.0644e-09	frequency=5.878401e-02	genotype_quality=678.7	ks_quality_p_value=1	log10_base_likelihood=-6.32176	log10_qual_likelihood_position_model=12.8164	log10_strand_likelihood_position_model=8.29547	new_cov=0/17	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=124/51	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/68
RA	304	.	NC_007779	1552377	0	A	C	bias_e_value=3.6102e-17	bias_p_value=7.77e-24	fisher_strand_p_value=1.33329e-25	frequency=1.566982e-01	genotype_quality=554.0	ks_quality_p_value=1	log10_base_likelihood=-26.494	log10_qual_likelihood_position_model=34.4411	log10_strand_likelihood_position_model=24.8751	new_cov=0/43	polymorphism_quality=21.3	quality=21.3	quality_position_model=Inf	ref_cov=125/25	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/68
RA	305	.	NC_007779	1562474	0	A	C	bias_e_value=1792.56	bias_p_value=0.0003858	fisher_strand_p_value=3.41914e-05	frequency=4.693794e-02	genotype_quality=505.5	ks_quality_p_value=1	log10_base_likelihood=-5.94879	log10_qual_likelihood_position_model=13.6279	log10_strand_likelihood_position_model=4.46608	new_cov=12/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=60/90	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/90
RA	306	.	NC_007779	1564550	0	G	T	bias_e_value=0.949207	bias_p_value=2.04292e-07	fisher_strand_p_value=1.05483e-08	frequency=5.237198e-02	genotype_quality=662.1	ks_quality_p_value=1	log10_base_likelihood=-6.56771	log10_qual_likelihood_position_model=19.3961	log10_strand_likelihood_position_model=7.97682	new_cov=13/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=36/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=49/133
RA	307	.	NC_007779	1578837	0	A	C	bias_e_value=1.42141e-05	bias_p_value=3.0592e-12	fisher_strand_p_value=9.88592e-14	frequency=5.999804e-02	genotype_quality=684.2	ks_quality_p_value=1	log10_base_likelihood=-6.11049	log10_qual_likelihood_position_model=27.9399	log10_strand_likelihood_position_model=13.005	new_cov=0/33	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=126/69	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/102
RA	308	.	NC_007779	1609054	0	A	.	bias_e_value=4634100	bias_p_value=0.997367	fisher_strand_p_value=1	frequency=1.212978e-02	genotype_quality=966.4	ks_quality_p_value=0.92832	log10_base_likelihood=-7.51431	log10_qual_likelihood_position_model=2.61289	log10_strand_likelihood_position_model=0.397134	new_cov=1/2	polymorphism_quality=2.0	quality=2.0	quality_position_model=2.28106e-06	ref_cov=114/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=115/132
RA	309	.	NC_007779	1615814	0	C	A	frequency=1	genotype_quality=901.4	new_cov=140/99	quality=901.4	ref_cov=0/0	tot_cov=140/99
RA	310	.	NC_007779	1626064	0	T	.	bias_e_value=3224210	bias_p_value=0.693926	fisher_strand_p_value=0.332776	frequency=1.638031e-02	genotype_quality=972.9	ks_quality_p_value=0.986432	log10_base_likelihood=-10.8068	log10_qual_likelihood_position_model=3.20458	log10_strand_likelihood_position_model=0.688775	new_cov=1/3	polymorphism_quality=5.4	quality=5.4	quality_position_model=7.27947e-09	ref_cov=132/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/111
RA	311	.	NC_007779	1628027	0	G	T	bias_e_value=0.0258191	bias_p_value=5.55687e-09	fisher_strand_p_value=2.48136e-10	frequency=2.673440e-01	genotype_quality=234.5	ks_quality_p_value=0.967355	log10_base_likelihood=-56.714	log10_qual_likelihood_position_model=18.5844	log10_strand_likelihood_position_model=9.60531	new_cov=24/0	polymorphism_quality=51.7	quality=51.7	quality_position_model=8.973e-31	ref_cov=19/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=43/46
RA	312	.	NC_007779	1634809	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	1634810	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	314	.	NC_007779	1634811	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	315	.	NC_007779	1634812	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	316	.	NC_007779	1634813	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	317	.	NC_007779	1634814	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	318	.	NC_007779	1634815	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	319	.	NC_007779	1634816	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	320	.	NC_007779	1634817	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	321	.	NC_007779	1634818	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	322	.	NC_007779	1634819	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	323	.	NC_007779	1634820	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	324	.	NC_007779	1634821	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	325	.	NC_007779	1634822	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	326	.	NC_007779	1634824	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	327	.	NC_007779	1634825	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	328	.	NC_007779	1634826	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	329	.	NC_007779	1634827	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	330	.	NC_007779	1634828	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	331	.	NC_007779	1634829	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	332	.	NC_007779	1634830	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	333	.	NC_007779	1634831	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	334	.	NC_007779	1634834	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	1634835	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	1634838	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	1635442	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	338	.	NC_007779	1635445	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	1635446	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	340	.	NC_007779	1635447	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	1635450	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	342	.	NC_007779	1635453	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	343	.	NC_007779	1635455	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	1641155	0	T	.	bias_e_value=3923510	bias_p_value=0.844431	fisher_strand_p_value=1	frequency=1.309204e-02	genotype_quality=903.1	ks_quality_p_value=0.496923	log10_base_likelihood=-8.25839	log10_qual_likelihood_position_model=1.55842	log10_strand_likelihood_position_model=0.398146	new_cov=2/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=3.10951e-08	ref_cov=120/106	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/107
RA	345	.	NC_007779	1646737	0	T	A	bias_e_value=763.71	bias_p_value=0.000164368	fisher_strand_p_value=1.3455e-05	frequency=5.285645e-02	genotype_quality=872.1	ks_quality_p_value=1	log10_base_likelihood=-11.5538	log10_qual_likelihood_position_model=20.5555	log10_strand_likelihood_position_model=4.87112	new_cov=0/15	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=130/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=131/124
RA	346	.	NC_007779	1646748	0	A	C	bias_e_value=4.41634e-07	bias_p_value=9.505e-14	fisher_strand_p_value=2.75299e-15	frequency=9.772205e-02	genotype_quality=709.0	ks_quality_p_value=1	log10_base_likelihood=-20.5499	log10_qual_likelihood_position_model=35.018	log10_strand_likelihood_position_model=14.5602	new_cov=0/40	polymorphism_quality=15.3	quality=15.3	quality_position_model=Inf	ref_cov=120/72	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/113
RA	347	.	NC_007779	1651009	0	T	G	bias_e_value=6.5978e-09	bias_p_value=1.42e-15	fisher_strand_p_value=3.6553e-17	frequency=1.097293e-01	genotype_quality=444.0	ks_quality_p_value=1	log10_base_likelihood=-14.2713	log10_qual_likelihood_position_model=21.8814	log10_strand_likelihood_position_model=16.4371	new_cov=20/0	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=9/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=29/104
RA	348	.	NC_007779	1669599	0	.	A	bias_e_value=4646330	bias_p_value=1	error=polymorphic_without_reference_base	fisher_strand_p_value=1	frequency=8.885384e-03	genotype_quality=1096.9	ks_quality_p_value=0.99992	log10_base_likelihood=-6.60972	log10_qual_likelihood_position_model=3.12265	log10_strand_likelihood_position_model=0.299173	new_cov=1/1	polymorphism_quality=1.1	quality=1.1	quality_position_model=5.53045e-05	ref_cov=110/113	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=111/114
RA	349	.	NC_007779	1671093	0	G	T	bias_e_value=109.039	bias_p_value=2.34678e-05	fisher_strand_p_value=1.63862e-06	frequency=4.835844e-02	genotype_quality=883.5	ks_quality_p_value=1	log10_base_likelihood=-10.7415	log10_qual_likelihood_position_model=17.0467	log10_strand_likelihood_position_model=5.78552	new_cov=0/18	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=133/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/131
RA	350	.	NC_007779	1677110	0	G	T	bias_e_value=0.114916	bias_p_value=2.47326e-08	fisher_strand_p_value=1.72733e-09	frequency=8.463287e-02	genotype_quality=749.7	ks_quality_p_value=0.663281	log10_base_likelihood=-12.1742	log10_qual_likelihood_position_model=30.2459	log10_strand_likelihood_position_model=8.84783	new_cov=0/28	polymorphism_quality=6.8	quality=6.8	quality_position_model=Inf	ref_cov=121/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/127
RA	351	.	NC_007779	1681026	0	A	C	bias_e_value=2.30336e-05	bias_p_value=4.95737e-12	fisher_strand_p_value=1.62824e-13	frequency=6.140280e-02	genotype_quality=662.0	ks_quality_p_value=1	log10_base_likelihood=-5.7373	log10_qual_likelihood_position_model=25.1384	log10_strand_likelihood_position_model=12.7883	new_cov=0/35	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=119/73	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=119/108
RA	352	.	NC_007779	1681402	0	T	G	bias_e_value=6.13017e-07	bias_p_value=1.31936e-13	fisher_strand_p_value=3.85908e-15	frequency=8.496523e-02	genotype_quality=604.3	ks_quality_p_value=1	log10_base_likelihood=-14.69	log10_qual_likelihood_position_model=27.6227	log10_strand_likelihood_position_model=14.4135	new_cov=26/0	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=36/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=62/127
RA	353	.	NC_007779	1686463	0	A	C	bias_e_value=2.38527e-07	bias_p_value=5.13366e-14	fisher_strand_p_value=1.46007e-15	frequency=9.456825e-02	genotype_quality=539.5	ks_quality_p_value=1	log10_base_likelihood=-8.84449	log10_qual_likelihood_position_model=23.7948	log10_strand_likelihood_position_model=14.8356	new_cov=0/35	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=104/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/81
RA	354	.	NC_007779	1693217	0	C	A	bias_e_value=7301.41	bias_p_value=0.00157143	fisher_strand_p_value=0.000161562	frequency=3.564358e-02	genotype_quality=841.5	ks_quality_p_value=0.999529	log10_base_likelihood=-5.58439	log10_qual_likelihood_position_model=11.059	log10_strand_likelihood_position_model=3.81943	new_cov=14/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=123/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/114
RA	355	.	NC_007779	1703335	0	G	C	bias_e_value=6.48647e-06	bias_p_value=1.39604e-12	fisher_strand_p_value=4.40472e-14	frequency=1.130028e-01	genotype_quality=501.6	ks_quality_p_value=0.998071	log10_base_likelihood=-23.4797	log10_qual_likelihood_position_model=17.915	log10_strand_likelihood_position_model=13.3561	new_cov=16/0	polymorphism_quality=18.2	quality=18.2	quality_position_model=Inf	ref_cov=11/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=27/110
RA	356	.	NC_007779	1710558	0	C	G	bias_e_value=45278.8	bias_p_value=0.00974506	fisher_strand_p_value=0.00139945	frequency=4.152107e-02	genotype_quality=776.1	ks_quality_p_value=0.908116	log10_base_likelihood=-9.33989	log10_qual_likelihood_position_model=15.5112	log10_strand_likelihood_position_model=3.16191	new_cov=1/11	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=125/90	reject=POLYMORPHISM_STRAND	tot_cov=126/101
RA	357	.	NC_007779	1712902	0	A	.	bias_e_value=4644380	bias_p_value=0.999581	fisher_strand_p_value=1	frequency=1.223469e-02	genotype_quality=978.3	ks_quality_p_value=0.971177	log10_base_likelihood=-7.94791	log10_qual_likelihood_position_model=1.36152	log10_strand_likelihood_position_model=0.359322	new_cov=2/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=3.71436e-08	ref_cov=147/95	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=149/96
RA	358	.	NC_007779	1713510	0	A	C	bias_e_value=1.31533e-12	bias_p_value=2.83091e-19	fisher_strand_p_value=5.95094e-21	frequency=1.347685e-01	genotype_quality=672.3	ks_quality_p_value=1	log10_base_likelihood=-16.3378	log10_qual_likelihood_position_model=45.3667	log10_strand_likelihood_position_model=20.2254	new_cov=0/49	polymorphism_quality=11.0	quality=11.0	quality_position_model=Inf	ref_cov=129/58	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/107
RA	359	.	NC_007779	1716031	1	.	T	bias_e_value=596574	bias_p_value=0.128397	fisher_strand_p_value=0.608831	frequency=1.470566e-02	genotype_quality=963.4	ks_quality_p_value=0.0461191	log10_base_likelihood=-13.0142	log10_qual_likelihood_position_model=2.49111	log10_strand_likelihood_position_model=0.442053	new_cov=2/1	polymorphism_quality=7.6	quality=7.6	quality_position_model=4.13445e-12	ref_cov=96/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/106
RA	360	.	NC_007779	1732512	0	T	G	bias_e_value=0.00735939	bias_p_value=1.58391e-09	fisher_strand_p_value=6.47541e-11	frequency=4.741955e-02	genotype_quality=548.9	ks_quality_p_value=1	log10_base_likelihood=-5.98067	log10_qual_likelihood_position_model=20.6328	log10_strand_likelihood_position_model=10.1887	new_cov=26/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=56/101	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=82/101
RA	361	.	NC_007779	1745011	0	A	.	bias_e_value=1507190	bias_p_value=0.324382	fisher_strand_p_value=0.108829	frequency=1.122856e-02	genotype_quality=1071.2	ks_quality_p_value=0.895551	log10_base_likelihood=-8.24314	log10_qual_likelihood_position_model=2.17196	log10_strand_likelihood_position_model=0.963255	new_cov=3/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=5.36082e-07	ref_cov=125/139	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/139
RA	362	.	NC_007779	1752900	0	A	C	bias_e_value=12.2125	bias_p_value=2.62842e-06	fisher_strand_p_value=1.57747e-07	frequency=2.815151e-02	genotype_quality=853.2	ks_quality_p_value=1	log10_base_likelihood=-7.62932	log10_qual_likelihood_position_model=25.9243	log10_strand_likelihood_position_model=6.80204	new_cov=0/19	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=147/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=147/124
RA	363	.	NC_007779	1763744	0	C	A	bias_e_value=6027.09	bias_p_value=0.00129717	fisher_strand_p_value=0.00013044	frequency=4.128551e-02	genotype_quality=771.1	ks_quality_p_value=1	log10_base_likelihood=-8.11616	log10_qual_likelihood_position_model=10.0544	log10_strand_likelihood_position_model=3.93154	new_cov=14/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=118/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/114
RA	364	.	NC_007779	1784132	0	G	T	bias_e_value=97073	bias_p_value=0.0208924	fisher_strand_p_value=0.00308022	frequency=2.937222e-02	genotype_quality=936.5	ks_quality_p_value=1	log10_base_likelihood=-6.70389	log10_qual_likelihood_position_model=13.0894	log10_strand_likelihood_position_model=2.67842	new_cov=0/11	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=118/151	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=118/162
RA	365	.	NC_007779	1784304	0	A	C	bias_e_value=923.971	bias_p_value=0.00019886	fisher_strand_p_value=1.65599e-05	frequency=4.733324e-02	genotype_quality=659.2	ks_quality_p_value=1	log10_base_likelihood=-5.65887	log10_qual_likelihood_position_model=17.1175	log10_strand_likelihood_position_model=5.08197	new_cov=0/16	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=106/90	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/106
RA	366	.	NC_007779	1790245	0	A	C	bias_e_value=5.19529e-06	bias_p_value=1.11815e-12	fisher_strand_p_value=3.4959e-14	frequency=8.821964e-02	genotype_quality=728.2	ks_quality_p_value=1	log10_base_likelihood=-8.42328	log10_qual_likelihood_position_model=28.328	log10_strand_likelihood_position_model=13.4564	new_cov=0/30	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=139/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=139/92
RA	367	.	NC_007779	1801443	0	A	C	bias_e_value=9.28368e-08	bias_p_value=1.99807e-14	fisher_strand_p_value=5.53004e-16	frequency=1.109505e-01	genotype_quality=631.1	ks_quality_p_value=1	log10_base_likelihood=-12.1013	log10_qual_likelihood_position_model=33.0926	log10_strand_likelihood_position_model=15.2573	new_cov=0/40	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=113/61	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/101
RA	368	.	NC_007779	1801456	0	C	G	bias_e_value=3392.1	bias_p_value=0.000730059	fisher_strand_p_value=6.99845e-05	frequency=4.926777e-02	genotype_quality=751.8	ks_quality_p_value=0.985846	log10_base_likelihood=-6.48201	log10_qual_likelihood_position_model=14.4398	log10_strand_likelihood_position_model=4.18714	new_cov=0/15	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=109/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=109/128
RA	369	.	NC_007779	1820099	0	A	C	bias_e_value=3.12612e-09	bias_p_value=6.72814e-16	fisher_strand_p_value=1.69842e-17	frequency=1.631899e-01	genotype_quality=541.3	ks_quality_p_value=1	log10_base_likelihood=-32.6992	log10_qual_likelihood_position_model=29.3332	log10_strand_likelihood_position_model=16.77	new_cov=0/38	polymorphism_quality=27.5	quality=27.5	quality_position_model=Inf	ref_cov=115/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/85
RA	370	.	NC_007779	1823574	0	A	.	bias_e_value=1704880	bias_p_value=0.36693	fisher_strand_p_value=0.121894	frequency=1.658916e-02	genotype_quality=976.4	ks_quality_p_value=0.955634	log10_base_likelihood=-11.4263	log10_qual_likelihood_position_model=1.27925	log10_strand_likelihood_position_model=1.20781	new_cov=0/4	polymorphism_quality=6.0	quality=6.0	quality_position_model=6.07068e-11	ref_cov=120/117	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=120/121
RA	371	.	NC_007779	1826775	0	G	A	bias_e_value=359.83	bias_p_value=7.74438e-05	fisher_strand_p_value=5.94191e-06	frequency=5.389547e-02	genotype_quality=755.8	ks_quality_p_value=1	log10_base_likelihood=-7.94391	log10_qual_likelihood_position_model=18.0245	log10_strand_likelihood_position_model=5.22607	new_cov=0/14	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=119/80	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=119/94
RA	372	.	NC_007779	1837206	0	G	T	bias_e_value=0.747307	bias_p_value=1.60838e-07	fisher_strand_p_value=8.3442e-09	frequency=7.264709e-02	genotype_quality=561.5	ks_quality_p_value=0.982468	log10_base_likelihood=-13.7758	log10_qual_likelihood_position_model=16.0186	log10_strand_likelihood_position_model=8.07862	new_cov=13/0	polymorphism_quality=8.4	quality=8.4	quality_position_model=Inf	ref_cov=30/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=43/117
RA	373	.	NC_007779	1844073	0	G	A	frequency=1	genotype_quality=918.2	new_cov=109/120	quality=918.2	ref_cov=0/0	tot_cov=109/120
RA	374	.	NC_007779	1844628	0	A	G	bias_e_value=0.0868675	bias_p_value=1.86959e-08	fisher_strand_p_value=8.55245e-10	frequency=5.294275e-02	genotype_quality=514.5	ks_quality_p_value=0.999075	log10_base_likelihood=-11.5105	log10_qual_likelihood_position_model=13.1527	log10_strand_likelihood_position_model=9.06791	new_cov=9/0	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=9/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=18/126
RA	375	.	NC_007779	1846634	0	A	.	bias_e_value=4214660	bias_p_value=0.907093	fisher_strand_p_value=0.610859	frequency=1.281071e-02	genotype_quality=950.5	ks_quality_p_value=0.984143	log10_base_likelihood=-8.0153	log10_qual_likelihood_position_model=3.68542	log10_strand_likelihood_position_model=0.439857	new_cov=2/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.00361e-05	ref_cov=111/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=113/121
RA	376	.	NC_007779	1864106	0	T	.	bias_e_value=1146170	bias_p_value=0.246682	fisher_strand_p_value=1	frequency=1.228523e-02	genotype_quality=983.8	ks_quality_p_value=0.0664744	log10_base_likelihood=-8.06174	log10_qual_likelihood_position_model=1.79225	log10_strand_likelihood_position_model=0.389942	new_cov=1/2	polymorphism_quality=2.6	quality=2.6	quality_position_model=8.49395e-08	ref_cov=110/131	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=111/133
RA	377	.	NC_007779	1872207	0	A	G	bias_e_value=3517140	bias_p_value=0.756971	fisher_strand_p_value=0.607886	frequency=1.172161e-02	genotype_quality=1006.2	ks_quality_p_value=0.641121	log10_base_likelihood=-5.96812	log10_qual_likelihood_position_model=2.36197	log10_strand_likelihood_position_model=0.444376	new_cov=2/1	polymorphism_quality=0.4	quality=0.4	quality_position_model=5.895e-05	ref_cov=120/132	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=122/133
RA	378	.	NC_007779	1879404	0	A	C	bias_e_value=7.13539e-13	bias_p_value=1.5357e-19	fisher_strand_p_value=3.18641e-21	frequency=1.169329e-01	genotype_quality=558.1	ks_quality_p_value=1	log10_base_likelihood=-24.429	log10_qual_likelihood_position_model=26.488	log10_strand_likelihood_position_model=20.4967	new_cov=0/25	polymorphism_quality=19.2	quality=19.2	quality_position_model=Inf	ref_cov=133/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/37
RA	379	.	NC_007779	1896056	0	A	.	bias_e_value=4108570	bias_p_value=0.884261	fisher_strand_p_value=0.635563	frequency=1.531696e-02	genotype_quality=1056.0	ks_quality_p_value=0.879924	log10_base_likelihood=-11.2747	log10_qual_likelihood_position_model=2.28625	log10_strand_likelihood_position_model=0.47518	new_cov=2/2	polymorphism_quality=5.9	quality=5.9	quality_position_model=1.65704e-10	ref_cov=97/160	reject=INDEL_HOMOPOLYMER	tot_cov=99/162
RA	380	.	NC_007779	1906475	1	.	C	bias_e_value=1499860	bias_p_value=0.322805	fisher_strand_p_value=0.181185	frequency=8.130074e-03	genotype_quality=1181.5	ks_quality_p_value=0.534184	log10_base_likelihood=-8.49154	log10_qual_likelihood_position_model=1.27604	log10_strand_likelihood_position_model=0.741879	new_cov=2/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=2.06725e-08	ref_cov=103/141	reject=POLYMORPHISM_STRAND	tot_cov=105/141
RA	381	.	NC_007779	1906477	1	.	G	bias_e_value=260423	bias_p_value=0.0560492	fisher_strand_p_value=0.00999946	frequency=2.293396e-02	genotype_quality=1007.8	ks_quality_p_value=1	log10_base_likelihood=-18.4683	log10_qual_likelihood_position_model=7.14588	log10_strand_likelihood_position_model=2.00002	new_cov=5/0	polymorphism_quality=13.2	quality=13.2	quality_position_model=2.4624e-11	ref_cov=83/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=88/130
RA	382	.	NC_007779	1906488	0	G	T	bias_e_value=0.375623	bias_p_value=8.08429e-08	fisher_strand_p_value=3.97389e-09	frequency=8.616877e-02	genotype_quality=716.0	ks_quality_p_value=1	log10_base_likelihood=-15.0752	log10_qual_likelihood_position_model=17.5945	log10_strand_likelihood_position_model=8.40078	new_cov=21/0	polymorphism_quality=9.7	quality=9.7	quality_position_model=Inf	ref_cov=70/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=91/123
RA	383	.	NC_007779	1906502	0	A	T	bias_e_value=2890.4	bias_p_value=0.000622083	fisher_strand_p_value=5.78246e-05	frequency=3.895664e-02	genotype_quality=742.0	ks_quality_p_value=1	log10_base_likelihood=-8.03102	log10_qual_likelihood_position_model=13.4287	log10_strand_likelihood_position_model=4.23789	new_cov=9/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=62/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=71/131
RA	384	.	NC_007779	1913464	0	T	G	bias_e_value=6.98033e-06	bias_p_value=1.50233e-12	fisher_strand_p_value=4.74225e-14	frequency=1.121235e-01	genotype_quality=552.5	ks_quality_p_value=1	log10_base_likelihood=-10.4964	log10_qual_likelihood_position_model=28.183	log10_strand_likelihood_position_model=13.5889	new_cov=51/0	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=83/91	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/91
RA	385	.	NC_007779	1918872	0	T	A	frequency=1	genotype_quality=852.5	new_cov=127/92	quality=852.5	ref_cov=0/0	tot_cov=127/92
RA	386	.	NC_007779	1938238	1	.	A	bias_e_value=4563000	bias_p_value=0.982065	fisher_strand_p_value=1	frequency=7.662773e-03	genotype_quality=1283.7	ks_quality_p_value=0.816684	log10_base_likelihood=-8.30861	log10_qual_likelihood_position_model=0.948975	log10_strand_likelihood_position_model=0.302749	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=5.18137e-09	ref_cov=118/141	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/142
RA	387	.	NC_007779	1938749	0	A	.	bias_e_value=4503040	bias_p_value=0.96916	fisher_strand_p_value=1	frequency=1.914310e-02	genotype_quality=1046.8	ks_quality_p_value=0.762155	log10_base_likelihood=-13.8471	log10_qual_likelihood_position_model=3.88242	log10_strand_likelihood_position_model=0.485157	new_cov=2/3	polymorphism_quality=8.5	quality=8.5	quality_position_model=1.7012e-11	ref_cov=123/133	reject=INDEL_HOMOPOLYMER	tot_cov=125/136
RA	388	.	NC_007779	1949857	0	A	C	bias_e_value=0.00224011	bias_p_value=4.82124e-10	fisher_strand_p_value=1.87602e-11	frequency=7.184505e-02	genotype_quality=819.5	ks_quality_p_value=1	log10_base_likelihood=-11.7188	log10_qual_likelihood_position_model=30.2178	log10_strand_likelihood_position_model=10.7268	new_cov=0/26	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=146/79	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/105
