#=GENOME_DIFF	1.0
#=AUTHOR	breseq 0.25c 
#=CREATED	14:33:58 07 Mar 2015
#=REFSEQ	/data/savita/refseq/NC_007779.gbk
#=READSEQ	6_D22_AGTTCC_L002_R2_001.fastq
SNP	1	69	NC_007779	66457	A	frequency=1
SNP	2	75	NC_007779	97880	T	frequency=1
SNP	3	83	NC_007779	167632	A	frequency=1
SNP	4	100	NC_007779	274547	G	frequency=1
DEL	5	719,737	NC_007779	274733	97240	frequency=1
SNP	6	135	NC_007779	547694	G	frequency=1
INS	7	136	NC_007779	547831	G	frequency=1	insert_position=1
SNP	8	138	NC_007779	556858	T	frequency=1
SNP	9	139	NC_007779	569996	C	frequency=1
DEL	10	720,742	NC_007779	654214	1199	frequency=1
SNP	11	175	NC_007779	749354	A	frequency=1
SNP	12	178	NC_007779	758440	A	frequency=1
SNP	13	192	NC_007779	887234	A	frequency=1
SNP	14	202	NC_007779	987574	T	frequency=1
SNP	15	217	NC_007779	1093686	C	frequency=1
SNP	16	218	NC_007779	1097580	T	frequency=1.566858e-01
SNP	17	230	NC_007779	1170573	T	frequency=1
SNP	18	232	NC_007779	1197797	T	frequency=2.232838e-02
SNP	19	233	NC_007779	1197809	T	frequency=1.880169e-02
DEL	20	722,747	NC_007779	1301041	1336	frequency=1
SNP	21	256	NC_007779	1303904	G	frequency=6.711912e-02
SNP	22	259	NC_007779	1318876	A	frequency=1
DEL	23	723,750	NC_007779	1413639	23060	frequency=1
SNP	24	283	NC_007779	1483588	A	frequency=1
DEL	25	286	NC_007779	1496775	1	frequency=1
SNP	26	306	NC_007779	1615814	A	frequency=1
DEL	27	312	NC_007779	1669599	1	frequency=1
SNP	28	331	NC_007779	1844073	A	frequency=1
SNP	29	340	NC_007779	1918872	A	frequency=1
SNP	30	346	NC_007779	1973476	A	frequency=1
SNP	31	354	NC_007779	2005401	T	frequency=1
SNP	32	368	NC_007779	2170094	A	frequency=1
SNP	33	370	NC_007779	2178210	C	frequency=3.772640e-02
DEL	34	725,757	NC_007779	2320795	1336	frequency=1
SNP	35	401	NC_007779	2406075	T	frequency=1
SNP	36	404	NC_007779	2416102	A	frequency=1
SNP	37	418	NC_007779	2538628	T	frequency=1
INS	38	766	NC_007779	2865274	GCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACG	frequency=2.669921e-01
INS	39	767	NC_007779	2865278	TTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGC	frequency=1.978892e-01
SNP	40	463	NC_007779	2866111	G	frequency=1
SNP	41	478	NC_007779	3003330	A	frequency=1
SNP	42	486	NC_007779	3049815	T	frequency=1
SNP	43	532	NC_007779	3397813	G	frequency=1
SNP	44	544	NC_007779	3450056	A	frequency=6.335640e-01
SNP	45	569	NC_007779	3689274	A	frequency=2.395058e-02
DEL	46	728,775	NC_007779	3742936	1336	frequency=1
DEL	47	729,777	NC_007779	3746911	1199	frequency=1
DEL	48	580	NC_007779	3750122	1	frequency=9.716311e-01
SNP	49	581	NC_007779	3750123	T	frequency=2.486897e-02
SNP	50	610	NC_007779	3898657	G	frequency=1
DEL	51	730,782	NC_007779	3958123	34	frequency=1
SNP	52	648	NC_007779	4090749	T	frequency=1
SNP	53	663	NC_007779	4165991	C	frequency=1
DEL	54	731,785	NC_007779	4310363	1199	frequency=1
DEL	55	685,686	NC_007779	4371271	2	frequency=1
DEL	56	687	NC_007779	4371467	1	frequency=1.922607e-02
SNP	57	700	NC_007779	4546535	A	frequency=1
RA	58	.	NC_007779	301	1	.	T	bias_e_value=2701870	bias_p_value=0.581507	fisher_strand_p_value=0.426677	frequency=2.409649e-02	genotype_quality=1173.3	ks_quality_p_value=0.560844	log10_base_likelihood=-26.3914	log10_qual_likelihood_position_model=5.57723	log10_strand_likelihood_position_model=0.678309	new_cov=4/2	polymorphism_quality=21.2	quality=21.2	quality_position_model=2.60429e-22	ref_cov=114/129	reject=INDEL_HOMOPOLYMER	tot_cov=118/131
RA	59	.	NC_007779	11143	0	G	T	bias_e_value=1.09458	bias_p_value=2.3558e-07	fisher_strand_p_value=1.22589e-08	frequency=5.813599e-02	genotype_quality=929.6	ks_quality_p_value=1	log10_base_likelihood=-9.80679	log10_qual_likelihood_position_model=19.6833	log10_strand_likelihood_position_model=7.91155	new_cov=0/24	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=140/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/135
RA	60	.	NC_007779	15382	0	A	G	bias_e_value=7.37271e-05	bias_p_value=1.58678e-11	fisher_strand_p_value=5.42631e-13	frequency=5.942678e-02	genotype_quality=698.3	ks_quality_p_value=1	log10_base_likelihood=-6.70144	log10_qual_likelihood_position_model=20.6765	log10_strand_likelihood_position_model=12.2655	new_cov=19/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=36/156	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=55/156