RA	389	.	NC_007779	1956118	0	C	A	bias_e_value=0.0128191	bias_p_value=2.75897e-09	fisher_strand_p_value=1.15527e-10	frequency=9.520340e-02	genotype_quality=452.9	ks_quality_p_value=1	log10_base_likelihood=-28.9806	log10_qual_likelihood_position_model=11.4451	log10_strand_likelihood_position_model=9.93732	new_cov=0/12	polymorphism_quality=23.8	quality=23.8	quality_position_model=1.43847e-09	ref_cov=98/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/23
RA	390	.	NC_007779	1971508	0	A	C	bias_e_value=3.06652e-10	bias_p_value=6.59988e-17	fisher_strand_p_value=1.57161e-18	frequency=1.231532e-01	genotype_quality=502.2	ks_quality_p_value=1	log10_base_likelihood=-42.9658	log10_qual_likelihood_position_model=15.6073	log10_strand_likelihood_position_model=17.8037	new_cov=0/20	polymorphism_quality=37.8	quality=37.8	quality_position_model=1.42485e-11	ref_cov=125/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/29
RA	391	.	NC_007779	1973476	0	G	A	frequency=1	genotype_quality=811.0	new_cov=103/102	quality=811.0	ref_cov=0/0	tot_cov=103/103
RA	392	.	NC_007779	1978922	0	A	.	bias_e_value=4047340	bias_p_value=0.871083	fisher_strand_p_value=0.628305	frequency=1.672745e-02	genotype_quality=945.8	ks_quality_p_value=0.85519	log10_base_likelihood=-11.2744	log10_qual_likelihood_position_model=1.51511	log10_strand_likelihood_position_model=0.528078	new_cov=3/1	polymorphism_quality=5.9	quality=5.9	quality_position_model=3.05204e-11	ref_cov=127/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/108
RA	393	.	NC_007779	1980208	0	A	G	bias_e_value=4512770	bias_p_value=0.971255	fisher_strand_p_value=1	frequency=1.721764e-02	genotype_quality=649.5	ks_quality_p_value=0.770017	log10_base_likelihood=-6.86239	log10_qual_likelihood_position_model=1.72198	log10_strand_likelihood_position_model=0.362335	new_cov=3/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=1.18173e-06	ref_cov=129/42	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=132/42
RA	394	.	NC_007779	1993894	0	A	C	bias_e_value=0.00635084	bias_p_value=1.36685e-09	fisher_strand_p_value=5.55313e-11	frequency=8.892059e-02	genotype_quality=710.7	ks_quality_p_value=1	log10_base_likelihood=-16.9354	log10_qual_likelihood_position_model=29.2786	log10_strand_likelihood_position_model=10.2555	new_cov=0/29	polymorphism_quality=11.6	quality=11.6	quality_position_model=Inf	ref_cov=115/77	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/106
RA	395	.	NC_007779	2004048	0	G	A	bias_e_value=13805.1	bias_p_value=0.00297118	fisher_strand_p_value=0.000329472	frequency=6.808281e-02	genotype_quality=605.4	ks_quality_p_value=1	log10_base_likelihood=-10.3591	log10_qual_likelihood_position_model=20.615	log10_strand_likelihood_position_model=3.67526	new_cov=1/13	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=99/73	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/86
RA	396	.	NC_007779	2004055	0	A	C	bias_e_value=5.56325e-20	bias_p_value=1.19734e-26	fisher_strand_p_value=1.84606e-28	frequency=3.201604e-01	genotype_quality=374.2	ks_quality_p_value=1	log10_base_likelihood=-75.0153	log10_qual_likelihood_position_model=41.0677	log10_strand_likelihood_position_model=27.7501	new_cov=0/75	polymorphism_quality=70.0	quality=70.0	quality_position_model=3.9847e-08	ref_cov=93/36	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=93/111
RA	397	.	NC_007779	2005401	0	C	T	frequency=1	genotype_quality=1119.3	new_cov=146/125	quality=1119.3	ref_cov=0/0	tot_cov=146/125
RA	398	.	NC_007779	2014008	0	T	.	bias_e_value=4250130	bias_p_value=0.914729	fisher_strand_p_value=0.622785	frequency=1.561451e-02	genotype_quality=1029.5	ks_quality_p_value=0.990006	log10_base_likelihood=-11.0642	log10_qual_likelihood_position_model=2.19227	log10_strand_likelihood_position_model=0.575464	new_cov=3/1	polymorphism_quality=5.6	quality=5.6	quality_position_model=2.76369e-10	ref_cov=129/123	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/124
RA	399	.	NC_007779	2023811	0	C	A	bias_e_value=154.302	bias_p_value=3.32094e-05	fisher_strand_p_value=2.38094e-06	frequency=7.185888e-02	genotype_quality=739.2	ks_quality_p_value=1	log10_base_likelihood=-11.9913	log10_qual_likelihood_position_model=23.1434	log10_strand_likelihood_position_model=5.70071	new_cov=21/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=109/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/104
RA	400	.	NC_007779	2027367	0	T	C	bias_e_value=1470.7	bias_p_value=0.00031653	fisher_strand_p_value=2.75232e-05	frequency=4.765511e-02	genotype_quality=881.2	ks_quality_p_value=1	log10_base_likelihood=-9.25471	log10_qual_likelihood_position_model=19.8128	log10_strand_likelihood_position_model=4.61859	new_cov=0/16	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=124/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/139
RA	401	.	NC_007779	2060108	1	.	A	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=7.965088e-03	genotype_quality=1243.9	ks_quality_p_value=1	log10_base_likelihood=-6.49973	log10_qual_likelihood_position_model=4.01946	log10_strand_likelihood_position_model=0.307824	new_cov=1/1	polymorphism_quality=1.0	quality=1.0	quality_position_model=0.000678727	ref_cov=107/142	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=108/143
RA	402	.	NC_007779	2095582	0	G	T	bias_e_value=1.68986	bias_p_value=3.63697e-07	fisher_strand_p_value=1.93883e-08	frequency=6.465769e-02	genotype_quality=928.8	ks_quality_p_value=1	log10_base_likelihood=-12.8336	log10_qual_likelihood_position_model=18.3172	log10_strand_likelihood_position_model=8.01349	new_cov=0/25	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=146/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/146
RA	403	.	NC_007779	2106206	1	.	T	bias_e_value=4317560	bias_p_value=0.929241	fisher_strand_p_value=1	frequency=9.849548e-03	genotype_quality=992.5	ks_quality_p_value=0.648222	log10_base_likelihood=-6.96285	log10_qual_likelihood_position_model=2.76775	log10_strand_likelihood_position_model=0.305523	new_cov=1/1	polymorphism_quality=1.4	quality=1.4	quality_position_model=1.0047e-05	ref_cov=113/88	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/89
RA	404	.	NC_007779	2107010	1	.	A	bias_e_value=4529960	bias_p_value=0.974955	fisher_strand_p_value=1	frequency=1.293087e-02	genotype_quality=1098.1	ks_quality_p_value=0.784706	log10_base_likelihood=-13.0443	log10_qual_likelihood_position_model=2.05046	log10_strand_likelihood_position_model=0.38307	new_cov=2/1	polymorphism_quality=7.7	quality=7.7	quality_position_model=1.19121e-12	ref_cov=127/102	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/103
RA	405	.	NC_007779	2141731	0	A	C	bias_e_value=8.36278	bias_p_value=1.79987e-06	fisher_strand_p_value=1.05472e-07	frequency=4.404926e-02	genotype_quality=670.3	ks_quality_p_value=1	log10_base_likelihood=-10.9091	log10_qual_likelihood_position_model=24.2077	log10_strand_likelihood_position_model=6.97686	new_cov=0/20	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=110/79	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=110/99
RA	406	.	NC_007779	2170094	0	C	A	frequency=1	genotype_quality=966.4	new_cov=100/135	quality=966.4	ref_cov=0/0	tot_cov=100/135
RA	407	.	NC_007779	2174678	0	C	G	bias_e_value=2.72737e-11	bias_p_value=5.86995e-18	fisher_strand_p_value=1.31993e-19	frequency=1.656280e-01	genotype_quality=538.0	ks_quality_p_value=1	log10_base_likelihood=-37.206	log10_qual_likelihood_position_model=26.6383	log10_strand_likelihood_position_model=18.8794	new_cov=0/27	polymorphism_quality=32.1	quality=32.1	quality_position_model=Inf	ref_cov=115/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/43
RA	408	.	NC_007779	2178210	0	A	C	bias_e_value=3422080	bias_p_value=0.736513	fisher_strand_p_value=0.372048	frequency=1.878738e-02	genotype_quality=1071.9	ks_quality_p_value=0.990824	log10_base_likelihood=-14.7431	log10_qual_likelihood_position_model=3.34634	log10_strand_likelihood_position_model=0.761336	new_cov=1/4	polymorphism_quality=9.4	quality=9.4	quality_position_model=1.12421e-12	ref_cov=127/134	reject=POLYMORPHISM_STRAND	tot_cov=128/138
RA	409	.	NC_007779	2199432	0	G	C	bias_e_value=6.91834e-18	bias_p_value=1.48899e-24	fisher_strand_p_value=2.48341e-26	frequency=1.831889e-01	genotype_quality=519.6	ks_quality_p_value=1	log10_base_likelihood=-63.4229	log10_qual_likelihood_position_model=27.505	log10_strand_likelihood_position_model=25.605	new_cov=0/30	polymorphism_quality=58.4	quality=58.4	quality_position_model=2.39745e-12	ref_cov=125/7	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/37
RA	410	.	NC_007779	2211166	0	T	C	bias_e_value=827299	bias_p_value=0.178054	fisher_strand_p_value=0.266941	frequency=1.504517e-02	genotype_quality=773.5	ks_quality_p_value=0.16079	log10_base_likelihood=-6.60885	log10_qual_likelihood_position_model=2.84513	log10_strand_likelihood_position_model=0.707924	new_cov=0/3	polymorphism_quality=1.1	quality=1.1	quality_position_model=7.63995e-05	ref_cov=83/113	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=83/116
RA	411	.	NC_007779	2211749	0	G	C	bias_e_value=0.361694	bias_p_value=7.78451e-08	fisher_strand_p_value=3.81907e-09	frequency=6.709003e-02	genotype_quality=648.3	ks_quality_p_value=1	log10_base_likelihood=-13.4668	log10_qual_likelihood_position_model=15.1968	log10_strand_likelihood_position_model=8.41804	new_cov=13/0	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=31/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=44/130
RA	412	.	NC_007779	2213136	0	G	T	bias_e_value=3.60397e-19	bias_p_value=7.7566e-26	fisher_strand_p_value=1.36429e-27	frequency=2.512321e-01	genotype_quality=470.3	ks_quality_p_value=0.903011	log10_base_likelihood=-105.563	log10_qual_likelihood_position_model=31.7077	log10_strand_likelihood_position_model=26.8651	new_cov=42/0	polymorphism_quality=100.6	quality=100.6	quality_position_model=2.39845e-49	ref_cov=14/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=56/110
RA	413	.	NC_007779	2213138	0	C	G	bias_e_value=0.0265702	bias_p_value=5.71852e-09	fisher_strand_p_value=2.47705e-10	frequency=8.744240e-02	genotype_quality=497.8	ks_quality_p_value=0.99852	log10_base_likelihood=-7.73381	log10_qual_likelihood_position_model=12.9085	log10_strand_likelihood_position_model=9.60607	new_cov=15/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=25/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=42/110
RA	414	.	NC_007779	2222886	0	T	G	bias_e_value=16223.9	bias_p_value=0.00349177	fisher_strand_p_value=0.000399057	frequency=1.997471e-02	genotype_quality=586.1	ks_quality_p_value=0.990252	log10_base_likelihood=-6.99209	log10_qual_likelihood_position_model=5.26427	log10_strand_likelihood_position_model=3.39897	new_cov=3/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=9/138	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=12/138
RA	415	.	NC_007779	2225700	0	T	G	bias_e_value=56.1918	bias_p_value=1.20938e-05	fisher_strand_p_value=8.07862e-07	frequency=3.324890e-02	genotype_quality=559.4	ks_quality_p_value=0.995814	log10_base_likelihood=-9.20573	log10_qual_likelihood_position_model=7.13406	log10_strand_likelihood_position_model=6.09266	new_cov=5/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=6/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=11/138
RA	416	.	NC_007779	2226024	0	C	A	bias_e_value=40.5278	bias_p_value=8.72255e-06	fisher_strand_p_value=5.6703e-07	frequency=7.543421e-02	genotype_quality=673.3	ks_quality_p_value=1	log10_base_likelihood=-14.3106	log10_qual_likelihood_position_model=14.3464	log10_strand_likelihood_position_model=6.29026	new_cov=21/0	polymorphism_quality=9.0	quality=9.0	quality_position_model=Inf	ref_cov=98/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/109
RA	417	.	NC_007779	2226744	0	T	G	bias_e_value=1.30417e-08	bias_p_value=2.80688e-15	fisher_strand_p_value=7.35784e-17	frequency=1.439180e-01	genotype_quality=676.2	ks_quality_p_value=1	log10_base_likelihood=-23.2376	log10_qual_likelihood_position_model=35.4747	log10_strand_likelihood_position_model=16.1332	new_cov=43/0	polymorphism_quality=18.0	quality=18.0	quality_position_model=Inf	ref_cov=71/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/126
RA	418	.	NC_007779	2245262	0	G	C	bias_e_value=656.146	bias_p_value=0.000141218	fisher_strand_p_value=1.14057e-05	frequency=5.216122e-02	genotype_quality=513.6	ks_quality_p_value=1	log10_base_likelihood=-8.5765	log10_qual_likelihood_position_model=8.73391	log10_strand_likelihood_position_model=4.94288	new_cov=0/8	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=102/28	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/36
RA	419	.	NC_007779	2249963	0	T	G	bias_e_value=7.28817e-12	bias_p_value=1.56859e-18	fisher_strand_p_value=3.42328e-20	frequency=2.022228e-01	genotype_quality=516.8	ks_quality_p_value=1	log10_base_likelihood=-24.0285	log10_qual_likelihood_position_model=42.519	log10_strand_likelihood_position_model=19.5886	new_cov=55/0	polymorphism_quality=18.8	quality=18.8	quality_position_model=Inf	ref_cov=53/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=109/100
RA	420	.	NC_007779	2262756	0	A	C	bias_e_value=3312000	bias_p_value=0.71282	fisher_strand_p_value=0.664221	frequency=1.872349e-02	genotype_quality=1068.1	ks_quality_p_value=0.520351	log10_base_likelihood=-16.6113	log10_qual_likelihood_position_model=1.80896	log10_strand_likelihood_position_model=0.54345	new_cov=2/3	polymorphism_quality=11.3	quality=11.3	quality_position_model=2.3216e-16	ref_cov=142/120	tot_cov=144/123
RA	421	.	NC_007779	2264335	0	A	C	bias_e_value=0.0279973	bias_p_value=6.02568e-09	fisher_strand_p_value=2.61241e-10	frequency=5.723715e-02	genotype_quality=622.4	ks_quality_p_value=1	log10_base_likelihood=-6.79055	log10_qual_likelihood_position_model=21.4588	log10_strand_likelihood_position_model=9.58296	new_cov=0/23	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=112/58	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=112/81
RA	422	.	NC_007779	2264339	0	A	C	bias_e_value=0.160322	bias_p_value=3.4505e-08	fisher_strand_p_value=1.62469e-09	frequency=9.379721e-02	genotype_quality=642.1	ks_quality_p_value=1	log10_base_likelihood=-16.0466	log10_qual_likelihood_position_model=23.413	log10_strand_likelihood_position_model=8.78923	new_cov=0/24	polymorphism_quality=10.7	quality=10.7	quality_position_model=Inf	ref_cov=110/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=110/95
RA	423	.	NC_007779	2271592	0	G	T	bias_e_value=530.21	bias_p_value=0.000114114	fisher_strand_p_value=9.04727e-06	frequency=5.498838e-02	genotype_quality=742.7	ks_quality_p_value=1	log10_base_likelihood=-7.27817	log10_qual_likelihood_position_model=13.8591	log10_strand_likelihood_position_model=5.1591	new_cov=0/17	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=105/95	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/112
RA	424	.	NC_007779	2273261	1	.	T	bias_e_value=4643900	bias_p_value=0.999477	fisher_strand_p_value=1	frequency=7.066727e-03	genotype_quality=1392.8	ks_quality_p_value=0.967822	log10_base_likelihood=-7.61728	log10_qual_likelihood_position_model=2.83758	log10_strand_likelihood_position_model=0.299758	new_cov=1/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=2.41859e-06	ref_cov=144/137	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=145/138
RA	425	.	NC_007779	2278884	0	T	G	bias_e_value=0.000489089	bias_p_value=1.05264e-10	fisher_strand_p_value=3.85853e-12	frequency=6.104851e-02	genotype_quality=709.0	ks_quality_p_value=1	log10_base_likelihood=-6.35044	log10_qual_likelihood_position_model=30.9465	log10_strand_likelihood_position_model=11.4136	new_cov=29/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=71/126	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/126
RA	426	.	NC_007779	2287114	0	C	A	bias_e_value=48.0681	bias_p_value=1.03454e-05	fisher_strand_p_value=7.95831e-07	frequency=5.772591e-02	genotype_quality=776.7	ks_quality_p_value=0.855213	log10_base_likelihood=-11.5594	log10_qual_likelihood_position_model=22.5474	log10_strand_likelihood_position_model=6.09918	new_cov=0/16	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=134/87	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/103
RA	427	.	NC_007779	2290583	0	A	C	bias_e_value=0.00112245	bias_p_value=2.41578e-10	fisher_strand_p_value=9.1445e-12	frequency=8.314371e-02	genotype_quality=688.0	ks_quality_p_value=1	log10_base_likelihood=-8.67724	log10_qual_likelihood_position_model=24.3375	log10_strand_likelihood_position_model=11.0388	new_cov=0/26	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=126/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/89
RA	428	.	NC_007779	2306988	1	.	G	bias_e_value=1309280	bias_p_value=0.281788	fisher_strand_p_value=0.0872558	frequency=1.204777e-02	genotype_quality=1223.3	ks_quality_p_value=0.915617	log10_base_likelihood=-12.8271	log10_qual_likelihood_position_model=1.61143	log10_strand_likelihood_position_model=1.05921	new_cov=3/0	polymorphism_quality=7.4	quality=7.4	quality_position_model=3.46287e-12	ref_cov=108/138	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=111/138
RA	429	.	NC_007779	2307309	0	T	C	bias_e_value=1.04358e-08	bias_p_value=2.24604e-15	fisher_strand_p_value=5.85255e-17	frequency=1.032882e-01	genotype_quality=602.2	ks_quality_p_value=1	log10_base_likelihood=-22.0245	log10_qual_likelihood_position_model=21.1081	log10_strand_likelihood_position_model=16.2327	new_cov=0/22	polymorphism_quality=16.8	quality=16.8	quality_position_model=Inf	ref_cov=151/23	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/45
RA	430	.	NC_007779	2331120	0	T	G	bias_e_value=2.53917e-22	bias_p_value=5.46489e-29	fisher_strand_p_value=7.77038e-31	frequency=2.050867e-01	genotype_quality=621.3	ks_quality_p_value=1	log10_base_likelihood=-37.8582	log10_qual_likelihood_position_model=49.8573	log10_strand_likelihood_position_model=30.1096	new_cov=69/0	polymorphism_quality=32.7	quality=32.7	quality_position_model=Inf	ref_cov=47/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/136
RA	431	.	NC_007779	2332580	0	A	C	bias_e_value=2.24444e-26	bias_p_value=4.83057e-33	fisher_strand_p_value=6.05413e-35	frequency=1.792269e-01	genotype_quality=593.0	ks_quality_p_value=1	log10_base_likelihood=-21.8648	log10_qual_likelihood_position_model=45.1466	log10_strand_likelihood_position_model=34.2179	new_cov=0/69	polymorphism_quality=16.6	quality=16.6	quality_position_model=Inf	ref_cov=134/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/102
RA	432	.	NC_007779	2342393	0	A	C	bias_e_value=9.83975e-09	bias_p_value=2.11775e-15	fisher_strand_p_value=5.50959e-17	frequency=1.208167e-01	genotype_quality=577.2	ks_quality_p_value=1	log10_base_likelihood=-8.43443	log10_qual_likelihood_position_model=31.1934	log10_strand_likelihood_position_model=16.2589	new_cov=0/36	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=114/45	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/81
RA	433	.	NC_007779	2348480	0	G	T	bias_e_value=0.0589582	bias_p_value=1.26892e-08	fisher_strand_p_value=5.76258e-10	frequency=6.188965e-02	genotype_quality=852.1	ks_quality_p_value=0.988042	log10_base_likelihood=-13.5072	log10_qual_likelihood_position_model=22.0516	log10_strand_likelihood_position_model=9.23938	new_cov=0/18	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=152/58	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=152/76
RA	434	.	NC_007779	2354291	0	A	C	bias_e_value=5.20114e-14	bias_p_value=1.11941e-20	fisher_strand_p_value=2.20061e-22	frequency=2.073822e-01	genotype_quality=622.9	ks_quality_p_value=1	log10_base_likelihood=-46.3499	log10_qual_likelihood_position_model=41.3625	log10_strand_likelihood_position_model=21.6575	new_cov=0/56	polymorphism_quality=41.2	quality=41.2	quality_position_model=Inf	ref_cov=127/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/120
RA	435	.	NC_007779	2362369	0	C	A	bias_e_value=1079340	bias_p_value=0.2323	fisher_strand_p_value=0.0618443	frequency=4.861546e-02	genotype_quality=677.9	ks_quality_p_value=0.99034	log10_base_likelihood=-8.36552	log10_qual_likelihood_position_model=16.6104	log10_strand_likelihood_position_model=1.50186	new_cov=4/11	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=114/101	reject=SURROUNDING_HOMOPOLYMER	tot_cov=118/112
RA	436	.	NC_007779	2362564	0	C	A	bias_e_value=107232	bias_p_value=0.0230789	fisher_strand_p_value=0.00351647	frequency=3.109169e-02	genotype_quality=877.4	ks_quality_p_value=0.984587	log10_base_likelihood=-7.04113	log10_qual_likelihood_position_model=14.9077	log10_strand_likelihood_position_model=2.59602	new_cov=1/10	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=142/116	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=143/126
RA	437	.	NC_007779	2373239	0	A	C	bias_e_value=1.0621e-08	bias_p_value=2.28589e-15	fisher_strand_p_value=5.9592e-17	frequency=7.862663e-02	genotype_quality=595.3	ks_quality_p_value=1	log10_base_likelihood=-5.99168	log10_qual_likelihood_position_model=29.5968	log10_strand_likelihood_position_model=16.2248	new_cov=0/30	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=120/34	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/64
RA	438	.	NC_007779	2374936	0	T	G	bias_e_value=5.51289	bias_p_value=1.1865e-06	fisher_strand_p_value=6.77726e-08	frequency=4.160976e-02	genotype_quality=636.5	ks_quality_p_value=1	log10_base_likelihood=-6.86428	log10_qual_likelihood_position_model=17.63	log10_strand_likelihood_position_model=7.16895	new_cov=14/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=46/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=60/121
RA	439	.	NC_007779	2406075	0	C	T	frequency=1	genotype_quality=945.2	new_cov=127/110	quality=945.2	ref_cov=0/0	tot_cov=127/110
RA	440	.	NC_007779	2409404	0	A	C	bias_e_value=4.88847e-06	bias_p_value=1.05211e-12	fisher_strand_p_value=3.28299e-14	frequency=1.507730e-01	genotype_quality=520.9	ks_quality_p_value=1	log10_base_likelihood=-25.4474	log10_qual_likelihood_position_model=25.83	log10_strand_likelihood_position_model=13.4837	new_cov=0/33	polymorphism_quality=20.2	quality=20.2	quality_position_model=Inf	ref_cov=100/48	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/82
RA	441	.	NC_007779	2410289	1	.	A	bias_e_value=4644050	bias_p_value=0.999509	fisher_strand_p_value=1	frequency=8.438110e-03	genotype_quality=1119.6	ks_quality_p_value=0.968824	log10_base_likelihood=-7.60268	log10_qual_likelihood_position_model=3.3005	log10_strand_likelihood_position_model=0.299573	new_cov=1/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=7.64424e-06	ref_cov=114/121	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=115/122
RA	442	.	NC_007779	2410314	1	.	C	bias_e_value=1812420	bias_p_value=0.390075	fisher_strand_p_value=0.127486	frequency=1.537228e-02	genotype_quality=1174.1	ks_quality_p_value=1	log10_base_likelihood=-11.7267	log10_qual_likelihood_position_model=4.80127	log10_strand_likelihood_position_model=1.07158	new_cov=0/4	polymorphism_quality=6.3	quality=6.3	quality_position_model=9.03022e-08	ref_cov=119/137	reject=POLYMORPHISM_STRAND	tot_cov=119/141
RA	443	.	NC_007779	2410316	0	A	C	bias_e_value=2.15231e-08	bias_p_value=4.63227e-15	fisher_strand_p_value=1.23089e-16	frequency=1.377850e-01	genotype_quality=718.9	ks_quality_p_value=1	log10_base_likelihood=-47.0168	log10_qual_likelihood_position_model=32.5135	log10_strand_likelihood_position_model=15.9279	new_cov=0/52	polymorphism_quality=41.9	quality=41.9	quality_position_model=Inf	ref_cov=122/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=122/146
RA	444	.	NC_007779	2416102	0	G	A	frequency=1	genotype_quality=936.2	new_cov=123/111	quality=936.2	ref_cov=0/0	tot_cov=123/111
RA	445	.	NC_007779	2417605	0	C	A	bias_e_value=665.022	bias_p_value=0.000143128	fisher_strand_p_value=1.51489e-05	frequency=5.045748e-02	genotype_quality=775.1	ks_quality_p_value=0.763993	log10_base_likelihood=-7.77018	log10_qual_likelihood_position_model=24.4937	log10_strand_likelihood_position_model=5.06827	new_cov=20/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=126/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/108
RA	446	.	NC_007779	2418806	0	A	.	bias_e_value=2897870	bias_p_value=0.62369	fisher_strand_p_value=0.337071	frequency=1.508617e-02	genotype_quality=1073.3	ks_quality_p_value=0.801403	log10_base_likelihood=-11.305	log10_qual_likelihood_position_model=1.53053	log10_strand_likelihood_position_model=0.677384	new_cov=1/3	polymorphism_quality=5.9	quality=5.9	quality_position_model=4.18557e-11	ref_cov=142/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/122
RA	447	.	NC_007779	2420902	0	G	C	bias_e_value=10.3097	bias_p_value=2.2189e-06	fisher_strand_p_value=1.37504e-07	frequency=6.440401e-02	genotype_quality=645.5	ks_quality_p_value=0.958113	log10_base_likelihood=-9.43239	log10_qual_likelihood_position_model=17.289	log10_strand_likelihood_position_model=6.86168	new_cov=15/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=57/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=72/121
RA	448	.	NC_007779	2420905	0	A	C	bias_e_value=9531.13	bias_p_value=0.00205132	fisher_strand_p_value=0.00021745	frequency=3.323936e-02	genotype_quality=656.2	ks_quality_p_value=1	log10_base_likelihood=-6.93698	log10_qual_likelihood_position_model=14.8286	log10_strand_likelihood_position_model=3.66264	new_cov=9/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=73/121	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=82/121
RA	449	.	NC_007779	2425515	0	T	.	bias_e_value=2759400	bias_p_value=0.593888	fisher_strand_p_value=0.25027	frequency=1.269627e-02	genotype_quality=949.1	ks_quality_p_value=0.991201	log10_base_likelihood=-7.60643	log10_qual_likelihood_position_model=2.25532	log10_strand_likelihood_position_model=0.822493	new_cov=0/3	polymorphism_quality=2.1	quality=2.1	quality_position_model=2.15144e-06	ref_cov=110/123	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=110/126
RA	450	.	NC_007779	2426889	0	A	C	bias_e_value=433.651	bias_p_value=9.33318e-05	fisher_strand_p_value=7.2738e-06	frequency=3.805161e-02	genotype_quality=503.0	ks_quality_p_value=1	log10_base_likelihood=-9.7493	log10_qual_likelihood_position_model=6.53122	log10_strand_likelihood_position_model=5.13824	new_cov=0/5	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=115/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/14
RA	451	.	NC_007779	2441855	0	C	A	bias_e_value=511071	bias_p_value=0.109994	fisher_strand_p_value=0.0233286	frequency=2.284718e-02	genotype_quality=905.4	ks_quality_p_value=0.988554	log10_base_likelihood=-5.86833	log10_qual_likelihood_position_model=8.80124	log10_strand_likelihood_position_model=1.80617	new_cov=8/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=151/106	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=160/106
RA	452	.	NC_007779	2459733	1	.	T	bias_e_value=4581140	bias_p_value=0.98597	fisher_strand_p_value=1	frequency=8.230209e-03	genotype_quality=1183.7	ks_quality_p_value=0.837231	log10_base_likelihood=-8.38953	log10_qual_likelihood_position_model=0.827811	log10_strand_likelihood_position_model=0.30137	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=3.1999e-09	ref_cov=129/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/113
RA	453	.	NC_007779	2463736	0	A	.	bias_e_value=1842580	bias_p_value=0.396567	fisher_strand_p_value=1	frequency=1.344299e-02	genotype_quality=890.8	ks_quality_p_value=0.130657	log10_base_likelihood=-8.15914	log10_qual_likelihood_position_model=3.05678	log10_strand_likelihood_position_model=0.414519	new_cov=1/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.46751e-06	ref_cov=108/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=109/114
RA	454	.	NC_007779	2465370	0	C	A	bias_e_value=2.25816e-08	bias_p_value=4.8601e-15	fisher_strand_p_value=1.29312e-16	frequency=1.245356e-01	genotype_quality=539.7	ks_quality_p_value=1	log10_base_likelihood=-36.6532	log10_qual_likelihood_position_model=20.5254	log10_strand_likelihood_position_model=15.8884	new_cov=0/19	polymorphism_quality=31.5	quality=31.5	quality_position_model=0.151002	ref_cov=118/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/30
RA	455	.	NC_007779	2466047	0	G	A	bias_e_value=103.681	bias_p_value=2.23146e-05	fisher_strand_p_value=1.55223e-06	frequency=6.395102e-02	genotype_quality=807.4	ks_quality_p_value=1	log10_base_likelihood=-14.8737	log10_qual_likelihood_position_model=18.6573	log10_strand_likelihood_position_model=5.80904	new_cov=0/16	polymorphism_quality=9.5	quality=9.5	quality_position_model=Inf	ref_cov=122/85	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=122/101
RA	456	.	NC_007779	2468326	1	.	C	bias_e_value=2523810	bias_p_value=0.543183	fisher_strand_p_value=0.501776	frequency=8.368492e-03	genotype_quality=1126.5	ks_quality_p_value=0.425507	log10_base_likelihood=-8.23321	log10_qual_likelihood_position_model=1.56185	log10_strand_likelihood_position_model=0.530442	new_cov=0/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=4.55907e-08	ref_cov=109/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=109/130
RA	457	.	NC_007779	2468327	0	C	.	bias_e_value=582401	bias_p_value=0.125346	fisher_strand_p_value=0.181026	frequency=2.073956e-02	genotype_quality=1009.2	ks_quality_p_value=0.150413	log10_base_likelihood=-15.0734	log10_qual_likelihood_position_model=4.51804	log10_strand_likelihood_position_model=0.934083	new_cov=4/1	polymorphism_quality=9.7	quality=9.7	quality_position_model=1.21873e-11	ref_cov=106/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=110/131
RA	458	.	NC_007779	2517218	0	A	C	bias_e_value=5.81743e-20	bias_p_value=1.25205e-26	fisher_strand_p_value=1.93176e-28	frequency=1.592736e-01	genotype_quality=480.6	ks_quality_p_value=1	log10_base_likelihood=-26.5509	log10_qual_likelihood_position_model=36.6003	log10_strand_likelihood_position_model=27.714	new_cov=0/41	polymorphism_quality=21.3	quality=21.3	quality_position_model=Inf	ref_cov=117/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/54
RA	459	.	NC_007779	2519319	0	T	G	bias_e_value=0.288426	bias_p_value=6.2076e-08	fisher_strand_p_value=3.01029e-09	frequency=7.925558e-02	genotype_quality=691.7	ks_quality_p_value=1	log10_base_likelihood=-8.21853	log10_qual_likelihood_position_model=25.5701	log10_strand_likelihood_position_model=8.65	new_cov=27/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=90/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/113
RA	460	.	NC_007779	2522930	0	T	G	bias_e_value=12.5112	bias_p_value=2.69271e-06	fisher_strand_p_value=1.61855e-07	frequency=6.804943e-02	genotype_quality=709.8	ks_quality_p_value=1	log10_base_likelihood=-8.06223	log10_qual_likelihood_position_model=23.15	log10_strand_likelihood_position_model=6.82061	new_cov=25/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=112/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/109
RA	461	.	NC_007779	2536601	0	T	G	bias_e_value=9.6338e-09	bias_p_value=2.07342e-15	fisher_strand_p_value=5.39123e-17	frequency=1.465144e-01	genotype_quality=645.2	ks_quality_p_value=1	log10_base_likelihood=-28.3267	log10_qual_likelihood_position_model=31.3256	log10_strand_likelihood_position_model=16.2683	new_cov=36/0	polymorphism_quality=23.1	quality=23.1	quality_position_model=Inf	ref_cov=53/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=89/129
RA	462	.	NC_007779	2538628	0	C	T	frequency=1	genotype_quality=982.9	new_cov=117/126	quality=982.9	ref_cov=0/0	tot_cov=117/126
RA	463	.	NC_007779	2556426	0	G	T	bias_e_value=0.00454576	bias_p_value=9.78355e-10	fisher_strand_p_value=5.28023e-11	frequency=1.119790e-01	genotype_quality=766.9	ks_quality_p_value=0.742258	log10_base_likelihood=-28.8622	log10_qual_likelihood_position_model=27.7251	log10_strand_likelihood_position_model=10.4282	new_cov=0/32	polymorphism_quality=23.7	quality=23.7	quality_position_model=Inf	ref_cov=124/95	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/127
RA	464	.	NC_007779	2560655	0	A	C	bias_e_value=223720	bias_p_value=0.0481498	fisher_strand_p_value=0.0083409	frequency=2.111053e-02	genotype_quality=768.4	ks_quality_p_value=0.997108	log10_base_likelihood=-5.74062	log10_qual_likelihood_position_model=10.1059	log10_strand_likelihood_position_model=2.17573	new_cov=0/8	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=104/115	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=104/123
RA	465	.	NC_007779	2571888	0	T	.	bias_e_value=3782870	bias_p_value=0.814162	fisher_strand_p_value=0.603427	frequency=1.286411e-02	genotype_quality=859.3	ks_quality_p_value=0.755857	log10_base_likelihood=-7.86832	log10_qual_likelihood_position_model=1.66823	log10_strand_likelihood_position_model=0.45061	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.15804e-07	ref_cov=122/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/110
RA	466	.	NC_007779	2580120	0	T	G	bias_e_value=4.36513e-07	bias_p_value=9.39478e-14	fisher_strand_p_value=2.72012e-15	frequency=5.696392e-02	genotype_quality=662.9	ks_quality_p_value=1	log10_base_likelihood=-6.04557	log10_qual_likelihood_position_model=25.9621	log10_strand_likelihood_position_model=14.5654	new_cov=30/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=47/127	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=77/127
RA	467	.	NC_007779	2581900	0	G	T	bias_e_value=4641.71	bias_p_value=0.000999006	fisher_strand_p_value=9.76115e-05	frequency=3.483295e-02	genotype_quality=913.5	ks_quality_p_value=1	log10_base_likelihood=-5.90621	log10_qual_likelihood_position_model=13.4402	log10_strand_likelihood_position_model=4.13625	new_cov=0/14	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=130/126	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/141
RA	468	.	NC_007779	2595930	1	.	G	bias_e_value=2151640	bias_p_value=0.463083	fisher_strand_p_value=0.195761	frequency=1.020432e-02	genotype_quality=959.4	ks_quality_p_value=0.845088	log10_base_likelihood=-8.45558	log10_qual_likelihood_position_model=2.76275	log10_strand_likelihood_position_model=0.708273	new_cov=2/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=7.20321e-07	ref_cov=85/109	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=87/109
RA	469	.	NC_007779	2600440	0	A	G	bias_e_value=0.141739	bias_p_value=3.05055e-08	fisher_strand_p_value=1.42768e-09	frequency=7.929897e-02	genotype_quality=626.5	ks_quality_p_value=1	log10_base_likelihood=-6.61253	log10_qual_likelihood_position_model=17.1434	log10_strand_likelihood_position_model=8.84537	new_cov=25/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=78/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/114
RA	470	.	NC_007779	2601998	0	A	C	bias_e_value=0.0005184	bias_p_value=1.11572e-10	fisher_strand_p_value=4.09885e-12	frequency=7.244158e-02	genotype_quality=534.8	ks_quality_p_value=1	log10_base_likelihood=-12.7348	log10_qual_likelihood_position_model=16.8481	log10_strand_likelihood_position_model=11.3873	new_cov=0/13	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=121/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/25
RA	471	.	NC_007779	2610583	0	G	C	bias_e_value=649.454	bias_p_value=0.000139778	fisher_strand_p_value=1.12792e-05	frequency=4.241562e-02	genotype_quality=585.4	ks_quality_p_value=1	log10_base_likelihood=-7.99007	log10_qual_likelihood_position_model=10.2377	log10_strand_likelihood_position_model=4.94772	new_cov=0/8	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=118/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/41
RA	472	.	NC_007779	2616347	0	A	C	bias_e_value=4.51148e-07	bias_p_value=9.70977e-14	fisher_strand_p_value=2.81409e-15	frequency=8.278465e-02	genotype_quality=556.7	ks_quality_p_value=1	log10_base_likelihood=-12.9192	log10_qual_likelihood_position_model=21.0352	log10_strand_likelihood_position_model=14.5507	new_cov=0/21	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=123/21	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/42
RA	473	.	NC_007779	2623159	0	T	G	bias_e_value=3.58714e-27	bias_p_value=7.72037e-34	fisher_strand_p_value=9.45585e-36	frequency=1.879721e-01	genotype_quality=631.7	ks_quality_p_value=1	log10_base_likelihood=-29.7305	log10_qual_likelihood_position_model=46.3912	log10_strand_likelihood_position_model=35.0243	new_cov=60/0	polymorphism_quality=24.5	quality=24.5	quality_position_model=Inf	ref_cov=26/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=86/150
RA	474	.	NC_007779	2623173	0	G	T	bias_e_value=1.49384	bias_p_value=3.2151e-07	fisher_strand_p_value=1.70212e-08	frequency=8.480597e-02	genotype_quality=811.6	ks_quality_p_value=1	log10_base_likelihood=-20.3844	log10_qual_likelihood_position_model=18.1218	log10_strand_likelihood_position_model=7.77925	new_cov=21/1	polymorphism_quality=15.1	quality=15.1	quality_position_model=Inf	ref_cov=74/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=95/141
RA	475	.	NC_007779	2648595	0	A	C	bias_e_value=1.43662e-08	bias_p_value=3.09194e-15	fisher_strand_p_value=8.12624e-17	frequency=7.419729e-02	genotype_quality=574.7	ks_quality_p_value=1	log10_base_likelihood=-12.8711	log10_qual_likelihood_position_model=21.5057	log10_strand_likelihood_position_model=16.0901	new_cov=0/17	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=135/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/26
RA	476	.	NC_007779	2672817	0	A	C	bias_e_value=4.01012e-13	bias_p_value=8.63073e-20	fisher_strand_p_value=1.76918e-21	frequency=1.729169e-01	genotype_quality=534.9	ks_quality_p_value=1	log10_base_likelihood=-34.7339	log10_qual_likelihood_position_model=34.2346	log10_strand_likelihood_position_model=20.7522	new_cov=0/42	polymorphism_quality=29.6	quality=29.6	quality_position_model=Inf	ref_cov=116/35	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/77
RA	477	.	NC_007779	2694234	1	.	G	bias_e_value=4226970	bias_p_value=0.909743	fisher_strand_p_value=1	frequency=7.575989e-03	genotype_quality=1301.8	ks_quality_p_value=0.606425	log10_base_likelihood=-8.42325	log10_qual_likelihood_position_model=0.971741	log10_strand_likelihood_position_model=0.299606	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=4.13694e-09	ref_cov=128/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/135
RA	478	.	NC_007779	2700681	0	T	G	bias_e_value=1.75639e-07	bias_p_value=3.78016e-14	fisher_strand_p_value=1.06558e-15	frequency=1.143556e-01	genotype_quality=739.5	ks_quality_p_value=1	log10_base_likelihood=-13.0522	log10_qual_likelihood_position_model=32.0341	log10_strand_likelihood_position_model=14.9724	new_cov=40/0	polymorphism_quality=7.7	quality=7.7	quality_position_model=Inf	ref_cov=77/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/132
RA	479	.	NC_007779	2704581	0	G	C	bias_e_value=8.24046	bias_p_value=1.77354e-06	fisher_strand_p_value=1.04146e-07	frequency=5.432987e-02	genotype_quality=664.1	ks_quality_p_value=0.997009	log10_base_likelihood=-10.0844	log10_qual_likelihood_position_model=13.4783	log10_strand_likelihood_position_model=6.98236	new_cov=11/0	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=34/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=45/132
RA	480	.	NC_007779	2708935	0	A	C	bias_e_value=5.32795e-08	bias_p_value=1.1467e-14	fisher_strand_p_value=3.12434e-16	frequency=1.333294e-01	genotype_quality=646.5	ks_quality_p_value=1	log10_base_likelihood=-19.5322	log10_qual_likelihood_position_model=28.339	log10_strand_likelihood_position_model=15.5052	new_cov=0/38	polymorphism_quality=14.2	quality=14.2	quality_position_model=Inf	ref_cov=127/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/101
RA	481	.	NC_007779	2724454	1	.	T	bias_e_value=3705720	bias_p_value=0.797559	fisher_strand_p_value=1	frequency=7.041931e-03	genotype_quality=1395.4	ks_quality_p_value=0.435554	log10_base_likelihood=-7.69674	log10_qual_likelihood_position_model=1.52634	log10_strand_likelihood_position_model=0.300274	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=8.68679e-08	ref_cov=135/147	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=136/148
RA	482	.	NC_007779	2753432	1	.	A	bias_e_value=772605	bias_p_value=0.166283	fisher_strand_p_value=0.136111	frequency=1.612854e-02	genotype_quality=1196.2	ks_quality_p_value=0.288252	log10_base_likelihood=-17.4704	log10_qual_likelihood_position_model=3.67864	log10_strand_likelihood_position_model=0.989009	new_cov=4/0	polymorphism_quality=12.2	quality=12.2	quality_position_model=6.99238e-15	ref_cov=137/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/107
RA	483	.	NC_007779	2767290	0	A	T	bias_e_value=525.116	bias_p_value=0.000113017	fisher_strand_p_value=8.9529e-06	frequency=5.365562e-02	genotype_quality=826.2	ks_quality_p_value=1	log10_base_likelihood=-10.6071	log10_qual_likelihood_position_model=18.2161	log10_strand_likelihood_position_model=5.04804	new_cov=14/0	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=90/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=104/126
RA	484	.	NC_007779	2767294	0	G	T	bias_e_value=222477	bias_p_value=0.0478823	fisher_strand_p_value=0.00826097	frequency=2.540112e-02	genotype_quality=898.0	ks_quality_p_value=1	log10_base_likelihood=-9.14974	log10_qual_likelihood_position_model=9.98298	log10_strand_likelihood_position_model=2.08297	new_cov=6/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=97/123	reject=POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=103/123
RA	485	.	NC_007779	2771144	0	G	T	bias_e_value=23.8219	bias_p_value=5.12704e-06	fisher_strand_p_value=3.32234e-07	frequency=7.635880e-02	genotype_quality=685.3	ks_quality_p_value=0.967498	log10_base_likelihood=-16.8908	log10_qual_likelihood_position_model=19.21	log10_strand_likelihood_position_model=6.47856	new_cov=0/20	polymorphism_quality=11.6	quality=11.6	quality_position_model=Inf	ref_cov=110/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/109
RA	486	.	NC_007779	2774179	0	A	T	bias_e_value=3836.43	bias_p_value=0.000825689	fisher_strand_p_value=7.90477e-05	frequency=6.446600e-02	genotype_quality=839.8	ks_quality_p_value=1	log10_base_likelihood=-18.335	log10_qual_likelihood_position_model=21.5111	log10_strand_likelihood_position_model=4.36206	new_cov=16/0	polymorphism_quality=13.0	quality=13.0	quality_position_model=Inf	ref_cov=113/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=129/106
RA	487	.	NC_007779	2791171	0	G	T	bias_e_value=0.166261	bias_p_value=3.57832e-08	fisher_strand_p_value=1.68791e-09	frequency=9.102154e-02	genotype_quality=762.5	ks_quality_p_value=1	log10_base_likelihood=-15.1043	log10_qual_likelihood_position_model=23.3706	log10_strand_likelihood_position_model=8.85568	new_cov=0/28	polymorphism_quality=9.8	quality=9.8	quality_position_model=Inf	ref_cov=119/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/125
RA	488	.	NC_007779	2791635	0	C	T	bias_e_value=9.50062e-07	bias_p_value=2.04476e-13	fisher_strand_p_value=6.06089e-15	frequency=8.432579e-02	genotype_quality=607.8	ks_quality_p_value=1	log10_base_likelihood=-8.79995	log10_qual_likelihood_position_model=21.3691	log10_strand_likelihood_position_model=14.2175	new_cov=0/18	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=139/18	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/36
RA	489	.	NC_007779	2791639	0	C	G	bias_e_value=0.892967	bias_p_value=1.92188e-07	fisher_strand_p_value=9.89836e-09	frequency=6.059599e-02	genotype_quality=682.0	ks_quality_p_value=0.999197	log10_base_likelihood=-11.8949	log10_qual_likelihood_position_model=15.1356	log10_strand_likelihood_position_model=8.00444	new_cov=0/12	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=136/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/43
RA	490	.	NC_007779	2797644	0	C	A	bias_e_value=2.796	bias_p_value=6.01764e-07	fisher_strand_p_value=3.30163e-08	frequency=7.173443e-02	genotype_quality=790.6	ks_quality_p_value=1	log10_base_likelihood=-15.0533	log10_qual_likelihood_position_model=14.7033	log10_strand_likelihood_position_model=7.48127	new_cov=0/18	polymorphism_quality=9.7	quality=9.7	quality_position_model=Inf	ref_cov=140/78	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=140/96
RA	491	.	NC_007779	2799805	0	T	G	bias_e_value=0.722315	bias_p_value=1.55459e-07	fisher_strand_p_value=7.90931e-09	frequency=4.703999e-02	genotype_quality=750.5	ks_quality_p_value=1	log10_base_likelihood=-7.31479	log10_qual_likelihood_position_model=17.7966	log10_strand_likelihood_position_model=8.10186	new_cov=16/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=56/142	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/142
RA	492	.	NC_007779	2816615	0	G	C	bias_e_value=4.61777e-12	bias_p_value=9.93853e-19	fisher_strand_p_value=2.94485e-20	frequency=1.756978e-01	genotype_quality=611.2	ks_quality_p_value=0.729112	log10_base_likelihood=-37.3331	log10_qual_likelihood_position_model=32.8925	log10_strand_likelihood_position_model=19.5309	new_cov=40/0	polymorphism_quality=32.2	quality=32.2	quality_position_model=Inf	ref_cov=43/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=83/129
RA	493	.	NC_007779	2817028	1	.	C	bias_e_value=1606890	bias_p_value=0.34584	fisher_strand_p_value=0.106879	frequency=1.265717e-02	genotype_quality=924.3	ks_quality_p_value=0.999892	log10_base_likelihood=-11.6316	log10_qual_likelihood_position_model=5.19445	log10_strand_likelihood_position_model=0.971109	new_cov=3/0	polymorphism_quality=6.2	quality=6.2	quality_position_model=2.27729e-07	ref_cov=110/124	reject=POLYMORPHISM_STRAND	tot_cov=113/124
RA	494	.	NC_007779	2817030	0	G	C	bias_e_value=4.59847e-19	bias_p_value=9.89698e-26	fisher_strand_p_value=1.7137e-27	frequency=2.498174e-01	genotype_quality=535.9	ks_quality_p_value=0.920887	log10_base_likelihood=-81.2568	log10_qual_likelihood_position_model=39.0921	log10_strand_likelihood_position_model=26.7661	new_cov=54/0	polymorphism_quality=76.3	quality=76.3	quality_position_model=1.62094e-17	ref_cov=33/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/124
RA	495	.	NC_007779	2833875	0	A	C	bias_e_value=1.2716e-05	bias_p_value=2.73678e-12	fisher_strand_p_value=8.81121e-14	frequency=6.798410e-02	genotype_quality=632.2	ks_quality_p_value=1	log10_base_likelihood=-6.88158	log10_qual_likelihood_position_model=24.5513	log10_strand_likelihood_position_model=13.055	new_cov=0/28	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=119/48	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/76
RA	496	.	NC_007779	2833989	0	A	C	bias_e_value=7.03084e-05	bias_p_value=1.5132e-11	fisher_strand_p_value=5.16601e-13	frequency=8.558655e-02	genotype_quality=461.8	ks_quality_p_value=1	log10_base_likelihood=-8.58251	log10_qual_likelihood_position_model=18.2717	log10_strand_likelihood_position_model=12.2868	new_cov=0/15	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=103/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/26
RA	497	.	NC_007779	2839291	1	.	G	bias_e_value=909608	bias_p_value=0.195769	fisher_strand_p_value=0.0543391	frequency=1.606369e-02	genotype_quality=1205.6	ks_quality_p_value=0.895578	log10_base_likelihood=-17.0975	log10_qual_likelihood_position_model=1.85057	log10_strand_likelihood_position_model=1.26489	new_cov=4/0	polymorphism_quality=11.8	quality=11.8	quality_position_model=4.43381e-16	ref_cov=117/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/128
RA	498	.	NC_007779	2839296	0	A	G	bias_e_value=2.76303e-07	bias_p_value=5.9467e-14	fisher_strand_p_value=1.69862e-15	frequency=1.085334e-01	genotype_quality=578.4	ks_quality_p_value=1	log10_base_likelihood=-20.4084	log10_qual_likelihood_position_model=24.1071	log10_strand_likelihood_position_model=14.7699	new_cov=22/0	polymorphism_quality=15.1	quality=15.1	quality_position_model=Inf	ref_cov=26/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=48/136
RA	499	.	NC_007779	2847445	0	G	T	bias_e_value=1.06844	bias_p_value=2.29954e-07	fisher_strand_p_value=1.19503e-08	frequency=6.834555e-02	genotype_quality=824.7	ks_quality_p_value=1	log10_base_likelihood=-11.9763	log10_qual_likelihood_position_model=17.9114	log10_strand_likelihood_position_model=7.92262	new_cov=0/23	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=134/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/122
RA	500	.	NC_007779	2854889	0	G	C	bias_e_value=818.779	bias_p_value=0.000176221	fisher_strand_p_value=1.45153e-05	frequency=3.726006e-02	genotype_quality=703.3	ks_quality_p_value=1	log10_base_likelihood=-6.25806	log10_qual_likelihood_position_model=8.68786	log10_strand_likelihood_position_model=4.83817	new_cov=0/9	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=132/49	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=132/58
RA	501	.	NC_007779	2866111	0	A	G	frequency=1	genotype_quality=1160.7	new_cov=138/129	quality=1160.7	ref_cov=0/0	tot_cov=138/129
RA	502	.	NC_007779	2895131	0	A	C	bias_e_value=7.44048e-06	bias_p_value=1.60137e-12	fisher_strand_p_value=5.06541e-14	frequency=5.377817e-02	genotype_quality=732.7	ks_quality_p_value=1	log10_base_likelihood=-7.39922	log10_qual_likelihood_position_model=28.4247	log10_strand_likelihood_position_model=13.2954	new_cov=0/21	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=150/35	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=150/56
RA	503	.	NC_007779	2895144	0	G	C	bias_e_value=0.0264259	bias_p_value=5.68747e-09	fisher_strand_p_value=2.45935e-10	frequency=7.072306e-02	genotype_quality=669.7	ks_quality_p_value=1	log10_base_likelihood=-11.5191	log10_qual_likelihood_position_model=16.221	log10_strand_likelihood_position_model=9.60918	new_cov=0/16	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=135/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=135/53
RA	504	.	NC_007779	2898954	0	A	.	bias_e_value=3253940	bias_p_value=0.700325	fisher_strand_p_value=0.375111	frequency=1.765919e-02	genotype_quality=1136.2	ks_quality_p_value=0.890541	log10_base_likelihood=-14.3029	log10_qual_likelihood_position_model=1.5704	log10_strand_likelihood_position_model=0.733826	new_cov=1/4	polymorphism_quality=8.9	quality=8.9	quality_position_model=4.59541e-14	ref_cov=132/146	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/150
RA	505	.	NC_007779	2902737	1	.	C	bias_e_value=3609760	bias_p_value=0.776906	fisher_strand_p_value=0.49833	frequency=7.326126e-03	genotype_quality=1332.9	ks_quality_p_value=0.825795	log10_base_likelihood=-8.41694	log10_qual_likelihood_position_model=2.66122	log10_strand_likelihood_position_model=0.587838	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=4.64428e-07	ref_cov=137/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/134
RA	506	.	NC_007779	2905194	1	.	G	bias_e_value=709999	bias_p_value=0.152808	fisher_strand_p_value=0.0443848	frequency=1.333332e-02	genotype_quality=717.9	ks_quality_p_value=0.791747	log10_base_likelihood=-8.38569	log10_qual_likelihood_position_model=1.25867	log10_strand_likelihood_position_model=1.35277	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.09162e-07	ref_cov=30/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=32/118
RA	507	.	NC_007779	2918032	0	G	T	bias_e_value=3007140	bias_p_value=0.647207	fisher_strand_p_value=1	frequency=1.239395e-02	genotype_quality=1024.3	ks_quality_p_value=0.288568	log10_base_likelihood=-6.35054	log10_qual_likelihood_position_model=2.01907	log10_strand_likelihood_position_model=0.393649	new_cov=1/2	polymorphism_quality=0.8	quality=0.8	quality_position_model=8.94021e-06	ref_cov=110/128	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=111/131