RA	61	.	NC_007779	17050	0	A	C	bias_e_value=7.51269e-05	bias_p_value=1.61691e-11	fisher_strand_p_value=5.53302e-13	frequency=8.152437e-02	genotype_quality=428.2	ks_quality_p_value=1	log10_base_likelihood=-5.93099	log10_qual_likelihood_position_model=22.2254	log10_strand_likelihood_position_model=12.257	new_cov=0/24	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=89/28	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=89/52
RA	62	.	NC_007779	29496	0	T	A	bias_e_value=0.130655	bias_p_value=2.81201e-08	fisher_strand_p_value=1.3108e-09	frequency=8.824205e-02	genotype_quality=755.3	ks_quality_p_value=1	log10_base_likelihood=-20.0586	log10_qual_likelihood_position_model=26.4708	log10_strand_likelihood_position_model=8.88246	new_cov=0/21	polymorphism_quality=14.8	quality=14.8	quality_position_model=Inf	ref_cov=133/70	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/91
RA	63	.	NC_007779	29503	0	T	C	bias_e_value=5.92843e-05	bias_p_value=1.27594e-11	fisher_strand_p_value=4.3299e-13	frequency=8.652115e-02	genotype_quality=690.1	ks_quality_p_value=1	log10_base_likelihood=-9.06161	log10_qual_likelihood_position_model=22.7445	log10_strand_likelihood_position_model=12.3635	new_cov=0/31	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=133/73	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/104
RA	64	.	NC_007779	34111	1	.	T	bias_e_value=2137230	bias_p_value=0.459982	fisher_strand_p_value=0.2542	frequency=1.229477e-02	genotype_quality=1197.7	ks_quality_p_value=0.644048	log10_base_likelihood=-13.1554	log10_qual_likelihood_position_model=1.64627	log10_strand_likelihood_position_model=0.785281	new_cov=3/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=9.13452e-13	ref_cov=131/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/110
RA	65	.	NC_007779	39910	0	G	T	bias_e_value=24604.5	bias_p_value=0.00529547	fisher_strand_p_value=0.000633054	frequency=7.406807e-02	genotype_quality=596.8	ks_quality_p_value=1	log10_base_likelihood=-10.092	log10_qual_likelihood_position_model=12.543	log10_strand_likelihood_position_model=3.41364	new_cov=0/21	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=63/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=63/150
RA	66	.	NC_007779	47305	0	G	T	bias_e_value=1.36596	bias_p_value=2.93987e-07	fisher_strand_p_value=1.54866e-08	frequency=6.169987e-02	genotype_quality=776.4	ks_quality_p_value=1	log10_base_likelihood=-11.7121	log10_qual_likelihood_position_model=19.7003	log10_strand_likelihood_position_model=7.81004	new_cov=0/22	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=128/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/113
RA	67	.	NC_007779	48338	0	T	G	bias_e_value=1.03717e-05	bias_p_value=2.23222e-12	fisher_strand_p_value=7.13839e-14	frequency=6.479740e-02	genotype_quality=592.3	ks_quality_p_value=1	log10_base_likelihood=-18.978	log10_qual_likelihood_position_model=11.4185	log10_strand_likelihood_position_model=13.1464	new_cov=12/0	polymorphism_quality=13.7	quality=13.7	quality_position_model=Inf	ref_cov=7/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=20/149
RA	68	.	NC_007779	61542	0	C	G	bias_e_value=0.59953	bias_p_value=1.29033e-07	fisher_strand_p_value=6.50555e-09	frequency=5.877542e-02	genotype_quality=615.4	ks_quality_p_value=0.999135	log10_base_likelihood=-10.8474	log10_qual_likelihood_position_model=10.9452	log10_strand_likelihood_position_model=8.18672	new_cov=11/0	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=23/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=34/131
RA	69	.	NC_007779	66457	0	C	A	frequency=1	genotype_quality=1054.3	new_cov=146/111	quality=1054.3	ref_cov=0/0	tot_cov=146/111
RA	70	.	NC_007779	70602	0	G	T	bias_e_value=0.000523339	bias_p_value=1.12635e-10	fisher_strand_p_value=4.1394e-12	frequency=8.688021e-02	genotype_quality=859.2	ks_quality_p_value=1	log10_base_likelihood=-15.9047	log10_qual_likelihood_position_model=25.3399	log10_strand_likelihood_position_model=11.3831	new_cov=0/32	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=142/96	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/129