RA	508	.	NC_007779	2926157	0	T	G	bias_e_value=2.75996e-15	bias_p_value=5.94008e-22	fisher_strand_p_value=1.10284e-23	frequency=9.661674e-02	genotype_quality=524.6	ks_quality_p_value=1	log10_base_likelihood=-13.9668	log10_qual_likelihood_position_model=25.4467	log10_strand_likelihood_position_model=22.9575	new_cov=24/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=5/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=29/127
RA	509	.	NC_007779	2939008	0	A	C	bias_e_value=0.00297081	bias_p_value=6.39387e-10	fisher_strand_p_value=2.5194e-11	frequency=7.598734e-02	genotype_quality=737.2	ks_quality_p_value=0.998939	log10_base_likelihood=-10.4499	log10_qual_likelihood_position_model=23.6061	log10_strand_likelihood_position_model=10.5987	new_cov=0/24	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=136/65	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=136/89
RA	510	.	NC_007779	2941345	0	T	C	bias_e_value=1893490	bias_p_value=0.407525	fisher_strand_p_value=0.63082	frequency=4.854822e-01	genotype_quality=23.7	ks_quality_p_value=0.215744	log10_base_likelihood=-497.62	log10_qual_likelihood_position_model=14.7795	log10_strand_likelihood_position_model=1.06945	new_cov=70/63	polymorphism_quality=inf	quality=inf	quality_position_model=0	ref_cov=70/71	tot_cov=140/134
RA	511	.	NC_007779	2974959	1	.	A	bias_e_value=3802510	bias_p_value=0.81839	fisher_strand_p_value=0.508621	frequency=8.620262e-03	genotype_quality=1121.5	ks_quality_p_value=0.907419	log10_base_likelihood=-8.16136	log10_qual_likelihood_position_model=1.88153	log10_strand_likelihood_position_model=0.484674	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.03857e-07	ref_cov=131/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/99
RA	512	.	NC_007779	2983097	0	A	C	bias_e_value=2.60646e-20	bias_p_value=5.60972e-27	fisher_strand_p_value=8.54759e-29	frequency=1.730118e-01	genotype_quality=586.8	ks_quality_p_value=1	log10_base_likelihood=-18.8603	log10_qual_likelihood_position_model=55.3779	log10_strand_likelihood_position_model=28.0682	new_cov=0/63	polymorphism_quality=13.6	quality=13.6	quality_position_model=Inf	ref_cov=123/40	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/103
RA	513	.	NC_007779	2987535	0	A	C	bias_e_value=4.85694e-33	bias_p_value=1.04533e-39	fisher_strand_p_value=1.09672e-41	frequency=3.211203e-01	genotype_quality=503.0	ks_quality_p_value=1	log10_base_likelihood=-93.4233	log10_qual_likelihood_position_model=65.9835	log10_strand_likelihood_position_model=40.9599	new_cov=0/91	polymorphism_quality=88.5	quality=88.5	quality_position_model=Inf	ref_cov=132/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=132/124
RA	514	.	NC_007779	2994664	0	T	.	bias_e_value=4612260	bias_p_value=0.992666	fisher_strand_p_value=1	frequency=1.030064e-02	genotype_quality=1184.5	ks_quality_p_value=0.88136	log10_base_likelihood=-7.89985	log10_qual_likelihood_position_model=1.21288	log10_strand_likelihood_position_model=0.379232	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=3.0661e-08	ref_cov=126/162	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/164
RA	515	.	NC_007779	2999826	0	A	C	bias_e_value=4.75213e-21	bias_p_value=1.02277e-27	fisher_strand_p_value=1.51842e-29	frequency=1.444945e-01	genotype_quality=549.5	ks_quality_p_value=1	log10_base_likelihood=-19.2984	log10_qual_likelihood_position_model=34.2809	log10_strand_likelihood_position_model=28.8186	new_cov=0/43	polymorphism_quality=14.0	quality=14.0	quality_position_model=Inf	ref_cov=134/17	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/60
RA	516	.	NC_007779	3003330	0	G	A	frequency=1	genotype_quality=960.5	new_cov=113/123	quality=960.5	ref_cov=0/0	tot_cov=113/123
RA	517	.	NC_007779	3024252	1	.	T	bias_e_value=2065680	bias_p_value=0.444582	fisher_strand_p_value=0.222001	frequency=7.936478e-03	genotype_quality=1238.7	ks_quality_p_value=0.699673	log10_base_likelihood=-7.97632	log10_qual_likelihood_position_model=1.76765	log10_strand_likelihood_position_model=0.653645	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.84147e-07	ref_cov=117/133	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/133
RA	518	.	NC_007779	3029385	0	C	A	bias_e_value=1.36484e-13	bias_p_value=2.93746e-20	fisher_strand_p_value=5.88859e-22	frequency=1.441569e-01	genotype_quality=630.9	ks_quality_p_value=1	log10_base_likelihood=-57.6552	log10_qual_likelihood_position_model=28.3403	log10_strand_likelihood_position_model=21.23	new_cov=0/26	polymorphism_quality=52.6	quality=52.6	quality_position_model=4.55427e-10	ref_cov=140/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=140/39
RA	519	.	NC_007779	3031146	0	C	A	bias_e_value=537.069	bias_p_value=0.00011559	fisher_strand_p_value=9.17446e-06	frequency=3.682137e-02	genotype_quality=947.6	ks_quality_p_value=1	log10_base_likelihood=-6.18903	log10_qual_likelihood_position_model=18.8936	log10_strand_likelihood_position_model=5.33845	new_cov=17/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=125/142	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/142
RA	520	.	NC_007779	3034413	0	A	C	bias_e_value=4.77851e-24	bias_p_value=1.02845e-30	fisher_strand_p_value=1.3831e-32	frequency=1.982007e-01	genotype_quality=552.4	ks_quality_p_value=1	log10_base_likelihood=-33.5507	log10_qual_likelihood_position_model=44.4134	log10_strand_likelihood_position_model=31.8591	new_cov=0/59	polymorphism_quality=28.4	quality=28.4	quality_position_model=Inf	ref_cov=132/27	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/87
RA	521	.	NC_007779	3035390	0	T	C	bias_e_value=5.18456e-20	bias_p_value=1.11584e-26	fisher_strand_p_value=1.78044e-28	frequency=2.386370e-01	genotype_quality=316.2	ks_quality_p_value=0.965214	log10_base_likelihood=-80.0354	log10_qual_likelihood_position_model=19.5372	log10_strand_likelihood_position_model=27.7495	new_cov=0/40	polymorphism_quality=75.1	quality=75.1	quality_position_model=4.99963e-35	ref_cov=113/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/51
RA	522	.	NC_007779	3044707	1	.	C	bias_e_value=384493	bias_p_value=0.0827519	fisher_strand_p_value=0.0161549	frequency=1.369381e-02	genotype_quality=648.5	ks_quality_p_value=0.999239	log10_base_likelihood=-6.16844	log10_qual_likelihood_position_model=2.94551	log10_strand_likelihood_position_model=1.79169	new_cov=2/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=0.00447408	ref_cov=17/127	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=19/127
RA	523	.	NC_007779	3044712	0	T	C	bias_e_value=0.00302852	bias_p_value=6.51808e-10	fisher_strand_p_value=2.56764e-11	frequency=5.397320e-02	genotype_quality=463.0	ks_quality_p_value=1	log10_base_likelihood=-10.9068	log10_qual_likelihood_position_model=11.1827	log10_strand_likelihood_position_model=10.5905	new_cov=9/0	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=5/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=14/135
RA	524	.	NC_007779	3044714	0	A	C	bias_e_value=1.68788	bias_p_value=3.63271e-07	fisher_strand_p_value=1.93643e-08	frequency=6.301117e-02	genotype_quality=413.6	ks_quality_p_value=1	log10_base_likelihood=-12.1041	log10_qual_likelihood_position_model=14.5928	log10_strand_likelihood_position_model=7.71974	new_cov=9/4	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=5/128	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=14/133
RA	525	.	NC_007779	3048743	0	C	T	bias_e_value=849226	bias_p_value=0.182774	fisher_strand_p_value=0.212987	frequency=1.985741e-02	genotype_quality=996.2	ks_quality_p_value=0.208598	log10_base_likelihood=-7.98148	log10_qual_likelihood_position_model=4.75208	log10_strand_likelihood_position_model=0.815246	new_cov=1/4	polymorphism_quality=2.5	quality=2.5	quality_position_model=0.000371534	ref_cov=122/118	reject=POLYMORPHISM_STRAND	tot_cov=123/122
RA	526	.	NC_007779	3049815	0	G	T	frequency=1	genotype_quality=997.1	new_cov=124/124	quality=997.1	ref_cov=0/0	tot_cov=124/124
RA	527	.	NC_007779	3059421	0	T	.	bias_e_value=2233990	bias_p_value=0.480807	fisher_strand_p_value=0.357902	frequency=1.480484e-02	genotype_quality=1048.3	ks_quality_p_value=0.490224	log10_base_likelihood=-11.0202	log10_qual_likelihood_position_model=2.14586	log10_strand_likelihood_position_model=0.628883	new_cov=1/3	polymorphism_quality=5.6	quality=5.6	quality_position_model=3.11727e-10	ref_cov=138/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/131
RA	528	.	NC_007779	3085177	1	.	A	bias_e_value=1282540	bias_p_value=0.276032	fisher_strand_p_value=0.0852684	frequency=1.153851e-02	genotype_quality=1262.3	ks_quality_p_value=0.910397	log10_base_likelihood=-12.4304	log10_qual_likelihood_position_model=2.6792	log10_strand_likelihood_position_model=1.06921	new_cov=0/3	polymorphism_quality=7.0	quality=7.0	quality_position_model=1.11313e-10	ref_cov=145/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=145/115
RA	529	.	NC_007779	3088549	0	G	T	bias_e_value=943.229	bias_p_value=0.000203005	fisher_strand_p_value=1.70628e-05	frequency=5.274630e-02	genotype_quality=943.5	ks_quality_p_value=0.992615	log10_base_likelihood=-12.7826	log10_qual_likelihood_position_model=14.0185	log10_strand_likelihood_position_model=5.00936	new_cov=0/20	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=129/155	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/175
RA	530	.	NC_007779	3089270	0	C	A	bias_e_value=2.0959	bias_p_value=4.51087e-07	fisher_strand_p_value=2.43422e-08	frequency=7.506514e-02	genotype_quality=779.6	ks_quality_p_value=1	log10_base_likelihood=-19.4697	log10_qual_likelihood_position_model=16.5088	log10_strand_likelihood_position_model=7.61364	new_cov=22/0	polymorphism_quality=14.2	quality=14.2	quality_position_model=Inf	ref_cov=93/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/127
RA	531	.	NC_007779	3090796	0	A	C	bias_e_value=8.09779	bias_p_value=1.74283e-06	fisher_strand_p_value=1.01926e-07	frequency=3.346348e-02	genotype_quality=654.3	ks_quality_p_value=1	log10_base_likelihood=-7.05287	log10_qual_likelihood_position_model=16.8536	log10_strand_likelihood_position_model=6.99172	new_cov=0/19	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=113/75	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/95
RA	532	.	NC_007779	3091132	0	A	C	bias_e_value=36570.8	bias_p_value=0.0078709	fisher_strand_p_value=0.000994667	frequency=4.786968e-02	genotype_quality=492.5	ks_quality_p_value=1	log10_base_likelihood=-6.62337	log10_qual_likelihood_position_model=15.7718	log10_strand_likelihood_position_model=3.05257	new_cov=0/11	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=67/69	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=67/80
RA	533	.	NC_007779	3091181	0	C	G	bias_e_value=175744	bias_p_value=0.0378243	fisher_strand_p_value=0.00683728	frequency=6.299496e-02	genotype_quality=439.5	ks_quality_p_value=0.909914	log10_base_likelihood=-7.01129	log10_qual_likelihood_position_model=14.4891	log10_strand_likelihood_position_model=2.43103	new_cov=0/11	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=55/77	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=55/88
RA	534	.	NC_007779	3110532	0	C	A	bias_e_value=23.7475	bias_p_value=5.11102e-06	fisher_strand_p_value=3.2168e-07	frequency=6.137514e-02	genotype_quality=495.4	ks_quality_p_value=0.995908	log10_base_likelihood=-16.0373	log10_qual_likelihood_position_model=9.78165	log10_strand_likelihood_position_model=6.49258	new_cov=0/8	polymorphism_quality=10.7	quality=10.7	quality_position_model=Inf	ref_cov=106/15	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/23
RA	535	.	NC_007779	3152854	1	.	A	bias_e_value=3507770	bias_p_value=0.754954	fisher_strand_p_value=0.592867	frequency=1.167297e-02	genotype_quality=1235.7	ks_quality_p_value=0.653761	log10_base_likelihood=-12.9032	log10_qual_likelihood_position_model=1.80628	log10_strand_likelihood_position_model=0.46882	new_cov=1/2	polymorphism_quality=7.5	quality=7.5	quality_position_model=1.1437e-12	ref_cov=139/115	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=140/117
RA	536	.	NC_007779	3152855	0	A	.	bias_e_value=2454750	bias_p_value=0.52832	fisher_strand_p_value=0.628474	frequency=1.525688e-02	genotype_quality=1032.4	ks_quality_p_value=0.324631	log10_base_likelihood=-11.0515	log10_qual_likelihood_position_model=2.37044	log10_strand_likelihood_position_model=0.528764	new_cov=3/1	polymorphism_quality=5.6	quality=5.6	quality_position_model=3.884e-10	ref_cov=140/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/119
RA	537	.	NC_007779	3160153	0	G	C	bias_e_value=2.43911e-05	bias_p_value=5.24954e-12	fisher_strand_p_value=1.77176e-13	frequency=9.497070e-02	genotype_quality=493.3	ks_quality_p_value=0.975058	log10_base_likelihood=-24.1481	log10_qual_likelihood_position_model=13.3102	log10_strand_likelihood_position_model=12.7516	new_cov=13/0	polymorphism_quality=18.9	quality=18.9	quality_position_model=Inf	ref_cov=7/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=20/115
RA	538	.	NC_007779	3162929	0	G	C	bias_e_value=0.172142	bias_p_value=3.70491e-08	fisher_strand_p_value=2.17199e-09	frequency=8.522797e-02	genotype_quality=769.7	ks_quality_p_value=0.806004	log10_base_likelihood=-21.1721	log10_qual_likelihood_position_model=22.2398	log10_strand_likelihood_position_model=8.66314	new_cov=24/0	polymorphism_quality=15.9	quality=15.9	quality_position_model=Inf	ref_cov=92/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/135
RA	539	.	NC_007779	3193539	0	A	.	bias_e_value=4101860	bias_p_value=0.882816	fisher_strand_p_value=0.615463	frequency=9.637833e-03	genotype_quality=1259.3	ks_quality_p_value=0.904637	log10_base_likelihood=-7.85313	log10_qual_likelihood_position_model=0.989365	log10_strand_likelihood_position_model=0.434742	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.29831e-08	ref_cov=158/150	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=159/152
RA	540	.	NC_007779	3195467	0	A	C	bias_e_value=0.00108509	bias_p_value=2.33538e-10	fisher_strand_p_value=8.82838e-12	frequency=6.336021e-02	genotype_quality=789.9	ks_quality_p_value=1	log10_base_likelihood=-7.94188	log10_qual_likelihood_position_model=25.4501	log10_strand_likelihood_position_model=11.0541	new_cov=0/26	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=148/76	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=148/102
RA	541	.	NC_007779	3212355	0	G	C	bias_e_value=1.79448e-10	bias_p_value=3.86215e-17	fisher_strand_p_value=9.69546e-19	frequency=1.517420e-01	genotype_quality=669.5	ks_quality_p_value=0.936331	log10_base_likelihood=-34.1853	log10_qual_likelihood_position_model=31.0429	log10_strand_likelihood_position_model=18.0134	new_cov=35/0	polymorphism_quality=29.0	quality=29.0	quality_position_model=Inf	ref_cov=43/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=78/136
RA	542	.	NC_007779	3212363	0	T	A	bias_e_value=4.94618	bias_p_value=1.06453e-06	fisher_strand_p_value=6.0409e-08	frequency=5.202150e-02	genotype_quality=699.9	ks_quality_p_value=1	log10_base_likelihood=-6.27073	log10_qual_likelihood_position_model=15.9046	log10_strand_likelihood_position_model=7.2189	new_cov=14/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=55/142	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=69/142
RA	543	.	NC_007779	3231285	0	C	A	bias_e_value=194.767	bias_p_value=4.19184e-05	fisher_strand_p_value=3.06042e-06	frequency=4.063225e-02	genotype_quality=717.0	ks_quality_p_value=1	log10_base_likelihood=-6.09996	log10_qual_likelihood_position_model=13.0261	log10_strand_likelihood_position_model=5.51422	new_cov=0/10	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=129/45	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/55
RA	544	.	NC_007779	3231297	0	C	G	bias_e_value=117.612	bias_p_value=2.53128e-05	fisher_strand_p_value=1.77755e-06	frequency=4.826593e-02	genotype_quality=688.1	ks_quality_p_value=1	log10_base_likelihood=-6.68289	log10_qual_likelihood_position_model=12.0885	log10_strand_likelihood_position_model=5.75018	new_cov=0/11	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=128/49	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/60
RA	545	.	NC_007779	3231302	0	C	G	bias_e_value=35.982	bias_p_value=7.74417e-06	fisher_strand_p_value=5.0072e-07	frequency=5.512714e-02	genotype_quality=683.5	ks_quality_p_value=0.997165	log10_base_likelihood=-10.0536	log10_qual_likelihood_position_model=16.1504	log10_strand_likelihood_position_model=6.30041	new_cov=0/13	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=129/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/69
RA	546	.	NC_007779	3231832	1	.	G	bias_e_value=842974	bias_p_value=0.181428	fisher_strand_p_value=0.0518238	frequency=1.149464e-02	genotype_quality=845.9	ks_quality_p_value=0.848974	log10_base_likelihood=-8.63457	log10_qual_likelihood_position_model=1.42017	log10_strand_likelihood_position_model=1.28547	new_cov=2/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=7.55132e-08	ref_cov=38/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=40/134
RA	547	.	NC_007779	3238315	1	.	T	bias_e_value=2677320	bias_p_value=0.576222	fisher_strand_p_value=0.24942	frequency=2.222157e-02	genotype_quality=611.1	ks_quality_p_value=0.944686	log10_base_likelihood=-12.3814	log10_qual_likelihood_position_model=3.56972	log10_strand_likelihood_position_model=0.809377	new_cov=3/0	polymorphism_quality=7.0	quality=7.0	quality_position_model=5.5349e-10	ref_cov=70/62	reject=POLYMORPHISM_STRAND	tot_cov=73/62
RA	548	.	NC_007779	3243783	1	.	T	bias_e_value=3311820	bias_p_value=0.712781	fisher_strand_p_value=1	frequency=7.662773e-03	genotype_quality=1225.6	ks_quality_p_value=0.34559	log10_base_likelihood=-8.19547	log10_qual_likelihood_position_model=1.96829	log10_strand_likelihood_position_model=0.302184	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=7.62241e-08	ref_cov=119/140	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=120/141
RA	549	.	NC_007779	3266843	0	C	G	bias_e_value=0.0888317	bias_p_value=1.91187e-08	fisher_strand_p_value=8.753e-10	frequency=4.962349e-02	genotype_quality=749.1	ks_quality_p_value=0.999328	log10_base_likelihood=-7.43492	log10_qual_likelihood_position_model=15.504	log10_strand_likelihood_position_model=9.05784	new_cov=0/12	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=156/27	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=156/39
RA	550	.	NC_007779	3269811	0	T	A	bias_e_value=1022590	bias_p_value=0.220085	fisher_strand_p_value=0.0569291	frequency=2.744102e-02	genotype_quality=940.4	ks_quality_p_value=1	log10_base_likelihood=-6.1382	log10_qual_likelihood_position_model=13.3539	log10_strand_likelihood_position_model=1.47657	new_cov=1/10	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=112/175	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=113/185
RA	551	.	NC_007779	3280326	0	A	C	bias_e_value=2.17134e-13	bias_p_value=4.67324e-20	fisher_strand_p_value=9.45808e-22	frequency=1.143765e-01	genotype_quality=636.3	ks_quality_p_value=1	log10_base_likelihood=-13.0118	log10_qual_likelihood_position_model=34.1139	log10_strand_likelihood_position_model=21.0242	new_cov=0/44	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=130/44	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=130/88
RA	552	.	NC_007779	3292465	0	T	G	bias_e_value=0.0814922	bias_p_value=1.7539e-08	fisher_strand_p_value=7.99137e-10	frequency=2.891445e-02	genotype_quality=651.1	ks_quality_p_value=1	log10_base_likelihood=-5.65829	log10_qual_likelihood_position_model=11.6507	log10_strand_likelihood_position_model=9.09738	new_cov=8/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=8/156	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=16/156
RA	553	.	NC_007779	3293231	0	A	.	bias_e_value=2707130	bias_p_value=0.582639	fisher_strand_p_value=0.252895	frequency=1.138592e-02	genotype_quality=1060.5	ks_quality_p_value=0.949372	log10_base_likelihood=-7.28571	log10_qual_likelihood_position_model=4.01735	log10_strand_likelihood_position_model=0.798054	new_cov=3/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=0.000323204	ref_cov=140/120	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/120
RA	554	.	NC_007779	3300073	0	T	G	bias_e_value=1.91863e-07	bias_p_value=4.12935e-14	fisher_strand_p_value=1.167e-15	frequency=1.547742e-01	genotype_quality=404.7	ks_quality_p_value=1	log10_base_likelihood=-16.2596	log10_qual_likelihood_position_model=29.7973	log10_strand_likelihood_position_model=14.9329	new_cov=34/0	polymorphism_quality=10.9	quality=10.9	quality_position_model=Inf	ref_cov=33/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=70/86
RA	555	.	NC_007779	3310088	0	G	C	bias_e_value=0.506192	bias_p_value=1.08945e-07	fisher_strand_p_value=5.43917e-09	frequency=4.356861e-02	genotype_quality=639.2	ks_quality_p_value=1	log10_base_likelihood=-6.63351	log10_qual_likelihood_position_model=12.1274	log10_strand_likelihood_position_model=8.26447	new_cov=0/8	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=140/10	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=140/18
RA	556	.	NC_007779	3333608	1	.	G	bias_e_value=2416360	bias_p_value=0.520058	fisher_strand_p_value=0.212261	frequency=8.474350e-03	genotype_quality=1164.1	ks_quality_p_value=0.93689	log10_base_likelihood=-8.36852	log10_qual_likelihood_position_model=1.33574	log10_strand_likelihood_position_model=0.67313	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.71018e-08	ref_cov=107/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=109/127
RA	557	.	NC_007779	3333612	0	T	G	bias_e_value=0.000672314	bias_p_value=1.44698e-10	fisher_strand_p_value=5.36904e-12	frequency=6.377554e-02	genotype_quality=518.8	ks_quality_p_value=1	log10_base_likelihood=-15.9632	log10_qual_likelihood_position_model=12.6583	log10_strand_likelihood_position_model=11.2701	new_cov=9/0	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=3/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=12/127
RA	558	.	NC_007779	3350708	0	A	C	bias_e_value=3.20019e-14	bias_p_value=6.88755e-21	fisher_strand_p_value=1.34094e-22	frequency=1.422038e-01	genotype_quality=740.5	ks_quality_p_value=1	log10_base_likelihood=-21.976	log10_qual_likelihood_position_model=38.9542	log10_strand_likelihood_position_model=21.8947	new_cov=0/62	polymorphism_quality=16.7	quality=16.7	quality_position_model=Inf	ref_cov=136/79	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/141
RA	559	.	NC_007779	3385700	1	.	T	bias_e_value=2226960	bias_p_value=0.479294	fisher_strand_p_value=0.251049	frequency=1.048946e-02	genotype_quality=1354.1	ks_quality_p_value=0.695419	log10_base_likelihood=-12.3272	log10_qual_likelihood_position_model=1.81777	log10_strand_likelihood_position_model=0.819017	new_cov=3/0	polymorphism_quality=6.9	quality=6.9	quality_position_model=1.03581e-11	ref_cov=150/133	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=153/133
RA	560	.	NC_007779	3389914	0	A	C	bias_e_value=5.20114e-14	bias_p_value=1.11941e-20	fisher_strand_p_value=2.20061e-22	frequency=1.569953e-01	genotype_quality=665.1	ks_quality_p_value=1	log10_base_likelihood=-29.2008	log10_qual_likelihood_position_model=39.0718	log10_strand_likelihood_position_model=21.6575	new_cov=0/56	polymorphism_quality=24.0	quality=24.0	quality_position_model=Inf	ref_cov=127/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/118
RA	561	.	NC_007779	3392267	0	C	A	bias_e_value=0.424322	bias_p_value=9.13241e-08	fisher_strand_p_value=4.51757e-09	frequency=6.009912e-02	genotype_quality=882.7	ks_quality_p_value=1	log10_base_likelihood=-13.8385	log10_qual_likelihood_position_model=16.5177	log10_strand_likelihood_position_model=8.34509	new_cov=22/0	polymorphism_quality=8.5	quality=8.5	quality_position_model=Inf	ref_cov=97/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/151
RA	562	.	NC_007779	3397405	0	A	C	bias_e_value=3.96429e-22	bias_p_value=8.53208e-29	fisher_strand_p_value=1.221e-30	frequency=1.485524e-01	genotype_quality=671.7	ks_quality_p_value=1	log10_base_likelihood=-18.7229	log10_qual_likelihood_position_model=47.9145	log10_strand_likelihood_position_model=29.9133	new_cov=0/58	polymorphism_quality=13.4	quality=13.4	quality_position_model=Inf	ref_cov=145/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=145/96
RA	563	.	NC_007779	3397813	0	C	G	frequency=1	genotype_quality=1138.7	new_cov=122/140	quality=1138.7	ref_cov=0/0	tot_cov=122/140
RA	564	.	NC_007779	3404070	0	T	G	bias_e_value=9.52894e-15	bias_p_value=2.05085e-21	fisher_strand_p_value=3.89905e-23	frequency=1.607251e-01	genotype_quality=686.5	ks_quality_p_value=1	log10_base_likelihood=-32.9203	log10_qual_likelihood_position_model=43.6161	log10_strand_likelihood_position_model=22.409	new_cov=58/0	polymorphism_quality=27.7	quality=27.7	quality_position_model=Inf	ref_cov=64/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/131
RA	565	.	NC_007779	3404073	0	T	G	bias_e_value=3.78358e-05	bias_p_value=8.14316e-12	fisher_strand_p_value=2.72048e-13	frequency=6.564379e-02	genotype_quality=762.9	ks_quality_p_value=1	log10_base_likelihood=-11.1488	log10_qual_likelihood_position_model=29.2047	log10_strand_likelihood_position_model=12.5654	new_cov=36/0	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=86/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/128
RA	566	.	NC_007779	3412772	0	A	C	bias_e_value=0.0721247	bias_p_value=1.55229e-08	fisher_strand_p_value=7.03178e-10	frequency=5.161905e-02	genotype_quality=644.2	ks_quality_p_value=1	log10_base_likelihood=-10.8654	log10_qual_likelihood_position_model=15.5978	log10_strand_likelihood_position_model=9.15294	new_cov=0/13	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=137/27	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/40
RA	567	.	NC_007779	3421203	0	T	C	bias_e_value=0.684429	bias_p_value=1.47305e-07	fisher_strand_p_value=7.47287e-09	frequency=5.828762e-02	genotype_quality=570.1	ks_quality_p_value=1	log10_base_likelihood=-7.88901	log10_qual_likelihood_position_model=15.3296	log10_strand_likelihood_position_model=8.12651	new_cov=0/12	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=125/27	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/39
RA	568	.	NC_007779	3421217	0	C	G	bias_e_value=123.892	bias_p_value=2.66645e-05	fisher_strand_p_value=1.92415e-06	frequency=4.557037e-02	genotype_quality=651.1	ks_quality_p_value=0.976982	log10_base_likelihood=-5.88338	log10_qual_likelihood_position_model=14.1787	log10_strand_likelihood_position_model=5.71576	new_cov=0/11	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=129/50	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=129/61
RA	569	.	NC_007779	3423128	1	.	G	bias_e_value=361686	bias_p_value=0.0778433	fisher_strand_p_value=0.0303111	frequency=1.960754e-02	genotype_quality=747.1	ks_quality_p_value=0.493673	log10_base_likelihood=-17.9693	log10_qual_likelihood_position_model=1.9969	log10_strand_likelihood_position_model=1.5184	new_cov=4/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=1.47168e-16	ref_cov=82/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=86/118
RA	570	.	NC_007779	3440270	0	C	A	bias_e_value=621.28	bias_p_value=0.000133714	fisher_strand_p_value=1.0748e-05	frequency=5.122566e-02	genotype_quality=816.6	ks_quality_p_value=1	log10_base_likelihood=-9.18087	log10_qual_likelihood_position_model=14.356	log10_strand_likelihood_position_model=5.08074	new_cov=19/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=130/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=152/119
RA	571	.	NC_007779	3447060	0	T	A	bias_e_value=15404.7	bias_p_value=0.00331545	fisher_strand_p_value=0.000372749	frequency=4.124260e-02	genotype_quality=838.3	ks_quality_p_value=1	log10_base_likelihood=-7.8983	log10_qual_likelihood_position_model=17.4769	log10_strand_likelihood_position_model=3.68848	new_cov=0/12	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=125/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/128
RA	572	.	NC_007779	3475527	0	T	G	bias_e_value=2.41223e-20	bias_p_value=5.19169e-27	fisher_strand_p_value=7.90116e-29	frequency=1.615129e-01	genotype_quality=768.5	ks_quality_p_value=1	log10_base_likelihood=-32.7682	log10_qual_likelihood_position_model=49.492	log10_strand_likelihood_position_model=28.1023	new_cov=67/0	polymorphism_quality=27.6	quality=27.6	quality_position_model=Inf	ref_cov=61/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/150
RA	573	.	NC_007779	3475533	0	C	T	bias_e_value=4.34883e-12	bias_p_value=9.3597e-19	fisher_strand_p_value=2.0194e-20	frequency=1.680455e-01	genotype_quality=813.4	ks_quality_p_value=1	log10_base_likelihood=-53.8551	log10_qual_likelihood_position_model=55.0714	log10_strand_likelihood_position_model=19.6948	new_cov=52/0	polymorphism_quality=48.8	quality=48.8	quality_position_model=Inf	ref_cov=87/156	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=139/156
RA	574	.	NC_007779	3475539	0	G	T	bias_e_value=3834.72	bias_p_value=0.000825322	fisher_strand_p_value=7.90088e-05	frequency=4.095745e-02	genotype_quality=847.3	ks_quality_p_value=1	log10_base_likelihood=-12.2147	log10_qual_likelihood_position_model=9.82972	log10_strand_likelihood_position_model=4.10232	new_cov=10/0	polymorphism_quality=6.8	quality=6.8	quality_position_model=Inf	ref_cov=83/139	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=93/139
RA	575	.	NC_007779	3484372	0	A	C	bias_e_value=1.44449e-06	bias_p_value=3.10889e-13	fisher_strand_p_value=9.33458e-15	frequency=7.496262e-02	genotype_quality=617.8	ks_quality_p_value=1	log10_base_likelihood=-5.60391	log10_qual_likelihood_position_model=28.0078	log10_strand_likelihood_position_model=14.0299	new_cov=0/36	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=120/65	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=120/102
RA	576	.	NC_007779	3491570	0	G	C	bias_e_value=451624	bias_p_value=0.0972001	fisher_strand_p_value=0.24847	frequency=1.083374e-02	genotype_quality=1153.7	ks_quality_p_value=0.0794242	log10_base_likelihood=-5.64876	log10_qual_likelihood_position_model=3.42072	log10_strand_likelihood_position_model=0.856735	new_cov=3/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.00523048	ref_cov=141/133	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=145/133
RA	577	.	NC_007779	3499066	0	A	C	bias_e_value=335.005	bias_p_value=7.2101e-05	fisher_strand_p_value=5.61633e-06	frequency=4.894352e-02	genotype_quality=632.9	ks_quality_p_value=0.979167	log10_base_likelihood=-12.9871	log10_qual_likelihood_position_model=13.7463	log10_strand_likelihood_position_model=5.25055	new_cov=0/9	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=130/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/50
RA	578	.	NC_007779	3520391	0	C	G	bias_e_value=1.35574e-08	bias_p_value=2.91786e-15	fisher_strand_p_value=7.65675e-17	frequency=1.043386e-01	genotype_quality=560.1	ks_quality_p_value=1	log10_base_likelihood=-23.4622	log10_qual_likelihood_position_model=19.6086	log10_strand_likelihood_position_model=16.116	new_cov=16/0	polymorphism_quality=18.2	quality=18.2	quality_position_model=Inf	ref_cov=6/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=22/125
RA	579	.	NC_007779	3523734	0	G	T	bias_e_value=67.6689	bias_p_value=1.45639e-05	fisher_strand_p_value=9.81802e-07	frequency=4.569340e-02	genotype_quality=944.3	ks_quality_p_value=1	log10_base_likelihood=-7.36927	log10_qual_likelihood_position_model=19.6493	log10_strand_likelihood_position_model=6.17311	new_cov=0/20	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=137/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/142
RA	580	.	NC_007779	3543542	0	G	T	bias_e_value=0.0130562	bias_p_value=2.81e-09	fisher_strand_p_value=1.17759e-10	frequency=6.435394e-02	genotype_quality=841.1	ks_quality_p_value=1	log10_base_likelihood=-7.85775	log10_qual_likelihood_position_model=25.3688	log10_strand_likelihood_position_model=9.92901	new_cov=0/25	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=143/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=143/108
RA	581	.	NC_007779	3543547	0	A	C	bias_e_value=1.66865e-35	bias_p_value=3.59133e-42	fisher_strand_p_value=3.55417e-44	frequency=3.022108e-01	genotype_quality=615.2	ks_quality_p_value=1	log10_base_likelihood=-88.2829	log10_qual_likelihood_position_model=67.6663	log10_strand_likelihood_position_model=43.4493	new_cov=0/102	polymorphism_quality=83.3	quality=83.3	quality_position_model=Inf	ref_cov=148/44	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/146
RA	582	.	NC_007779	3560478	0	G	T	bias_e_value=90334.6	bias_p_value=0.0194421	fisher_strand_p_value=0.00283122	frequency=4.197884e-02	genotype_quality=752.9	ks_quality_p_value=1	log10_base_likelihood=-10.6549	log10_qual_likelihood_position_model=8.85292	log10_strand_likelihood_position_model=2.76947	new_cov=0/11	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=95/115	reject=POLYMORPHISM_STRAND	tot_cov=95/126
RA	583	.	NC_007779	3573438	0	C	A	bias_e_value=6167.78	bias_p_value=0.00132745	fisher_strand_p_value=0.000140299	frequency=3.712559e-02	genotype_quality=935.7	ks_quality_p_value=0.953894	log10_base_likelihood=-5.98886	log10_qual_likelihood_position_model=16.4916	log10_strand_likelihood_position_model=3.89641	new_cov=14/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=134/127	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/127
RA	584	.	NC_007779	3576400	1	.	A	bias_e_value=3241070	bias_p_value=0.697555	fisher_strand_p_value=1	frequency=1.398563e-02	genotype_quality=1364.5	ks_quality_p_value=0.331533	log10_base_likelihood=-17.5823	log10_qual_likelihood_position_model=2.4784	log10_strand_likelihood_position_model=0.440197	new_cov=2/2	polymorphism_quality=12.3	quality=12.3	quality_position_model=9.01714e-17	ref_cov=121/161	reject=INDEL_HOMOPOLYMER	tot_cov=123/163
RA	585	.	NC_007779	3580297	0	G	T	bias_e_value=1126.87	bias_p_value=0.000242529	fisher_strand_p_value=2.05743e-05	frequency=3.286648e-02	genotype_quality=1068.5	ks_quality_p_value=0.999671	log10_base_likelihood=-8.42113	log10_qual_likelihood_position_model=13.6436	log10_strand_likelihood_position_model=4.9877	new_cov=0/16	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=160/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=160/160
RA	586	.	NC_007779	3583865	0	C	A	bias_e_value=24.2944	bias_p_value=5.22872e-06	fisher_strand_p_value=3.28411e-07	frequency=3.839111e-02	genotype_quality=906.8	ks_quality_p_value=0.999483	log10_base_likelihood=-6.08392	log10_qual_likelihood_position_model=13.8155	log10_strand_likelihood_position_model=6.48358	new_cov=18/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=106/149	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/149
RA	587	.	NC_007779	3603950	0	A	C	bias_e_value=5.03994e-09	bias_p_value=1.08471e-15	fisher_strand_p_value=2.77249e-17	frequency=9.444571e-02	genotype_quality=681.6	ks_quality_p_value=1	log10_base_likelihood=-17.7165	log10_qual_likelihood_position_model=39.7034	log10_strand_likelihood_position_model=16.5571	new_cov=0/38	polymorphism_quality=12.4	quality=12.4	quality_position_model=Inf	ref_cov=132/58	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/97
RA	588	.	NC_007779	3609448	0	A	T	bias_e_value=6338.56	bias_p_value=0.00136421	fisher_strand_p_value=0.000137958	frequency=3.311157e-02	genotype_quality=683.6	ks_quality_p_value=1	log10_base_likelihood=-6.01841	log10_qual_likelihood_position_model=12.1676	log10_strand_likelihood_position_model=3.86025	new_cov=7/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=48/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=55/133
RA	589	.	NC_007779	3676780	0	A	C	bias_e_value=2.82182e-06	bias_p_value=6.07323e-13	fisher_strand_p_value=1.86213e-14	frequency=1.264067e-01	genotype_quality=763.8	ks_quality_p_value=1	log10_base_likelihood=-25.5539	log10_qual_likelihood_position_model=31.0296	log10_strand_likelihood_position_model=13.73	new_cov=0/40	polymorphism_quality=20.3	quality=20.3	quality_position_model=Inf	ref_cov=132/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/130
RA	590	.	NC_007779	3677217	0	T	G	bias_e_value=40.3022	bias_p_value=8.67399e-06	fisher_strand_p_value=5.63655e-07	frequency=5.693436e-02	genotype_quality=425.9	ks_quality_p_value=1	log10_base_likelihood=-12.2344	log10_qual_likelihood_position_model=11.2136	log10_strand_likelihood_position_model=6.26523	new_cov=4/10	polymorphism_quality=6.8	quality=6.8	quality_position_model=Inf	ref_cov=126/13	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=131/24
RA	591	.	NC_007779	3683153	0	A	C	bias_e_value=73.4237	bias_p_value=1.58025e-05	fisher_strand_p_value=1.07448e-06	frequency=3.975296e-02	genotype_quality=469.5	ks_quality_p_value=0.997337	log10_base_likelihood=-9.77955	log10_qual_likelihood_position_model=6.8139	log10_strand_likelihood_position_model=5.9688	new_cov=0/5	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=115/5	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/10
RA	592	.	NC_007779	3685443	0	C	A	bias_e_value=66833.1	bias_p_value=0.0143841	fisher_strand_p_value=0.00199273	frequency=2.987576e-02	genotype_quality=772.5	ks_quality_p_value=1	log10_base_likelihood=-5.93068	log10_qual_likelihood_position_model=9.04306	log10_strand_likelihood_position_model=2.78753	new_cov=10/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=109/103	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=120/104
RA	593	.	NC_007779	3688858	0	A	C	bias_e_value=4.35814e-22	bias_p_value=9.37974e-29	fisher_strand_p_value=1.34415e-30	frequency=2.118559e-01	genotype_quality=561.0	ks_quality_p_value=1	log10_base_likelihood=-41.5905	log10_qual_likelihood_position_model=44.6329	log10_strand_likelihood_position_model=29.8716	new_cov=0/62	polymorphism_quality=36.5	quality=36.5	quality_position_model=Inf	ref_cov=124/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/95
RA	594	.	NC_007779	3701118	0	G	T	bias_e_value=0.00142191	bias_p_value=3.06027e-10	fisher_strand_p_value=1.16929e-11	frequency=9.252167e-02	genotype_quality=808.5	ks_quality_p_value=1	log10_base_likelihood=-19.3972	log10_qual_likelihood_position_model=21.509	log10_strand_likelihood_position_model=10.9321	new_cov=0/27	polymorphism_quality=14.1	quality=14.1	quality_position_model=Inf	ref_cov=141/78	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=141/105
RA	595	.	NC_007779	3711109	0	C	A	bias_e_value=116.332	bias_p_value=2.50374e-05	fisher_strand_p_value=1.75676e-06	frequency=4.126263e-02	genotype_quality=834.7	ks_quality_p_value=1	log10_base_likelihood=-5.75561	log10_qual_likelihood_position_model=13.3037	log10_strand_likelihood_position_model=5.75529	new_cov=16/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=101/141	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/141
RA	596	.	NC_007779	3727557	0	A	G	bias_e_value=2.7647e-14	bias_p_value=5.95028e-21	fisher_strand_p_value=1.15511e-22	frequency=1.591687e-01	genotype_quality=494.4	ks_quality_p_value=1	log10_base_likelihood=-26.8703	log10_qual_likelihood_position_model=31.6969	log10_strand_likelihood_position_model=21.9374	new_cov=30/0	polymorphism_quality=21.6	quality=21.6	quality_position_model=Inf	ref_cov=15/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=45/127
RA	597	.	NC_007779	3728155	0	T	C	bias_e_value=59.8887	bias_p_value=1.28895e-05	fisher_strand_p_value=8.65636e-07	frequency=3.815269e-02	genotype_quality=503.5	ks_quality_p_value=0.995012	log10_base_likelihood=-6.95193	log10_qual_likelihood_position_model=7.41805	log10_strand_likelihood_position_model=6.06266	new_cov=6/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=11/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=17/133
RA	598	.	NC_007779	3728157	0	A	C	bias_e_value=13.1979	bias_p_value=2.8405e-06	fisher_strand_p_value=1.71324e-07	frequency=3.489494e-02	genotype_quality=455.2	ks_quality_p_value=1	log10_base_likelihood=-8.28779	log10_qual_likelihood_position_model=7.61995	log10_strand_likelihood_position_model=6.76618	new_cov=7/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=12/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=19/132
RA	599	.	NC_007779	3731041	1	.	T	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=7.747650e-03	genotype_quality=1248.6	ks_quality_p_value=0.999939	log10_base_likelihood=-6.65607	log10_qual_likelihood_position_model=2.70761	log10_strand_likelihood_position_model=0.299448	new_cov=1/1	polymorphism_quality=1.1	quality=1.1	quality_position_model=1.7997e-05	ref_cov=126/130	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/131
RA	600	.	NC_007779	3732310	0	G	T	bias_e_value=0.333746	bias_p_value=7.183e-08	fisher_strand_p_value=3.50941e-09	frequency=1.005630e-01	genotype_quality=711.1	ks_quality_p_value=1	log10_base_likelihood=-21.8341	log10_qual_likelihood_position_model=20.1528	log10_strand_likelihood_position_model=8.64435	new_cov=0/29	polymorphism_quality=16.6	quality=16.6	quality_position_model=Inf	ref_cov=112/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/129
RA	601	.	NC_007779	3741461	0	A	T	bias_e_value=2.88675	bias_p_value=6.21297e-07	fisher_strand_p_value=3.41513e-08	frequency=7.454586e-02	genotype_quality=830.0	ks_quality_p_value=1	log10_base_likelihood=-20.728	log10_qual_likelihood_position_model=23.9582	log10_strand_likelihood_position_model=7.46659	new_cov=19/0	polymorphism_quality=15.4	quality=15.4	quality_position_model=Inf	ref_cov=84/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/138
RA	602	.	NC_007779	3750122	0	C	.	bias_e_value=284454	bias_p_value=0.0612212	fisher_strand_p_value=0.47307	frequency=9.685040e-01	genotype_quality=1198.2	ks_quality_p_value=0.02354	log10_base_likelihood=-38.4402	log10_qual_likelihood_position_model=4.61445	log10_strand_likelihood_position_model=0.76719	new_cov=109/137	polymorphism_quality=33.3	quality=33.3	quality_position_model=2.43831e-35	ref_cov=5/3	tot_cov=114/140
RA	603	.	NC_007779	3750123	0	C	T	bias_e_value=3114180	bias_p_value=0.670245	fisher_strand_p_value=0.47307	frequency=3.143501e-02	genotype_quality=1017.8	ks_quality_p_value=0.650219	log10_base_likelihood=-17.8093	log10_qual_likelihood_position_model=4.5121	log10_strand_likelihood_position_model=0.76719	new_cov=5/3	polymorphism_quality=12.5	quality=12.5	quality_position_model=1.324e-14	ref_cov=109/137	tot_cov=114/140
RA	604	.	NC_007779	3762475	0	T	G	bias_e_value=6.46608e-11	bias_p_value=1.39165e-17	fisher_strand_p_value=3.19272e-19	frequency=1.424246e-01	genotype_quality=727.6	ks_quality_p_value=1	log10_base_likelihood=-23.139	log10_qual_likelihood_position_model=37.2431	log10_strand_likelihood_position_model=18.4958	new_cov=43/0	polymorphism_quality=17.9	quality=17.9	quality_position_model=Inf	ref_cov=62/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/140
RA	605	.	NC_007779	3788380	0	G	T	bias_e_value=95.1446	bias_p_value=2.04774e-05	fisher_strand_p_value=1.41534e-06	frequency=7.146502e-02	genotype_quality=850.2	ks_quality_p_value=1	log10_base_likelihood=-17.4001	log10_qual_likelihood_position_model=19.9252	log10_strand_likelihood_position_model=5.9914	new_cov=0/25	polymorphism_quality=12.1	quality=12.1	quality_position_model=Inf	ref_cov=111/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/163
RA	606	.	NC_007779	3812429	0	G	T	bias_e_value=118.837	bias_p_value=2.55766e-05	fisher_strand_p_value=1.79748e-06	frequency=5.683899e-02	genotype_quality=814.2	ks_quality_p_value=1	log10_base_likelihood=-11.0732	log10_qual_likelihood_position_model=16.5547	log10_strand_likelihood_position_model=6.04637	new_cov=0/19	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=123/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/123
RA	607	.	NC_007779	3813810	0	T	G	bias_e_value=8.89281e-15	bias_p_value=1.91394e-21	fisher_strand_p_value=3.6339e-23	frequency=1.137447e-01	genotype_quality=617.8	ks_quality_p_value=1	log10_base_likelihood=-17.5443	log10_qual_likelihood_position_model=32.1257	log10_strand_likelihood_position_model=22.4396	new_cov=37/0	polymorphism_quality=12.2	quality=12.2	quality_position_model=Inf	ref_cov=27/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=64/135
RA	608	.	NC_007779	3820146	0	T	G	bias_e_value=0.452497	bias_p_value=9.7388e-08	fisher_strand_p_value=4.83372e-09	frequency=5.736017e-02	genotype_quality=651.2	ks_quality_p_value=1	log10_base_likelihood=-5.83976	log10_qual_likelihood_position_model=17.858	log10_strand_likelihood_position_model=8.31572	new_cov=19/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=61/123	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=80/123
RA	609	.	NC_007779	3824606	1	.	T	bias_e_value=4265190	bias_p_value=0.917969	fisher_strand_p_value=1	frequency=8.889198e-03	genotype_quality=1074.5	ks_quality_p_value=0.623338	log10_base_likelihood=-8.31459	log10_qual_likelihood_position_model=1.31575	log10_strand_likelihood_position_model=0.299104	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.20852e-08	ref_cov=112/111	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=113/112
RA	610	.	NC_007779	3824915	0	A	C	bias_e_value=0.0522519	bias_p_value=1.12458e-08	fisher_strand_p_value=5.01758e-10	frequency=6.449652e-02	genotype_quality=621.2	ks_quality_p_value=1	log10_base_likelihood=-6.75919	log10_qual_likelihood_position_model=23.081	log10_strand_likelihood_position_model=9.29951	new_cov=0/26	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=110/73	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/100
RA	611	.	NC_007779	3828029	0	G	T	bias_e_value=0.000766999	bias_p_value=1.65076e-10	fisher_strand_p_value=6.9588e-12	frequency=1.181560e-01	genotype_quality=744.2	ks_quality_p_value=0.884701	log10_base_likelihood=-33.9489	log10_qual_likelihood_position_model=33.8848	log10_strand_likelihood_position_model=11.1575	new_cov=31/0	polymorphism_quality=28.8	quality=28.8	quality_position_model=Inf	ref_cov=83/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/127
RA	612	.	NC_007779	3834679	0	T	G	bias_e_value=2643140	bias_p_value=0.568867	fisher_strand_p_value=1	frequency=7.014275e-03	genotype_quality=1168.9	ks_quality_p_value=0.230573	log10_base_likelihood=-5.74141	log10_qual_likelihood_position_model=2.14774	log10_strand_likelihood_position_model=0.308586	new_cov=1/1	polymorphism_quality=0.2	quality=0.2	quality_position_model=4.36238e-05	ref_cov=162/121	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=163/122
RA	613	.	NC_007779	3841755	1	.	A	bias_e_value=3885320	bias_p_value=0.836212	fisher_strand_p_value=1	frequency=8.064270e-03	genotype_quality=1220.1	ks_quality_p_value=0.485364	log10_base_likelihood=-8.21109	log10_qual_likelihood_position_model=1.19608	log10_strand_likelihood_position_model=0.300661	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.16734e-08	ref_cov=116/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/131
RA	614	.	NC_007779	3841756	0	A	.	bias_e_value=4613930	bias_p_value=0.993026	fisher_strand_p_value=1	frequency=1.586342e-02	genotype_quality=1029.6	ks_quality_p_value=0.88425	log10_base_likelihood=-11.1643	log10_qual_likelihood_position_model=1.54231	log10_strand_likelihood_position_model=0.426038	new_cov=2/2	polymorphism_quality=5.8	quality=5.8	quality_position_model=3.31623e-11	ref_cov=116/132	reject=INDEL_HOMOPOLYMER	tot_cov=118/134
RA	615	.	NC_007779	3843373	1	.	A	bias_e_value=1662770	bias_p_value=0.357867	fisher_strand_p_value=1	frequency=9.433746e-03	genotype_quality=1033.9	ks_quality_p_value=0.112307	log10_base_likelihood=-8.39996	log10_qual_likelihood_position_model=1.16207	log10_strand_likelihood_position_model=0.318099	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=7.17077e-09	ref_cov=127/83	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/84
RA	616	.	NC_007779	3845596	0	G	T	bias_e_value=234.544	bias_p_value=5.04794e-05	fisher_strand_p_value=3.74022e-06	frequency=3.848648e-02	genotype_quality=945.1	ks_quality_p_value=1	log10_base_likelihood=-8.21125	log10_qual_likelihood_position_model=12.7788	log10_strand_likelihood_position_model=5.4271	new_cov=0/15	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=152/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=152/124
RA	617	.	NC_007779	3846240	0	G	C	bias_e_value=3.0508e-09	bias_p_value=6.56605e-16	fisher_strand_p_value=1.65645e-17	frequency=1.381044e-01	genotype_quality=490.5	ks_quality_p_value=1	log10_base_likelihood=-24.4174	log10_qual_likelihood_position_model=19.337	log10_strand_likelihood_position_model=16.7808	new_cov=0/23	polymorphism_quality=19.2	quality=19.2	quality_position_model=Inf	ref_cov=118/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=119/39
RA	618	.	NC_007779	3853538	0	G	T	bias_e_value=31.0193	bias_p_value=6.67608e-06	fisher_strand_p_value=4.26079e-07	frequency=5.760908e-02	genotype_quality=839.0	ks_quality_p_value=1	log10_base_likelihood=-7.5539	log10_qual_likelihood_position_model=17.7592	log10_strand_likelihood_position_model=6.39004	new_cov=0/22	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=124/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/141
RA	619	.	NC_007779	3859254	1	.	T	bias_e_value=67913.6	bias_p_value=0.0146166	fisher_strand_p_value=0.00205931	frequency=2.659607e-02	genotype_quality=876.6	ks_quality_p_value=0.985858	log10_base_likelihood=-22.598	log10_qual_likelihood_position_model=1.72875	log10_strand_likelihood_position_model=2.68628	new_cov=5/0	polymorphism_quality=17.3	quality=17.3	quality_position_model=2.45619e-20	ref_cov=51/132	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=56/132
RA	620	.	NC_007779	3859263	0	T	C	bias_e_value=0.000223193	bias_p_value=4.80364e-11	fisher_strand_p_value=1.70981e-12	frequency=8.089161e-02	genotype_quality=524.4	ks_quality_p_value=1	log10_base_likelihood=-16.5467	log10_qual_likelihood_position_model=16.6869	log10_strand_likelihood_position_model=11.7671	new_cov=16/0	polymorphism_quality=11.2	quality=11.2	quality_position_model=Inf	ref_cov=23/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=39/138
RA	621	.	NC_007779	3859265	0	A	C	bias_e_value=5.93402	bias_p_value=1.27714e-06	fisher_strand_p_value=7.32767e-08	frequency=5.692863e-02	genotype_quality=474.8	ks_quality_p_value=1	log10_base_likelihood=-13.1359	log10_qual_likelihood_position_model=9.64256	log10_strand_likelihood_position_model=7.1422	new_cov=12/1	polymorphism_quality=7.8	quality=7.8	quality_position_model=Inf	ref_cov=29/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=42/135
RA	622	.	NC_007779	3859270	0	G	C	bias_e_value=1982.15	bias_p_value=0.000426605	fisher_strand_p_value=3.81812e-05	frequency=3.393078e-02	genotype_quality=631.1	ks_quality_p_value=1	log10_base_likelihood=-7.36619	log10_qual_likelihood_position_model=7.59722	log10_strand_likelihood_position_model=4.41815	new_cov=6/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=26/131	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=32/131
RA	623	.	NC_007779	3859381	0	T	G	bias_e_value=0.0211194	bias_p_value=4.5454e-09	fisher_strand_p_value=1.94579e-10	frequency=5.252886e-02	genotype_quality=461.4	ks_quality_p_value=1	log10_base_likelihood=-7.04007	log10_qual_likelihood_position_model=14.3754	log10_strand_likelihood_position_model=9.7109	new_cov=0/10	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=127/10	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/20
RA	624	.	NC_007779	3859383	0	A	G	bias_e_value=0.000856959	bias_p_value=1.84438e-10	fisher_strand_p_value=6.90822e-12	frequency=5.843973e-02	genotype_quality=481.8	ks_quality_p_value=1	log10_base_likelihood=-7.15449	log10_qual_likelihood_position_model=14.738	log10_strand_likelihood_position_model=11.1606	new_cov=0/11	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=127/8	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/19
RA	625	.	NC_007779	3873374	1	.	T	bias_e_value=356149	bias_p_value=0.0766516	fisher_strand_p_value=0.247351	frequency=1.239681e-02	genotype_quality=1173.1	ks_quality_p_value=0.0593521	log10_base_likelihood=-12.4912	log10_qual_likelihood_position_model=1.86711	log10_strand_likelihood_position_model=0.876357	new_cov=3/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=9.05163e-12	ref_cov=121/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/118
RA	626	.	NC_007779	3873375	0	T	.	bias_e_value=4638230	bias_p_value=0.998256	fisher_strand_p_value=1	frequency=1.637745e-02	genotype_quality=970.3	ks_quality_p_value=0.941533	log10_base_likelihood=-10.813	log10_qual_likelihood_position_model=4.19483	log10_strand_likelihood_position_model=0.422622	new_cov=2/2	polymorphism_quality=5.4	quality=5.4	quality_position_model=4.00349e-08	ref_cov=122/118	reject=INDEL_HOMOPOLYMER	tot_cov=124/120
RA	627	.	NC_007779	3891224	0	G	C	bias_e_value=92.1374	bias_p_value=1.98301e-05	fisher_strand_p_value=1.36735e-06	frequency=5.323362e-02	genotype_quality=633.9	ks_quality_p_value=1	log10_base_likelihood=-9.59604	log10_qual_likelihood_position_model=10.2503	log10_strand_likelihood_position_model=5.86412	new_cov=0/10	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=124/38	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/48
RA	628	.	NC_007779	3895373	0	T	G	bias_e_value=4.49206e-09	bias_p_value=9.66797e-16	fisher_strand_p_value=2.46366e-17	frequency=1.305847e-01	genotype_quality=538.0	ks_quality_p_value=1	log10_base_likelihood=-18.2421	log10_qual_likelihood_position_model=35.0784	log10_strand_likelihood_position_model=16.6084	new_cov=41/0	polymorphism_quality=12.9	quality=12.9	quality_position_model=Inf	ref_cov=53/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=94/112
RA	629	.	NC_007779	3898657	0	C	G	frequency=1	genotype_quality=1022.0	new_cov=120/116	quality=1022.0	ref_cov=0/0	tot_cov=120/116
RA	630	.	NC_007779	3898897	0	G	T	bias_e_value=1.27282	bias_p_value=2.73941e-07	fisher_strand_p_value=1.43742e-08	frequency=5.202818e-02	genotype_quality=625.6	ks_quality_p_value=1	log10_base_likelihood=-11.9073	log10_qual_likelihood_position_model=13.6756	log10_strand_likelihood_position_model=7.84242	new_cov=9/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=16/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=25/134
RA	631	.	NC_007779	3900676	1	.	G	bias_e_value=264039	bias_p_value=0.0568274	fisher_strand_p_value=0.0117157	frequency=2.262402e-02	genotype_quality=1070.3	ks_quality_p_value=0.867958	log10_base_likelihood=-22.8915	log10_qual_likelihood_position_model=2.2808	log10_strand_likelihood_position_model=1.93123	new_cov=5/0	polymorphism_quality=17.6	quality=17.6	quality_position_model=7.72754e-21	ref_cov=87/129	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=92/129
RA	632	.	NC_007779	3900680	0	T	G	bias_e_value=0.00385723	bias_p_value=8.30167e-10	fisher_strand_p_value=3.30302e-11	frequency=4.915428e-02	genotype_quality=546.3	ks_quality_p_value=1	log10_base_likelihood=-7.70104	log10_qual_likelihood_position_model=13.0044	log10_strand_likelihood_position_model=10.4811	new_cov=9/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=5/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=15/131
RA	633	.	NC_007779	3910746	0	C	A	bias_e_value=172.287	bias_p_value=3.70802e-05	fisher_strand_p_value=2.68129e-06	frequency=5.421734e-02	genotype_quality=912.8	ks_quality_p_value=1	log10_base_likelihood=-8.49598	log10_qual_likelihood_position_model=20.1928	log10_strand_likelihood_position_model=5.63015	new_cov=23/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=152/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=175/124
RA	634	.	NC_007779	3923192	0	A	C	bias_e_value=343.017	bias_p_value=7.38253e-05	fisher_strand_p_value=5.64185e-06	frequency=3.982830e-02	genotype_quality=791.1	ks_quality_p_value=1	log10_base_likelihood=-10.2216	log10_qual_likelihood_position_model=21.2287	log10_strand_likelihood_position_model=5.24858	new_cov=0/16	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=120/98	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=120/114
RA	635	.	NC_007779	3930443	0	T	G	bias_e_value=9.5335e-12	bias_p_value=2.05183e-18	fisher_strand_p_value=4.50492e-20	frequency=7.681274e-02	genotype_quality=637.5	ks_quality_p_value=1	log10_base_likelihood=-6.87076	log10_qual_likelihood_position_model=31.6924	log10_strand_likelihood_position_model=19.3463	new_cov=35/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=35/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=70/133
RA	636	.	NC_007779	3936942	0	A	C	bias_e_value=0.00380888	bias_p_value=8.19761e-10	fisher_strand_p_value=3.25991e-11	frequency=6.781244e-02	genotype_quality=747.2	ks_quality_p_value=1	log10_base_likelihood=-11.2738	log10_qual_likelihood_position_model=25.3571	log10_strand_likelihood_position_model=10.6081	new_cov=0/37	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=120/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/148
RA	637	.	NC_007779	3952095	1	.	G	bias_e_value=318369	bias_p_value=0.0685206	fisher_strand_p_value=0.0138499	frequency=2.325535e-02	genotype_quality=825.9	ks_quality_p_value=0.923106	log10_base_likelihood=-18.1339	log10_qual_likelihood_position_model=1.68376	log10_strand_likelihood_position_model=1.85855	new_cov=4/0	polymorphism_quality=12.8	quality=12.8	quality_position_model=1.06715e-16	ref_cov=56/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=60/112
RA	638	.	NC_007779	3952099	0	T	G	bias_e_value=4000.96	bias_p_value=0.0008611	fisher_strand_p_value=8.28451e-05	frequency=2.882576e-02	genotype_quality=508.1	ks_quality_p_value=0.999527	log10_base_likelihood=-6.4286	log10_qual_likelihood_position_model=6.78114	log10_strand_likelihood_position_model=4.08173	new_cov=4/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=10/118	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=14/118
RA	639	.	NC_007779	3962968	0	A	C	bias_e_value=0.00180779	bias_p_value=3.89078e-10	fisher_strand_p_value=1.50094e-11	frequency=7.045937e-02	genotype_quality=661.3	ks_quality_p_value=1	log10_base_likelihood=-7.96927	log10_qual_likelihood_position_model=23.9105	log10_strand_likelihood_position_model=11.1247	new_cov=0/33	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=113/80	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/114
RA	640	.	NC_007779	3986830	0	T	.	bias_e_value=2355920	bias_p_value=0.50705	fisher_strand_p_value=0.579438	frequency=1.320457e-02	genotype_quality=914.1	ks_quality_p_value=0.329477	log10_base_likelihood=-7.96024	log10_qual_likelihood_position_model=1.96558	log10_strand_likelihood_position_model=0.496608	new_cov=1/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.10973e-07	ref_cov=128/96	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/98
RA	641	.	NC_007779	3989734	1	.	G	bias_e_value=3534860	bias_p_value=0.760785	fisher_strand_p_value=0.500123	frequency=7.379532e-03	genotype_quality=1330.5	ks_quality_p_value=0.787403	log10_base_likelihood=-8.40714	log10_qual_likelihood_position_model=0.922722	log10_strand_likelihood_position_model=0.550635	new_cov=0/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=6.93684e-09	ref_cov=127/142	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/144
RA	642	.	NC_007779	4010407	0	C	A	bias_e_value=65.9123	bias_p_value=1.41859e-05	fisher_strand_p_value=9.5703e-07	frequency=5.250549e-02	genotype_quality=656.4	ks_quality_p_value=0.997359	log10_base_likelihood=-10.4761	log10_qual_likelihood_position_model=13.4577	log10_strand_likelihood_position_model=6.01907	new_cov=0/11	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=131/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=131/57
RA	643	.	NC_007779	4023064	1	.	G	bias_e_value=1147380	bias_p_value=0.246944	fisher_strand_p_value=0.0718405	frequency=1.675987e-02	genotype_quality=866.9	ks_quality_p_value=0.926649	log10_base_likelihood=-13.2442	log10_qual_likelihood_position_model=2.05297	log10_strand_likelihood_position_model=1.14363	new_cov=3/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=4.47246e-12	ref_cov=72/104	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=75/104
RA	644	.	NC_007779	4029633	0	T	G	bias_e_value=0.0644759	bias_p_value=1.38767e-08	fisher_strand_p_value=6.2528e-10	frequency=5.114126e-02	genotype_quality=568.0	ks_quality_p_value=1	log10_base_likelihood=-8.99787	log10_qual_likelihood_position_model=18.4863	log10_strand_likelihood_position_model=9.20393	new_cov=15/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=29/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=44/114
RA	645	.	NC_007779	4037745	0	G	T	bias_e_value=11.2341	bias_p_value=2.41785e-06	fisher_strand_p_value=1.4434e-07	frequency=5.698776e-02	genotype_quality=818.6	ks_quality_p_value=1	log10_base_likelihood=-9.92273	log10_qual_likelihood_position_model=16.7129	log10_strand_likelihood_position_model=6.84061	new_cov=0/19	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=134/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/113
RA	646	.	NC_007779	4055100	0	G	T	bias_e_value=2.54515e-05	bias_p_value=5.47777e-12	fisher_strand_p_value=1.81664e-13	frequency=1.138587e-01	genotype_quality=659.9	ks_quality_p_value=0.993753	log10_base_likelihood=-35.6399	log10_qual_likelihood_position_model=27.1575	log10_strand_likelihood_position_model=12.7407	new_cov=24/0	polymorphism_quality=30.5	quality=30.5	quality_position_model=Inf	ref_cov=44/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=68/134
RA	647	.	NC_007779	4055329	0	T	G	bias_e_value=1.66969e-13	bias_p_value=3.59356e-20	fisher_strand_p_value=7.23369e-22	frequency=1.028042e-01	genotype_quality=669.5	ks_quality_p_value=1	log10_base_likelihood=-22.6041	log10_qual_likelihood_position_model=28.4256	log10_strand_likelihood_position_model=21.1406	new_cov=26/0	polymorphism_quality=17.3	quality=17.3	quality_position_model=Inf	ref_cov=16/156	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=42/156
RA	648	.	NC_007779	4059484	1	.	T	bias_e_value=1778860	bias_p_value=0.382853	fisher_strand_p_value=0.618821	frequency=1.234531e-02	genotype_quality=1163.4	ks_quality_p_value=0.200386	log10_base_likelihood=-13.1348	log10_qual_likelihood_position_model=2.28914	log10_strand_likelihood_position_model=0.429684	new_cov=1/2	polymorphism_quality=7.8	quality=7.8	quality_position_model=1.88214e-12	ref_cov=122/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/120
RA	649	.	NC_007779	4062114	0	T	G	bias_e_value=3.485e-21	bias_p_value=7.50053e-28	fisher_strand_p_value=1.10836e-29	frequency=1.533566e-01	genotype_quality=576.2	ks_quality_p_value=1	log10_base_likelihood=-27.2962	log10_qual_likelihood_position_model=39.2069	log10_strand_likelihood_position_model=28.9553	new_cov=42/0	polymorphism_quality=22.1	quality=22.1	quality_position_model=Inf	ref_cov=16/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=58/136
RA	650	.	NC_007779	4064463	0	G	T	bias_e_value=926.522	bias_p_value=0.000199409	fisher_strand_p_value=1.74374e-05	frequency=4.259300e-02	genotype_quality=826.6	ks_quality_p_value=0.952538	log10_base_likelihood=-6.49796	log10_qual_likelihood_position_model=14.8294	log10_strand_likelihood_position_model=4.75852	new_cov=0/15	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=129/112	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/129
RA	651	.	NC_007779	4065564	0	C	G	bias_e_value=685.789	bias_p_value=0.000147598	fisher_strand_p_value=1.19674e-05	frequency=3.916740e-02	genotype_quality=845.8	ks_quality_p_value=1	log10_base_likelihood=-7.78279	log10_qual_likelihood_position_model=10.6736	log10_strand_likelihood_position_model=4.922	new_cov=11/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=74/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=85/144
RA	652	.	NC_007779	4074542	0	C	A	bias_e_value=1.07777	bias_p_value=2.31962e-07	fisher_strand_p_value=1.21592e-08	frequency=6.425333e-02	genotype_quality=669.6	ks_quality_p_value=0.99187	log10_base_likelihood=-9.65139	log10_qual_likelihood_position_model=19.8222	log10_strand_likelihood_position_model=7.91509	new_cov=0/16	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=128/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/68
RA	653	.	NC_007779	4076934	0	A	C	bias_e_value=1.44265e-05	bias_p_value=3.10491e-12	fisher_strand_p_value=1.00386e-13	frequency=1.329460e-01	genotype_quality=582.3	ks_quality_p_value=1	log10_base_likelihood=-18.6813	log10_qual_likelihood_position_model=25.905	log10_strand_likelihood_position_model=12.9983	new_cov=0/34	polymorphism_quality=13.4	quality=13.4	quality_position_model=Inf	ref_cov=111/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/97
RA	654	.	NC_007779	4078140	0	C	G	bias_e_value=0.779578	bias_p_value=1.67783e-07	fisher_strand_p_value=8.59723e-09	frequency=5.367661e-02	genotype_quality=722.7	ks_quality_p_value=0.996994	log10_base_likelihood=-8.79816	log10_qual_likelihood_position_model=16.6739	log10_strand_likelihood_position_model=8.06564	new_cov=14/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=44/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=58/142
RA	655	.	NC_007779	4084209	0	A	G	bias_e_value=0.00287467	bias_p_value=6.18696e-10	fisher_strand_p_value=2.43201e-11	frequency=6.393290e-02	genotype_quality=730.5	ks_quality_p_value=1	log10_base_likelihood=-6.61974	log10_qual_likelihood_position_model=17.3507	log10_strand_likelihood_position_model=10.614	new_cov=23/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=66/147	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=89/147
RA	656	.	NC_007779	4090749	0	A	T	frequency=1	genotype_quality=1001.4	new_cov=119/131	quality=1001.4	ref_cov=0/0	tot_cov=119/131
RA	657	.	NC_007779	4098730	0	G	T	bias_e_value=573.33	bias_p_value=0.000123394	fisher_strand_p_value=9.84939e-06	frequency=4.225349e-02	genotype_quality=806.0	ks_quality_p_value=1	log10_base_likelihood=-10.3066	log10_qual_likelihood_position_model=11.1886	log10_strand_likelihood_position_model=5.00659	new_cov=0/14	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=136/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/113
RA	658	.	NC_007779	4128670	0	T	.	bias_e_value=4646200	bias_p_value=0.999972	fisher_strand_p_value=1	frequency=1.729584e-02	genotype_quality=895.7	ks_quality_p_value=0.992552	log10_base_likelihood=-10.2642	log10_qual_likelihood_position_model=4.5232	log10_strand_likelihood_position_model=0.4222	new_cov=2/2	polymorphism_quality=4.8	quality=4.8	quality_position_model=3.23731e-07	ref_cov=114/113	reject=INDEL_HOMOPOLYMER	tot_cov=116/115
RA	659	.	NC_007779	4147451	0	C	A	bias_e_value=168.566	bias_p_value=3.62795e-05	fisher_strand_p_value=2.61894e-06	frequency=3.456402e-02	genotype_quality=895.5	ks_quality_p_value=1	log10_base_likelihood=-5.85377	log10_qual_likelihood_position_model=15.816	log10_strand_likelihood_position_model=5.58188	new_cov=16/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=106/141	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/141
RA	660	.	NC_007779	4148399	0	A	C	bias_e_value=3.25672e-14	bias_p_value=7.00923e-21	fisher_strand_p_value=1.36511e-22	frequency=1.714349e-01	genotype_quality=569.0	ks_quality_p_value=1	log10_base_likelihood=-27.2567	log10_qual_likelihood_position_model=35.8644	log10_strand_likelihood_position_model=21.8648	new_cov=0/47	polymorphism_quality=22.0	quality=22.0	quality_position_model=Inf	ref_cov=117/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/86
RA	661	.	NC_007779	4165991	0	A	C	frequency=1	genotype_quality=1348.6	new_cov=164/149	quality=1348.6	ref_cov=0/0	tot_cov=164/149
RA	662	.	NC_007779	4174729	1	.	T	bias_e_value=4646320	bias_p_value=0.999997	fisher_strand_p_value=1	frequency=8.162498e-03	genotype_quality=1192.8	ks_quality_p_value=0.997584	log10_base_likelihood=-7.7512	log10_qual_likelihood_position_model=2.9984	log10_strand_likelihood_position_model=0.29984	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=2.58082e-06	ref_cov=126/117	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/118
RA	663	.	NC_007779	4197139	0	T	G	bias_e_value=2.45159e-07	bias_p_value=5.27639e-14	fisher_strand_p_value=1.50187e-15	frequency=9.437799e-02	genotype_quality=593.9	ks_quality_p_value=1	log10_base_likelihood=-27.9636	log10_qual_likelihood_position_model=21.091	log10_strand_likelihood_position_model=14.8234	new_cov=18/0	polymorphism_quality=22.8	quality=22.8	quality_position_model=Inf	ref_cov=15/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=33/135
RA	664	.	NC_007779	4220019	0	A	C	bias_e_value=1.57092e-11	bias_p_value=3.381e-18	fisher_strand_p_value=7.50736e-20	frequency=1.260438e-01	genotype_quality=747.4	ks_quality_p_value=1	log10_base_likelihood=-22.4936	log10_qual_likelihood_position_model=47.3008	log10_strand_likelihood_position_model=19.1245	new_cov=0/50	polymorphism_quality=17.2	quality=17.2	quality_position_model=Inf	ref_cov=137/73	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/123
RA	665	.	NC_007779	4227183	0	T	G	bias_e_value=5.74813e-17	bias_p_value=1.23713e-23	fisher_strand_p_value=2.14023e-25	frequency=1.010447e-01	genotype_quality=790.3	ks_quality_p_value=1	log10_base_likelihood=-16.9432	log10_qual_likelihood_position_model=39.0435	log10_strand_likelihood_position_model=24.6695	new_cov=51/0	polymorphism_quality=11.6	quality=11.6	quality_position_model=Inf	ref_cov=55/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/162
RA	666	.	NC_007779	4272070	1	.	T	bias_e_value=1277950	bias_p_value=0.275045	fisher_strand_p_value=0.163787	frequency=8.546829e-03	genotype_quality=1148.1	ks_quality_p_value=0.471601	log10_base_likelihood=-7.9786	log10_qual_likelihood_position_model=1.56572	log10_strand_likelihood_position_model=0.78572	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.5503e-07	ref_cov=93/139	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=95/139
RA	667	.	NC_007779	4309615	0	C	G	bias_e_value=31.2463	bias_p_value=6.72493e-06	fisher_strand_p_value=4.2941e-07	frequency=5.195379e-02	genotype_quality=653.3	ks_quality_p_value=1	log10_base_likelihood=-6.18176	log10_qual_likelihood_position_model=11.7866	log10_strand_likelihood_position_model=6.36713	new_cov=13/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=53/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=66/125
RA	668	.	NC_007779	4311992	0	G	C	bias_e_value=157.921	bias_p_value=3.39883e-05	fisher_strand_p_value=2.4642e-06	frequency=3.696156e-02	genotype_quality=527.8	ks_quality_p_value=0.990646	log10_base_likelihood=-8.29795	log10_qual_likelihood_position_model=5.55281	log10_strand_likelihood_position_model=5.60832	new_cov=0/5	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=121/7	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=121/12
RA	669	.	NC_007779	4312218	0	T	G	bias_e_value=2.93823e-08	bias_p_value=6.32376e-15	fisher_strand_p_value=1.69475e-16	frequency=1.018372e-01	genotype_quality=759.4	ks_quality_p_value=1	log10_base_likelihood=-14.3323	log10_qual_likelihood_position_model=40.9221	log10_strand_likelihood_position_model=15.7709	new_cov=44/0	polymorphism_quality=9.0	quality=9.0	quality_position_model=Inf	ref_cov=80/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/130
RA	670	.	NC_007779	4318988	0	A	G	bias_e_value=5103.59	bias_p_value=0.00109841	fisher_strand_p_value=0.000108439	frequency=2.547455e-02	genotype_quality=564.8	ks_quality_p_value=1	log10_base_likelihood=-5.72341	log10_qual_likelihood_position_model=4.55181	log10_strand_likelihood_position_model=3.96482	new_cov=0/4	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=136/13	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/17
RA	671	.	NC_007779	4321435	0	G	C	bias_e_value=169.224	bias_p_value=3.6421e-05	fisher_strand_p_value=2.63845e-06	frequency=4.776907e-02	genotype_quality=500.5	ks_quality_p_value=0.996778	log10_base_likelihood=-12.0322	log10_qual_likelihood_position_model=7.23987	log10_strand_likelihood_position_model=5.57865	new_cov=6/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=11/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=17/108
RA	672	.	NC_007779	4337469	0	A	C	bias_e_value=1.35631e-13	bias_p_value=2.91911e-20	fisher_strand_p_value=5.85106e-22	frequency=2.359285e-01	genotype_quality=406.0	ks_quality_p_value=1	log10_base_likelihood=-32.51	log10_qual_likelihood_position_model=39.4183	log10_strand_likelihood_position_model=21.2328	new_cov=0/46	polymorphism_quality=27.3	quality=27.3	quality_position_model=Inf	ref_cov=89/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=89/72
RA	673	.	NC_007779	4346532	0	G	T	bias_e_value=12.0061	bias_p_value=2.58399e-06	fisher_strand_p_value=1.54911e-07	frequency=4.712915e-02	genotype_quality=873.8	ks_quality_p_value=1	log10_base_likelihood=-7.84164	log10_qual_likelihood_position_model=21.8151	log10_strand_likelihood_position_model=6.80992	new_cov=0/18	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=138/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/108
RA	674	.	NC_007779	4348529	0	T	G	bias_e_value=5.25471e-12	bias_p_value=1.13094e-18	fisher_strand_p_value=2.45028e-20	frequency=1.636615e-01	genotype_quality=562.9	ks_quality_p_value=1	log10_base_likelihood=-22.3641	log10_qual_likelihood_position_model=40.5357	log10_strand_likelihood_position_model=19.6108	new_cov=46/0	polymorphism_quality=17.1	quality=17.1	quality_position_model=Inf	ref_cov=46/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=92/113
RA	675	.	NC_007779	4371271	0	A	.	frequency=1	genotype_quality=1072.4	new_cov=109/106	quality=1072.4	ref_cov=1/0	tot_cov=110/106
RA	676	.	NC_007779	4371272	0	A	.	frequency=1	genotype_quality=1074.7	new_cov=109/106	quality=1074.7	ref_cov=0/0	tot_cov=110/106
RA	677	.	NC_007779	4414725	0	T	.	bias_e_value=4546260	bias_p_value=0.978463	fisher_strand_p_value=1	frequency=2.099800e-02	genotype_quality=928.3	ks_quality_p_value=0.799766	log10_base_likelihood=-14.3023	log10_qual_likelihood_position_model=3.08183	log10_strand_likelihood_position_model=0.458199	new_cov=2/3	polymorphism_quality=8.9	quality=8.9	quality_position_model=8.34669e-13	ref_cov=89/144	reject=INDEL_HOMOPOLYMER	tot_cov=91/147
RA	678	.	NC_007779	4419586	0	T	G	bias_e_value=3.36899e-16	bias_p_value=7.25087e-23	fisher_strand_p_value=1.29471e-24	frequency=2.187824e-01	genotype_quality=593.2	ks_quality_p_value=1	log10_base_likelihood=-41.1238	log10_qual_likelihood_position_model=40.1263	log10_strand_likelihood_position_model=23.8878	new_cov=58/0	polymorphism_quality=36.0	quality=36.0	quality_position_model=Inf	ref_cov=52/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=110/125
RA	679	.	NC_007779	4423035	1	.	G	bias_e_value=2685010	bias_p_value=0.577877	fisher_strand_p_value=0.249066	frequency=1.244831e-02	genotype_quality=1182.0	ks_quality_p_value=0.950631	log10_base_likelihood=-12.6156	log10_qual_likelihood_position_model=1.5458	log10_strand_likelihood_position_model=0.839542	new_cov=3/0	polymorphism_quality=7.2	quality=7.2	quality_position_model=2.91158e-12	ref_cov=124/114	reject=POLYMORPHISM_STRAND	tot_cov=127/114
RA	680	.	NC_007779	4423038	0	C	G	bias_e_value=0.0900927	bias_p_value=1.93901e-08	fisher_strand_p_value=8.87728e-10	frequency=8.049297e-02	genotype_quality=572.0	ks_quality_p_value=1	log10_base_likelihood=-9.53982	log10_qual_likelihood_position_model=15.4695	log10_strand_likelihood_position_model=9.05172	new_cov=16/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=34/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=50/113
RA	681	.	NC_007779	4429120	0	G	T	bias_e_value=23.0818	bias_p_value=4.96774e-06	fisher_strand_p_value=3.44753e-07	frequency=5.121517e-02	genotype_quality=905.1	ks_quality_p_value=0.901492	log10_base_likelihood=-10.9583	log10_qual_likelihood_position_model=22.1099	log10_strand_likelihood_position_model=6.46249	new_cov=0/18	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=147/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/123
RA	682	.	NC_007779	4454426	0	T	C	bias_e_value=901210	bias_p_value=0.193962	fisher_strand_p_value=0.101621	frequency=1.418209e-02	genotype_quality=829.7	ks_quality_p_value=0.473013	log10_base_likelihood=-6.42799	log10_qual_likelihood_position_model=1.96464	log10_strand_likelihood_position_model=0.993015	new_cov=0/3	polymorphism_quality=0.9	quality=0.9	quality_position_model=2.77804e-05	ref_cov=112/96	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=112/99
RA	683	.	NC_007779	4455463	0	T	G	bias_e_value=1.78999e-09	bias_p_value=3.85248e-16	fisher_strand_p_value=9.58659e-18	frequency=6.771708e-02	genotype_quality=745.9	ks_quality_p_value=1	log10_base_likelihood=-12.26	log10_qual_likelihood_position_model=27.1248	log10_strand_likelihood_position_model=17.0183	new_cov=24/0	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=29/168	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=53/168
RA	684	.	NC_007779	4484644	1	.	T	bias_e_value=3862230	bias_p_value=0.831244	fisher_strand_p_value=0.510718	frequency=6.689072e-03	genotype_quality=1470.0	ks_quality_p_value=0.937027	log10_base_likelihood=-8.08068	log10_qual_likelihood_position_model=1.38498	log10_strand_likelihood_position_model=0.476313	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.78287e-08	ref_cov=171/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=173/126
RA	685	.	NC_007779	4484848	0	T	.	bias_e_value=2802250	bias_p_value=0.603111	fisher_strand_p_value=0.272582	frequency=1.055527e-02	genotype_quality=1147.6	ks_quality_p_value=0.934573	log10_base_likelihood=-7.97903	log10_qual_likelihood_position_model=1.78116	log10_strand_likelihood_position_model=0.68722	new_cov=3/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.0472e-07	ref_cov=165/116	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=168/116
RA	686	.	NC_007779	4512837	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	687	.	NC_007779	4512838	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	688	.	NC_007779	4512839	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	689	.	NC_007779	4512840	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	690	.	NC_007779	4512841	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	691	.	NC_007779	4512842	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	692	.	NC_007779	4512845	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	693	.	NC_007779	4512846	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	694	.	NC_007779	4512848	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	695	.	NC_007779	4512849	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	696	.	NC_007779	4512850	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	697	.	NC_007779	4512851	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	698	.	NC_007779	4512852	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	699	.	NC_007779	4512854	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	700	.	NC_007779	4512856	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	701	.	NC_007779	4512857	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	702	.	NC_007779	4512858	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	703	.	NC_007779	4512859	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	704	.	NC_007779	4512860	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	705	.	NC_007779	4512861	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	706	.	NC_007779	4512862	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	707	.	NC_007779	4512863	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	708	.	NC_007779	4512864	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	709	.	NC_007779	4512865	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	710	.	NC_007779	4512867	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	711	.	NC_007779	4512869	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	712	.	NC_007779	4512870	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	713	.	NC_007779	4512872	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	714	.	NC_007779	4512873	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	715	.	NC_007779	4515413	0	T	G	bias_e_value=1.23805e-11	bias_p_value=2.66458e-18	fisher_strand_p_value=5.88476e-20	frequency=9.816647e-02	genotype_quality=684.9	ks_quality_p_value=1	log10_base_likelihood=-15.5909	log10_qual_likelihood_position_model=33.7553	log10_strand_likelihood_position_model=19.2303	new_cov=35/0	polymorphism_quality=10.3	quality=10.3	quality_position_model=Inf	ref_cov=39/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=75/142
RA	716	.	NC_007779	4516697	0	T	G	bias_e_value=117.829	bias_p_value=2.53595e-05	fisher_strand_p_value=1.78108e-06	frequency=6.375647e-02	genotype_quality=560.4	ks_quality_p_value=1	log10_base_likelihood=-5.81781	log10_qual_likelihood_position_model=17.2814	log10_strand_likelihood_position_model=5.87048	new_cov=21/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=90/91	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/91
RA	717	.	NC_007779	4540870	0	T	G	bias_e_value=7.12929e-29	bias_p_value=1.53439e-35	fisher_strand_p_value=1.79226e-37	frequency=1.862397e-01	genotype_quality=644.8	ks_quality_p_value=1	log10_base_likelihood=-31.54	log10_qual_likelihood_position_model=47.9536	log10_strand_likelihood_position_model=36.7466	new_cov=64/0	polymorphism_quality=26.4	quality=26.4	quality_position_model=Inf	ref_cov=26/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=91/150
RA	718	.	NC_007779	4540877	0	A	T	bias_e_value=5.43759e-16	bias_p_value=1.1703e-22	fisher_strand_p_value=2.10803e-24	frequency=1.666756e-01	genotype_quality=759.5	ks_quality_p_value=1	log10_base_likelihood=-36.9545	log10_qual_likelihood_position_model=36.7211	log10_strand_likelihood_position_model=23.6761	new_cov=41/0	polymorphism_quality=31.8	quality=31.8	quality_position_model=Inf	ref_cov=36/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=77/154
RA	719	.	NC_007779	4540892	0	T	A	bias_e_value=3.93753	bias_p_value=8.47448e-07	fisher_strand_p_value=4.74394e-08	frequency=5.150652e-02	genotype_quality=851.1	ks_quality_p_value=1	log10_base_likelihood=-9.45244	log10_qual_likelihood_position_model=17.2977	log10_strand_likelihood_position_model=7.32386	new_cov=16/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=73/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=89/152
RA	720	.	NC_007779	4541066	0	C	G	bias_e_value=1799.12	bias_p_value=0.000387212	fisher_strand_p_value=3.47744e-05	frequency=5.191278e-02	genotype_quality=563.9	ks_quality_p_value=0.987185	log10_base_likelihood=-8.86447	log10_qual_likelihood_position_model=11.0422	log10_strand_likelihood_position_model=4.45874	new_cov=0/9	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=102/43	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/52
RA	721	.	NC_007779	4542789	0	A	C	bias_e_value=3.49642e-07	bias_p_value=7.52511e-14	fisher_strand_p_value=2.16446e-15	frequency=9.718084e-02	genotype_quality=798.8	ks_quality_p_value=1	log10_base_likelihood=-9.83988	log10_qual_likelihood_position_model=30.5626	log10_strand_likelihood_position_model=14.6646	new_cov=0/39	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=142/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=142/123
RA	722	.	NC_007779	4546535	0	T	A	frequency=1	genotype_quality=1042.8	new_cov=135/118	quality=1042.8	ref_cov=0/0	tot_cov=135/118
RA	723	.	NC_007779	4554532	0	T	C	bias_e_value=39.3096	bias_p_value=8.46036e-06	fisher_strand_p_value=5.58408e-07	frequency=4.771805e-02	genotype_quality=530.1	ks_quality_p_value=0.982833	log10_base_likelihood=-7.31473	log10_qual_likelihood_position_model=12.6777	log10_strand_likelihood_position_model=6.25305	new_cov=10/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=35/130	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=45/130
RA	724	.	NC_007779	4554534	0	A	C	bias_e_value=538454	bias_p_value=0.115888	fisher_strand_p_value=0.0246391	frequency=4.965496e-02	genotype_quality=483.0	ks_quality_p_value=1	log10_base_likelihood=-7.26798	log10_qual_likelihood_position_model=16.9535	log10_strand_likelihood_position_model=1.78366	new_cov=9/8	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=42/121	reject=EVALUE,SURROUNDING_HOMOPOLYMER	tot_cov=51/130
RA	725	.	NC_007779	4573184	0	T	G	bias_e_value=2.08364e-16	bias_p_value=4.48448e-23	fisher_strand_p_value=7.93813e-25	frequency=1.143937e-01	genotype_quality=817.7	ks_quality_p_value=1	log10_base_likelihood=-17.6062	log10_qual_likelihood_position_model=38.8532	log10_strand_likelihood_position_model=24.1003	new_cov=60/0	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=76/159	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/159
RA	726	.	NC_007779	4610781	0	A	C	bias_e_value=0.0169822	bias_p_value=3.65496e-09	fisher_strand_p_value=1.54951e-10	frequency=5.639362e-02	genotype_quality=744.5	ks_quality_p_value=1	log10_base_likelihood=-12.8173	log10_qual_likelihood_position_model=24.5062	log10_strand_likelihood_position_model=9.80981	new_cov=0/23	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=138/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/95
RA	727	.	NC_007779	4622730	0	G	T	bias_e_value=179.566	bias_p_value=3.86469e-05	fisher_strand_p_value=3.12237e-06	frequency=4.012871e-02	genotype_quality=1030.3	ks_quality_p_value=0.897917	log10_base_likelihood=-8.17906	log10_qual_likelihood_position_model=23.8756	log10_strand_likelihood_position_model=5.56974	new_cov=0/19	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=157/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=157/173
RA	728	.	NC_007779	4635770	0	G	T	bias_e_value=1246.74	bias_p_value=0.000268329	fisher_strand_p_value=2.29708e-05	frequency=4.617310e-02	genotype_quality=700.1	ks_quality_p_value=1	log10_base_likelihood=-7.31057	log10_qual_likelihood_position_model=12.2026	log10_strand_likelihood_position_model=4.72914	new_cov=0/18	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=110/123	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/141
RA	729	.	NC_007779	4636470	0	C	G	bias_e_value=4.60131e-18	bias_p_value=9.9031e-25	fisher_strand_p_value=1.64034e-26	frequency=2.472687e-01	genotype_quality=478.7	ks_quality_p_value=1	log10_base_likelihood=-73.5418	log10_qual_likelihood_position_model=31.9814	log10_strand_likelihood_position_model=25.7851	new_cov=44/0	polymorphism_quality=68.5	quality=68.5	quality_position_model=6.72899e-18	ref_cov=19/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=63/111
RA	730	.	NC_007779	4639643	1	.	G	bias_e_value=1506300	bias_p_value=0.32419	fisher_strand_p_value=0.137087	frequency=1.162815e-02	genotype_quality=842.7	ks_quality_p_value=0.71035	log10_base_likelihood=-8.65541	log10_qual_likelihood_position_model=0.912222	log10_strand_likelihood_position_model=0.863004	new_cov=2/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=7.87687e-09	ref_cov=62/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=64/108
RA	731	.	NC_007779	4642414	1	.	A	bias_e_value=4412090	bias_p_value=0.949585	fisher_strand_p_value=1	frequency=8.264542e-03	genotype_quality=1161.5	ks_quality_p_value=0.699755	log10_base_likelihood=-7.79074	log10_qual_likelihood_position_model=2.26068	log10_strand_likelihood_position_model=0.299261	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=3.99544e-07	ref_cov=121/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/120
RA	732	.	NC_007779	4644244	1	.	T	bias_e_value=4224450	bias_p_value=0.909201	fisher_strand_p_value=1	frequency=7.352829e-03	genotype_quality=1308.1	ks_quality_p_value=0.605343	log10_base_likelihood=-8.14131	log10_qual_likelihood_position_model=1.4539	log10_strand_likelihood_position_model=0.321094	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=2.66761e-08	ref_cov=165/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=166/106
RA	733	.	NC_007779	4644245	0	T	.	bias_e_value=4395700	bias_p_value=0.946059	fisher_strand_p_value=1	frequency=1.070499e-02	genotype_quality=1087.3	ks_quality_p_value=0.690066	log10_base_likelihood=-7.90922	log10_qual_likelihood_position_model=2.30132	log10_strand_likelihood_position_model=0.362965	new_cov=2/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=3.86259e-07	ref_cov=165/111	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=168/112
MC	734	.	NC_007779	274733	371972	0	0	left_inside_cov=0	left_outside_cov=223	right_inside_cov=0	right_outside_cov=219
MC	735	.	NC_007779	654214	655412	1194	0	left_inside_cov=0	left_outside_cov=254	right_inside_cov=0	right_outside_cov=255
MC	736	.	NC_007779	1288283	1288522	118	63	left_inside_cov=175	left_outside_cov=182	right_inside_cov=178	right_outside_cov=184
MC	737	.	NC_007779	1301041	1302376	1326	0	left_inside_cov=0	left_outside_cov=227	right_inside_cov=0	right_outside_cov=227
MC	738	.	NC_007779	1413639	1436698	0	0	left_inside_cov=0	left_outside_cov=278	right_inside_cov=0	right_outside_cov=275
MC	739	.	NC_007779	2176983	2178208	1198	0	left_inside_cov=0	left_outside_cov=313	right_inside_cov=0	right_outside_cov=332
MC	740	.	NC_007779	2320795	2322130	1330	0	left_inside_cov=0	left_outside_cov=240	right_inside_cov=1	right_outside_cov=239
MC	741	.	NC_007779	3128830	3147473	1167	0	left_inside_cov=179	left_outside_cov=180	right_inside_cov=0	right_outside_cov=620
MC	742	.	NC_007779	3261134	3262337	1198	0	left_inside_cov=1	left_outside_cov=300	right_inside_cov=0	right_outside_cov=395
MC	743	.	NC_007779	3742936	3744271	1328	0	left_inside_cov=0	left_outside_cov=311	right_inside_cov=1	right_outside_cov=312
MC	744	.	NC_007779	3746911	3748109	1198	0	left_inside_cov=0	left_outside_cov=297	right_inside_cov=0	right_outside_cov=300
MC	745	.	NC_007779	3750591	3751789	1195	0	left_inside_cov=0	left_outside_cov=294	right_inside_cov=1	right_outside_cov=293
MC	746	.	NC_007779	3958123	3958156	0	0	left_inside_cov=0	left_outside_cov=250	right_inside_cov=1	right_outside_cov=254
JC	747	.	NC_007779	1	1	NC_007779	4646332	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=107	coverage_plus=122	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=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=48	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=0.91	new_junction_frequency=1.000000e+00	new_junction_read_count=229	pos_hash_score=126	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=229
JC	748	.	NC_007779	273179	1	NC_007779	657877	1	0	alignment_overlap=0	coverage_minus=4	coverage_plus=2	flanking_left=101	flanking_right=101	frequency=2.390438e-02	junction_possible_overlap_registers=90	key=NC_007779__273179__1__NC_007779__657877__1__0____101__101__1__0	max_left=70	max_left_minus=70	max_left_plus=20	max_min_left=34	max_min_left_minus=34	max_min_left_plus=20	max_min_right=31	max_min_right_minus=31	max_min_right_plus=0	max_pos_hash_score=180	max_right=88	max_right_minus=88	max_right_plus=83	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=2.390438e-02	new_junction_read_count=6	pos_hash_score=6	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=0.97	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=245	side_2_redundant=0	total_non_overlap_reads=6
JC	749	.	NC_007779	273179	1	NC_007779	678449	-1	0	alignment_overlap=0	coverage_minus=26	coverage_plus=20	flanking_left=101	flanking_right=101	frequency=3.275401e-02	junction_possible_overlap_registers=90	key=NC_007779__273179__1__NC_007779__678449__-1__0____101__101__1__0	max_left=93	max_left_minus=93	max_left_plus=87	max_min_left=49	max_min_left_minus=49	max_min_left_plus=37	max_min_right=50	max_min_right_minus=44	max_min_right_plus=50	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=0.19	new_junction_frequency=3.275401e-02	new_junction_read_count=49	pos_hash_score=42	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=5.75	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=1447	side_2_redundant=0	total_non_overlap_reads=46
JC	750	.	NC_007779	274373	-1	NC_007779	657880	-1	0	alignment_overlap=0	coverage_minus=3	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=2.448980e-02	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=65	max_min_left=49	max_min_left_minus=22	max_min_left_plus=49	max_min_right=36	max_min_right_minus=18	max_min_right_plus=36	max_pos_hash_score=180	max_right=87	max_right_minus=87	max_right_plus=52	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=2.448980e-02	new_junction_read_count=6	pos_hash_score=5	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=0.95	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=239	side_2_redundant=0	total_non_overlap_reads=6
JC	751	.	NC_007779	274373	-1	NC_007779	675375	1	0	alignment_overlap=0	coverage_minus=284	coverage_plus=327	flanking_left=101	flanking_right=101	frequency=4.144946e-01	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__675375__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=2.59	new_junction_frequency=4.144946e-01	new_junction_read_count=652	pos_hash_score=171	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=3.66	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=921	side_2_redundant=0	total_non_overlap_reads=611
JC	752	.	NC_007779	274373	-1	NC_007779	678446	1	0	alignment_overlap=0	coverage_minus=2163	coverage_plus=2096	flanking_left=101	flanking_right=101	frequency=7.470885e-01	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__678446__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=17.08	new_junction_frequency=7.470885e-01	new_junction_read_count=4298	pos_hash_score=180	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=5.78	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=1455	side_2_redundant=0	total_non_overlap_reads=4259
JC	753	.	NC_007779	274373	-1	NC_007779	679094	1	0	alignment_overlap=0	coverage_minus=252	coverage_plus=263	flanking_left=101	flanking_right=101	frequency=9.060579e-02	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__679094__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=2.05	new_junction_frequency=9.060579e-02	new_junction_read_count=516	pos_hash_score=169	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=20.58	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=5179	side_2_redundant=0	total_non_overlap_reads=515
JC	754	.	NC_007779	274732	-1	NC_007779	371973	1	0	alignment_overlap=10	coverage_minus=58	coverage_plus=100	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=80	key=NC_007779__274732__-1__NC_007779__371963__1__10____101__101__0__0	max_left=85	max_left_minus=85	max_left_plus=85	max_min_left=45	max_min_left_minus=44	max_min_left_plus=45	max_min_right=45	max_min_right_minus=45	max_min_right_plus=45	max_pos_hash_score=160	max_right=84	max_right_minus=84	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.71	new_junction_frequency=1.000000e+00	new_junction_read_count=158	pos_hash_score=99	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=10	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=80	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=158
JC	755	.	NC_007779	289856	1	NC_007779	2176982	-1	-33	alignment_overlap=-33	coverage_minus=90	coverage_plus=114	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=61	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=33	max_min_right_plus=34	max_pos_hash_score=114	max_right=61	max_right_minus=61	max_right_plus=60	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.28	new_junction_frequency=1.000000e+00	new_junction_read_count=204	pos_hash_score=90	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=204	unique_read_sequence=CTATTGCAATACCGCATTGTGAGGCGATTCATG
JC	756	.	NC_007779	380484	1	NC_007779	381407	-1	0	alignment_overlap=0	coverage_minus=132	coverage_plus=86	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=90	max_left_minus=90	max_left_plus=89	max_min_left=50	max_min_left_minus=50	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=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.87	new_junction_frequency=NA	new_junction_read_count=219	pos_hash_score=123	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=218
JC	757	.	NC_007779	381401	1	NC_007779	381812	-1	0	alignment_overlap=2	coverage_minus=101	coverage_plus=133	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=93	max_left_minus=91	max_left_plus=93	max_min_left=49	max_min_left_minus=46	max_min_left_plus=49	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=91	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.95	new_junction_frequency=NA	new_junction_read_count=235	pos_hash_score=128	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=234
JC	758	.	NC_007779	608570	-1	NC_007779	1305025	1	0	alignment_overlap=3	coverage_minus=96	coverage_plus=137	flanking_left=101	flanking_right=101	frequency=9.641533e-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=92	max_min_left=48	max_min_left_minus=48	max_min_left_plus=47	max_min_right=49	max_min_right_minus=48	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=0.96	new_junction_frequency=9.641533e-01	new_junction_read_count=234	pos_hash_score=117	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=0.04	side_2_overlap=3	side_2_possible_overlap_registers=90	side_2_read_count=9	side_2_redundant=0	total_non_overlap_reads=233
JC	759	.	NC_007779	654213	-1	NC_007779	655413	1	0	alignment_overlap=5	coverage_minus=103	coverage_plus=108	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=84	max_left_plus=90	max_min_left=47	max_min_left_minus=47	max_min_left_plus=46	max_min_right=48	max_min_right_minus=48	max_min_right_plus=47	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=0.89	new_junction_frequency=1.000000e+00	new_junction_read_count=211	pos_hash_score=121	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=211
JC	760	.	NC_007779	674753	1	NC_007779	689467	-1	0	alignment_overlap=0	coverage_minus=255	coverage_plus=256	flanking_left=101	flanking_right=101	frequency=7.045144e-01	junction_possible_overlap_registers=90	key=NC_007779__674753__1__NC_007779__689467__-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=2.05	new_junction_frequency=7.045144e-01	new_junction_read_count=515	pos_hash_score=171	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.86	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=216	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=511
JC	761	.	NC_007779	674958	1	NC_007779	689466	-1	0	alignment_overlap=1	coverage_minus=30	coverage_plus=36	flanking_left=101	flanking_right=101	frequency=8.058588e-02	junction_possible_overlap_registers=89	key=NC_007779__674958__1__NC_007779__689467__-1__1____101__101__0__1	max_left=92	max_left_minus=90	max_left_plus=92	max_min_left=48	max_min_left_minus=45	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=47	max_pos_hash_score=178	max_right=86	max_right_minus=85	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.27	new_junction_frequency=8.058588e-02	new_junction_read_count=67	pos_hash_score=54	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=3.07	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=773	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=66
JC	762	.	NC_007779	677096	1	NC_007779	689467	-1	0	alignment_overlap=0	coverage_minus=9	coverage_plus=14	flanking_left=101	flanking_right=101	frequency=1.578586e-02	junction_possible_overlap_registers=90	key=NC_007779__677096__1__NC_007779__689467__-1__0____101__101__0__1	max_left=95	max_left_minus=86	max_left_plus=95	max_min_left=48	max_min_left_minus=33	max_min_left_plus=48	max_min_right=47	max_min_right_minus=47	max_min_right_plus=36	max_pos_hash_score=180	max_right=83	max_right_minus=78	max_right_plus=83	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.09	new_junction_frequency=1.578586e-02	new_junction_read_count=23	pos_hash_score=22	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=5.70	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=1434	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=23
JC	763	.	NC_007779	679235	1	NC_007779	689467	-1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=2	flanking_left=101	flanking_right=101	frequency=4.588559e-04	junction_possible_overlap_registers=90	key=NC_007779__679235__1__NC_007779__689467__-1__0____101__101__0__1	max_left=69	max_left_minus=69	max_left_plus=57	max_min_left=47	max_min_left_minus=0	max_min_left_plus=47	max_min_right=44	max_min_right_minus=32	max_min_right_plus=44	max_pos_hash_score=180	max_right=54	max_right_minus=32	max_right_plus=54	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.01	new_junction_frequency=4.588559e-04	new_junction_read_count=3	pos_hash_score=3	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=25.96	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=6535	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=3
JC	764	.	NC_007779	1209367	1	NC_007779	1211196	1	0	alignment_overlap=16	coverage_minus=13	coverage_plus=10	flanking_left=101	flanking_right=101	frequency=1.179891e-01	junction_possible_overlap_registers=74	key=NC_007779__1209367__1__NC_007779__1211180__1__16____101__101__0__0	max_left=76	max_left_minus=76	max_left_plus=69	max_min_left=42	max_min_left_minus=35	max_min_left_plus=42	max_min_right=42	max_min_right_minus=42	max_min_right_plus=35	max_pos_hash_score=148	max_right=79	max_right_minus=79	max_right_plus=72	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.11	new_junction_frequency=1.179891e-01	new_junction_read_count=23	pos_hash_score=20	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.76	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=192	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.90	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=186	side_2_redundant=0	total_non_overlap_reads=23
JC	765	.	NC_007779	1209382	-1	NC_007779	1211179	-1	0	alignment_overlap=16	coverage_minus=11	coverage_plus=5	flanking_left=101	flanking_right=101	frequency=8.588811e-02	junction_possible_overlap_registers=74	key=NC_007779__1209382__-1__NC_007779__1211195__-1__16____101__101__0__0	max_left=77	max_left_minus=77	max_left_plus=72	max_min_left=40	max_min_left_minus=40	max_min_left_plus=15	max_min_right=41	max_min_right_minus=41	max_min_right_plus=30	max_pos_hash_score=148	max_right=78	max_right_minus=78	max_right_plus=70	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.08	new_junction_frequency=8.588811e-02	new_junction_read_count=16	pos_hash_score=14	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.75	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=188	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.90	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=186	side_2_redundant=0	total_non_overlap_reads=16
JC	766	.	NC_007779	1221489	1	NC_007779	1301041	1	0	alignment_overlap=2	coverage_minus=99	coverage_plus=125	flanking_left=101	flanking_right=101	frequency=9.828393e-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=89	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=48	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=86	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.91	new_junction_frequency=9.828393e-01	new_junction_read_count=224	pos_hash_score=122	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=4	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	767	.	NC_007779	1221495	-1	NC_007779	1302369	-1	0	alignment_overlap=0	coverage_minus=110	coverage_plus=61	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=94	max_left_plus=95	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=48	max_pos_hash_score=180	max_right=88	max_right_minus=87	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.69	new_junction_frequency=1.000000e+00	new_junction_read_count=173	pos_hash_score=95	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=171
JC	768	.	NC_007779	1301040	-1	NC_007779	1302377	1	0	alignment_overlap=7	coverage_minus=100	coverage_plus=98	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=46	max_pos_hash_score=166	max_right=88	max_right_minus=85	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=1.000000e+00	new_junction_read_count=198	pos_hash_score=108	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=198
JC	769	.	NC_007779	1305037	-1	NC_007779	2519723	1	0	alignment_overlap=4	coverage_minus=99	coverage_plus=101	flanking_left=101	flanking_right=101	frequency=9.255677e-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=47	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=47	max_pos_hash_score=172	max_right=91	max_right_minus=89	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.84	new_junction_frequency=9.255677e-01	new_junction_read_count=202	pos_hash_score=121	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.07	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=17	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=200
JC	770	.	NC_007779	1397758	1	NC_007779	1672777	1	0	alignment_overlap=0	coverage_minus=111	coverage_plus=115	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=85	max_left_minus=85	max_left_plus=85	max_min_left=50	max_min_left_minus=48	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=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.90	new_junction_frequency=1.000000e+00	new_junction_read_count=226	pos_hash_score=124	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=226
JC	771	.	NC_007779	1413638	-1	NC_007779	1436699	1	0	alignment_overlap=26	coverage_minus=81	coverage_plus=90	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=37	max_min_left_plus=37	max_min_right=37	max_min_right_minus=36	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=0.96	new_junction_frequency=1.000000e+00	new_junction_read_count=171	pos_hash_score=100	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=171
JC	772	.	NC_007779	1672780	-1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=109	coverage_plus=94	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=93	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=49	max_min_right_minus=49	max_min_right_plus=48	max_pos_hash_score=180	max_right=85	max_right_minus=85	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.81	new_junction_frequency=1.000000e+00	new_junction_read_count=204	pos_hash_score=116	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=203
JC	773	.	NC_007779	1907280	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=108	coverage_plus=105	flanking_left=101	flanking_right=101	frequency=9.551570e-01	junction_possible_overlap_registers=90	key=NC_007779__1907280__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=94	max_left_minus=93	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=90	max_right_minus=90	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=9.551570e-01	new_junction_read_count=213	pos_hash_score=120	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.04	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=10	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=213
JC	774	.	NC_007779	1907288	-1	NC_007779	2411458	1	0	alignment_overlap=0	coverage_minus=112	coverage_plus=116	flanking_left=101	flanking_right=101	frequency=9.541667e-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=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=0.91	new_junction_frequency=9.541667e-01	new_junction_read_count=229	pos_hash_score=125	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.04	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=228
JC	775	.	NC_007779	1980091	1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=137	coverage_plus=47	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=92	max_min_left=48	max_min_left_minus=48	max_min_left_plus=40	max_min_right=50	max_min_right_minus=50	max_min_right_plus=46	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.74	new_junction_frequency=1.000000e+00	new_junction_read_count=186	pos_hash_score=93	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=184
JC	776	.	NC_007779	1980095	-1	NC_007779	2176984	1	0	alignment_overlap=1	coverage_minus=131	coverage_plus=112	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=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=1.000000e+00	new_junction_read_count=245	pos_hash_score=120	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=243
JC	777	.	NC_007779	2178209	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=117	coverage_plus=128	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=94	max_min_left=50	max_min_left_minus=50	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=0.98	new_junction_frequency=1.000000e+00	new_junction_read_count=246	pos_hash_score=133	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=245
JC	778	.	NC_007779	2320794	-1	NC_007779	2322131	1	0	alignment_overlap=6	coverage_minus=93	coverage_plus=112	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=88	max_min_left=47	max_min_left_minus=44	max_min_left_plus=47	max_min_right=47	max_min_right_minus=45	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=0.87	new_junction_frequency=1.000000e+00	new_junction_read_count=205	pos_hash_score=112	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=205
JC	779	.	NC_007779	2320794	1	NC_007779	2589834	-1	0	alignment_overlap=0	coverage_minus=104	coverage_plus=143	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=95	max_left_minus=95	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=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=1.000000e+00	new_junction_read_count=248	pos_hash_score=129	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=247
JC	780	.	NC_007779	2322124	-1	NC_007779	2589830	1	0	alignment_overlap=0	coverage_minus=124	coverage_plus=141	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=49	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=1.05	new_junction_frequency=1.000000e+00	new_junction_read_count=265	pos_hash_score=131	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=265
JC	781	.	NC_007779	2411458	1	NC_007779	2985055	-1	0	alignment_overlap=0	coverage_minus=133	coverage_plus=150	flanking_left=101	flanking_right=101	frequency=9.563758e-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=94	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=1.13	new_junction_frequency=9.563758e-01	new_junction_read_count=285	pos_hash_score=137	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=13	side_2_redundant=0	total_non_overlap_reads=283
JC	782	.	NC_007779	2412225	-1	NC_007779	2985047	1	0	alignment_overlap=0	coverage_minus=94	coverage_plus=91	flanking_left=101	flanking_right=101	frequency=9.538462e-01	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2985047__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=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=0.74	new_junction_frequency=9.538462e-01	new_junction_read_count=186	pos_hash_score=113	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=0.04	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=9	side_2_redundant=0	total_non_overlap_reads=185
JC	783	.	NC_007779	2865229	1	NC_007779	2865274	-1	0	alignment_overlap=4	coverage_minus=37	coverage_plus=57	flanking_left=101	flanking_right=101	frequency=3.613223e-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=91	max_left_plus=91	max_min_left=47	max_min_left_minus=43	max_min_left_plus=47	max_min_right=47	max_min_right_minus=46	max_min_right_plus=47	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=0.39	new_junction_frequency=3.613223e-01	new_junction_read_count=94	pos_hash_score=64	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.69	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=173	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.69	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=167	side_2_redundant=0	total_non_overlap_reads=94
JC	784	.	NC_007779	3147474	1	NC_007779	3262328	-1	0	alignment_overlap=0	coverage_minus=134	coverage_plus=125	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=50	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=1.03	new_junction_frequency=1.000000e+00	new_junction_read_count=260	pos_hash_score=134	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=259
JC	785	.	NC_007779	3186081	-1	NC_007779	3512753	1	0	alignment_overlap=1	coverage_minus=114	coverage_plus=83	flanking_left=101	flanking_right=101	frequency=9.900603e-01	junction_possible_overlap_registers=89	key=NC_007779__3186082__-1__NC_007779__3512753__1__1____101__101__1__0	max_left=84	max_left_minus=80	max_left_plus=84	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=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.79	new_junction_frequency=9.900603e-01	new_junction_read_count=197	pos_hash_score=108	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=0.01	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=2	side_2_redundant=0	total_non_overlap_reads=197
JC	786	.	NC_007779	3261133	-1	NC_007779	3748109	-1	-6	alignment_overlap=-6	coverage_minus=147	coverage_plus=111	flanking_left=101	flanking_right=101	frequency=9.964231e-01	junction_possible_overlap_registers=84	key=NC_007779__3261133__-1__NC_007779__3748109__-1__-6__CTTTGC__101__101__0__1	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=46	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=1.11	new_junction_frequency=9.964231e-01	new_junction_read_count=260	pos_hash_score=122	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=258	unique_read_sequence=CTTTGC
JC	787	.	NC_007779	3261134	1	NC_007779	3265774	1	0	alignment_overlap=0	coverage_minus=113	coverage_plus=111	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3261134__1__NC_007779__3265774__1__0____101__101__1__0	max_left=85	max_left_minus=85	max_left_plus=85	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=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=0.90	new_junction_frequency=1.000000e+00	new_junction_read_count=226	pos_hash_score=115	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=224
JC	788	.	NC_007779	3261135	1	NC_007779	3262338	1	0	alignment_overlap=1	coverage_minus=116	coverage_plus=143	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=94	max_left_minus=92	max_left_plus=94	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=93	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=259	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=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=259
JC	789	.	NC_007779	3265777	-1	NC_007779	3365411	1	0	alignment_overlap=0	coverage_minus=153	coverage_plus=137	flanking_left=101	flanking_right=101	frequency=1.000000e+00	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=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=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=1.16	new_junction_frequency=1.000000e+00	new_junction_read_count=291	pos_hash_score=140	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	790	.	NC_007779	3512759	-1	NC_007779	3744262	-1	0	alignment_overlap=1	coverage_minus=98	coverage_plus=113	flanking_left=101	flanking_right=101	frequency=9.771032e-01	junction_possible_overlap_registers=89	key=NC_007779__3512759__-1__NC_007779__3744263__-1__1____101__101__0__1	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=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=84	max_right_minus=84	max_right_plus=83	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=9.771032e-01	new_junction_read_count=211	pos_hash_score=108	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=5	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=211
JC	791	.	NC_007779	3742935	-1	NC_007779	3744272	1	0	alignment_overlap=8	coverage_minus=143	coverage_plus=108	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=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=164	max_right=87	max_right_minus=87	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.09	new_junction_frequency=1.000000e+00	new_junction_read_count=251	pos_hash_score=128	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=251
JC	792	.	NC_007779	3744263	-1	NC_007779	3903274	1	0	alignment_overlap=0	coverage_minus=132	coverage_plus=124	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=94	max_left_minus=91	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=48	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=1.02	new_junction_frequency=1.000000e+00	new_junction_read_count=256	pos_hash_score=131	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=256
JC	793	.	NC_007779	3746910	-1	NC_007779	3748110	1	0	alignment_overlap=4	coverage_minus=136	coverage_plus=113	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=90	max_min_left=48	max_min_left_minus=48	max_min_left_plus=47	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=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=250	pos_hash_score=131	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=249
JC	794	.	NC_007779	3746911	1	NC_007779	3748646	-1	0	alignment_overlap=0	coverage_minus=132	coverage_plus=108	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=91	max_left_minus=91	max_left_plus=91	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=50	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=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=261	pos_hash_score=127	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=240
JC	795	.	NC_007779	3748105	-1	NC_007779	3748643	1	0	alignment_overlap=0	coverage_minus=129	coverage_plus=122	flanking_left=101	flanking_right=101	frequency=9.960317e-01	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=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=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=1.00	new_junction_frequency=9.960317e-01	new_junction_read_count=251	pos_hash_score=129	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=251
JC	796	.	NC_007779	3750590	-1	NC_007779	3751790	1	0	alignment_overlap=4	coverage_minus=128	coverage_plus=122	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=90	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=47	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=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=251	pos_hash_score=136	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=250
JC	797	.	NC_007779	3903279	-1	NC_007779	4504190	-1	0	alignment_overlap=1	coverage_minus=137	coverage_plus=106	flanking_left=101	flanking_right=101	frequency=9.800583e-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=93	max_left_plus=94	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	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=0.98	new_junction_frequency=9.800583e-01	new_junction_read_count=243	pos_hash_score=123	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=5	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=243
JC	798	.	NC_007779	3958122	-1	NC_007779	3958157	1	0	alignment_overlap=2	coverage_minus=116	coverage_plus=94	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=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=0.86	new_junction_frequency=1.000000e+00	new_junction_read_count=212	pos_hash_score=121	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=210
JC	799	.	NC_007779	3987186	1	NC_007779	4009203	-1	0	alignment_overlap=1	coverage_minus=110	coverage_plus=118	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=48	max_min_left_minus=48	max_min_left_plus=47	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=93	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=1.000000e+00	new_junction_read_count=228	pos_hash_score=127	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=228
JC	800	.	NC_007779	3988379	-1	NC_007779	4009199	1	0	alignment_overlap=0	coverage_minus=95	coverage_plus=121	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=85	max_left_minus=82	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=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=0.87	new_junction_frequency=1.000000e+00	new_junction_read_count=218	pos_hash_score=110	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=216
JC	801	.	NC_007779	4310362	-1	NC_007779	4311562	1	0	alignment_overlap=4	coverage_minus=119	coverage_plus=108	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=91	max_left_plus=91	max_min_left=47	max_min_left_minus=46	max_min_left_plus=47	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=89	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.95	new_junction_frequency=1.000000e+00	new_junction_read_count=228	pos_hash_score=117	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=227
JC	802	.	NC_007779	4310363	1	NC_007779	4353540	1	0	alignment_overlap=0	coverage_minus=103	coverage_plus=113	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=84	max_left_minus=79	max_left_plus=84	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=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.86	new_junction_frequency=1.000000e+00	new_junction_read_count=217	pos_hash_score=116	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=216
JC	803	.	NC_007779	4311557	-1	NC_007779	4353543	-1	0	alignment_overlap=0	coverage_minus=101	coverage_plus=142	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=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=48	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=255	pos_hash_score=128	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=243
JC	804	.	NC_007779	4355060	1	NC_007779	4502861	1	0	alignment_overlap=0	coverage_minus=122	coverage_plus=164	flanking_left=101	flanking_right=101	frequency=9.965157e-01	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=49	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=1.14	new_junction_frequency=9.965157e-01	new_junction_read_count=286	pos_hash_score=138	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=286
JC	805	.	NC_007779	4355066	-1	NC_007779	4504189	-1	0	alignment_overlap=2	coverage_minus=103	coverage_plus=108	flanking_left=101	flanking_right=101	frequency=9.908171e-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=93	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=48	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=0.86	new_junction_frequency=9.908171e-01	new_junction_read_count=211	pos_hash_score=121	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=2	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=211
JC	806	.	NC_007779	4547362	1	NC_007779	4547676	1	0	alignment_overlap=9	coverage_minus=9	coverage_plus=5	flanking_left=101	flanking_right=101	frequency=6.204299e-02	junction_possible_overlap_registers=81	key=NC_007779__4547362__1__NC_007779__4547667__1__9____101__101__0__0	max_left=78	max_left_minus=78	max_left_plus=74	max_min_left=40	max_min_left_minus=40	max_min_left_plus=17	max_min_right=33	max_min_right_minus=33	max_min_right_plus=22	max_pos_hash_score=162	max_right=85	max_right_minus=85	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.06	new_junction_frequency=6.204299e-02	new_junction_read_count=14	pos_hash_score=12	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=217	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.01	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=228	side_2_redundant=0	total_non_overlap_reads=14
JC	807	.	NC_007779	4547370	-1	NC_007779	4547666	-1	0	alignment_overlap=9	coverage_minus=12	coverage_plus=12	flanking_left=101	flanking_right=101	frequency=1.010739e-01	junction_possible_overlap_registers=81	key=NC_007779__4547370__-1__NC_007779__4547675__-1__9____101__101__0__0	max_left=78	max_left_minus=78	max_left_plus=71	max_min_left=42	max_min_left_minus=29	max_min_left_plus=42	max_min_right=41	max_min_right_minus=41	max_min_right_plus=35	max_pos_hash_score=162	max_right=86	max_right_minus=86	max_right_plus=83	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.11	new_junction_frequency=1.010739e-01	new_junction_read_count=24	pos_hash_score=21	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.88	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=221	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.01	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=228	side_2_redundant=0	total_non_overlap_reads=24
UN	808	.	NC_007779	15485	16633
UN	809	.	NC_007779	19894	20466
UN	810	.	NC_007779	223635	223642
UN	811	.	NC_007779	223838	224673
UN	812	.	NC_007779	224989	225488
UN	813	.	NC_007779	225835	225923
UN	814	.	NC_007779	226120	226203
UN	815	.	NC_007779	226399	226505
UN	816	.	NC_007779	226701	226870
UN	817	.	NC_007779	227085	228591
UN	818	.	NC_007779	228785	228911
UN	819	.	NC_007779	269859	270420
UN	820	.	NC_007779	270705	270712
UN	821	.	NC_007779	273277	274275
UN	822	.	NC_007779	274733	365510
UN	823	.	NC_007779	365601	371972
UN	824	.	NC_007779	380576	381723
UN	825	.	NC_007779	391029	392101
UN	826	.	NC_007779	525193	525848
UN	827	.	NC_007779	566089	567161
UN	828	.	NC_007779	573905	574918
UN	829	.	NC_007779	580439	580490
UN	830	.	NC_007779	607325	608476
UN	831	.	NC_007779	654214	655412
UN	832	.	NC_007779	688367	689375
UN	833	.	NC_007779	730322	730470
UN	834	.	NC_007779	730827	730860
UN	835	.	NC_007779	732510	732614
UN	836	.	NC_007779	733124	733153
UN	837	.	NC_007779	734994	735022
UN	838	.	NC_007779	1050345	1050399
UN	839	.	NC_007779	1050560	1050736
UN	840	.	NC_007779	1094763	1095829
UN	841	.	NC_007779	1105718	1106860
UN	842	.	NC_007779	1270767	1270800
UN	843	.	NC_007779	1271838	1271869
UN	844	.	NC_007779	1288369	1288460
UN	845	.	NC_007779	1301041	1302376
UN	846	.	NC_007779	1397851	1398859
UN	847	.	NC_007779	1413639	1436698
UN	848	.	NC_007779	1469719	1470864
UN	849	.	NC_007779	1471108	1472133
UN	850	.	NC_007779	1530138	1530792
UN	851	.	NC_007779	1533980	1534024
UN	852	.	NC_007779	1572478	1572486
UN	853	.	NC_007779	1572677	1572963
UN	854	.	NC_007779	1573218	1573420
UN	855	.	NC_007779	1634762	1634838
UN	856	.	NC_007779	1635034	1635244
UN	857	.	NC_007779	1635440	1635539
UN	858	.	NC_007779	1635910	1636254
UN	859	.	NC_007779	1636451	1636639
UN	860	.	NC_007779	1637648	1637699
UN	861	.	NC_007779	1652655	1653165
UN	862	.	NC_007779	1980303	1981309
UN	863	.	NC_007779	2068410	2068504
UN	864	.	NC_007779	2068701	2068747
UN	865	.	NC_007779	2068961	2069337
UN	866	.	NC_007779	2071173	2072316
UN	867	.	NC_007779	2103980	2104986
UN	868	.	NC_007779	2172403	2173470
UN	869	.	NC_007779	2176983	2178208
UN	870	.	NC_007779	2292347	2293351
UN	871	.	NC_007779	2308005	2308023
UN	872	.	NC_007779	2308231	2308249
UN	873	.	NC_007779	2320795	2322130
UN	874	.	NC_007779	2411554	2412128
UN	875	.	NC_007779	2519814	2520966
UN	876	.	NC_007779	2724817	2727806
UN	877	.	NC_007779	2728091	2728121
UN	878	.	NC_007779	2728321	2729509
UN	879	.	NC_007779	2729833	2729931
UN	880	.	NC_007779	2995113	2996257
UN	881	.	NC_007779	3128894	3147473
UN	882	.	NC_007779	3184842	3185985
UN	883	.	NC_007779	3261134	3262337
UN	884	.	NC_007779	3365505	3366513
UN	885	.	NC_007779	3423615	3424411
UN	886	.	NC_007779	3424606	3426562
UN	887	.	NC_007779	3426760	3426847
UN	888	.	NC_007779	3427045	3428592
UN	889	.	NC_007779	3459669	3460042
UN	890	.	NC_007779	3460237	3460348
UN	891	.	NC_007779	3465132	3468011
UN	892	.	NC_007779	3468300	3468330
UN	893	.	NC_007779	3468559	3470289
UN	894	.	NC_007779	3596171	3597193
UN	895	.	NC_007779	3597394	3597855
UN	896	.	NC_007779	3598088	3598748
UN	897	.	NC_007779	3598944	3599186
UN	898	.	NC_007779	3599298	3599491
UN	899	.	NC_007779	3599687	3600847
UN	900	.	NC_007779	3601046	3601418
UN	901	.	NC_007779	3689826	3689895
UN	902	.	NC_007779	3690160	3690355
UN	903	.	NC_007779	3690552	3690669
UN	904	.	NC_007779	3690874	3691014
UN	905	.	NC_007779	3691208	3692523
UN	906	.	NC_007779	3692789	3693187
UN	907	.	NC_007779	3693383	3694550
UN	908	.	NC_007779	3694746	3694931
UN	909	.	NC_007779	3742936	3744271
UN	910	.	NC_007779	3746911	3748109
UN	911	.	NC_007779	3750591	3751789
UN	912	.	NC_007779	3874863	3874904
UN	913	.	NC_007779	3875224	3876242
UN	914	.	NC_007779	3876438	3878052
UN	915	.	NC_007779	3958123	3958156
UN	916	.	NC_007779	3973174	3973377
UN	917	.	NC_007779	3973631	3973917
UN	918	.	NC_007779	3974108	3974114
UN	919	.	NC_007779	3987277	3988288
UN	920	.	NC_007779	4015543	4015587
UN	921	.	NC_007779	4017854	4017897
UN	922	.	NC_007779	4018214	4019232
UN	923	.	NC_007779	4019429	4021046
UN	924	.	NC_007779	4056314	4056890
UN	925	.	NC_007779	4169475	4169587
UN	926	.	NC_007779	4169782	4170155
UN	927	.	NC_007779	4211518	4211762
UN	928	.	NC_007779	4211960	4213508
UN	929	.	NC_007779	4213667	4215789
UN	930	.	NC_007779	4215987	4216658
UN	931	.	NC_007779	4299521	4299551
UN	932	.	NC_007779	4299747	4299777
UN	933	.	NC_007779	4310363	4311561
UN	934	.	NC_007779	4502953	4504095
UN	935	.	NC_007779	4512231	4513265