RA	71	.	NC_007779	75070	1	.	G	bias_e_value=2157820	bias_p_value=0.464415	fisher_strand_p_value=0.23287	frequency=7.326126e-03	genotype_quality=1356.5	ks_quality_p_value=0.713603	log10_base_likelihood=-8.0927	log10_qual_likelihood_position_model=1.46933	log10_strand_likelihood_position_model=0.632886	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=6.52179e-08	ref_cov=130/141	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/141
RA	72	.	NC_007779	75074	0	T	G	bias_e_value=8.10864e-38	bias_p_value=1.74517e-44	fisher_strand_p_value=1.63982e-46	frequency=2.808528e-01	genotype_quality=499.2	ks_quality_p_value=1	log10_base_likelihood=-60.5537	log10_qual_likelihood_position_model=55.4018	log10_strand_likelihood_position_model=45.7852	new_cov=77/0	polymorphism_quality=55.5	quality=55.5	quality_position_model=Inf	ref_cov=15/139	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=92/139
RA	73	.	NC_007779	75079	0	C	T	bias_e_value=0.00277766	bias_p_value=5.97817e-10	fisher_strand_p_value=2.34664e-11	frequency=7.168055e-02	genotype_quality=670.7	ks_quality_p_value=1	log10_base_likelihood=-15.2586	log10_qual_likelihood_position_model=18.3597	log10_strand_likelihood_position_model=10.6296	new_cov=14/0	polymorphism_quality=9.9	quality=9.9	quality_position_model=Inf	ref_cov=24/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=38/149
RA	74	.	NC_007779	89555	0	G	T	bias_e_value=0.00469052	bias_p_value=1.00951e-09	fisher_strand_p_value=4.57832e-11	frequency=8.796787e-02	genotype_quality=847.1	ks_quality_p_value=0.884474	log10_base_likelihood=-23.8564	log10_qual_likelihood_position_model=29.3999	log10_strand_likelihood_position_model=10.3393	new_cov=25/0	polymorphism_quality=18.6	quality=18.6	quality_position_model=Inf	ref_cov=81/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/149
RA	75	.	NC_007779	97880	0	C	T	frequency=1	genotype_quality=1053.6	new_cov=151/105	quality=1053.6	ref_cov=0/2	tot_cov=151/107
RA	76	.	NC_007779	101246	0	T	G	bias_e_value=253.939	bias_p_value=5.46537e-05	fisher_strand_p_value=4.07543e-06	frequency=4.884815e-02	genotype_quality=541.1	ks_quality_p_value=1	log10_base_likelihood=-18.0042	log10_qual_likelihood_position_model=8.53424	log10_strand_likelihood_position_model=5.38983	new_cov=8/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=6.3387e-06	ref_cov=26/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=34/113
RA	77	.	NC_007779	107544	1	.	T	bias_e_value=1149500	bias_p_value=0.2474	fisher_strand_p_value=0.499439	frequency=6.896019e-03	genotype_quality=1439.2	ks_quality_p_value=0.133629	log10_base_likelihood=-8.23962	log10_qual_likelihood_position_model=1.65942	log10_strand_likelihood_position_model=0.562475	new_cov=0/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=6.11229e-08	ref_cov=138/150	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=138/152
RA	78	.	NC_007779	119384	0	T	G	bias_e_value=6.65248e-21	bias_p_value=1.43177e-27	fisher_strand_p_value=2.13647e-29	frequency=1.505871e-01	genotype_quality=609.2	ks_quality_p_value=1	log10_base_likelihood=-19.4311	log10_qual_likelihood_position_model=42.0731	log10_strand_likelihood_position_model=28.6703	new_cov=57/0	polymorphism_quality=14.1	quality=14.1	quality_position_model=Inf	ref_cov=37/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=95/138
RA	79	.	NC_007779	137009	0	G	T	bias_e_value=0.00338276	bias_p_value=7.28049e-10	fisher_strand_p_value=2.99306e-11	frequency=7.260656e-02	genotype_quality=846.7	ks_quality_p_value=0.962575	log10_base_likelihood=-13.9263	log10_qual_likelihood_position_model=27.2861	log10_strand_likelihood_position_model=10.5239	new_cov=22/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=68/159	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=91/159
RA	80	.	NC_007779	146288	0	T	G	bias_e_value=13.9853	bias_p_value=3.00997e-06	fisher_strand_p_value=1.82223e-07	frequency=4.613113e-02	genotype_quality=646.6	ks_quality_p_value=1	log10_base_likelihood=-7.55687	log10_qual_likelihood_position_model=15.6343	log10_strand_likelihood_position_model=6.7394	new_cov=15/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=60/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=75/123
RA	81	.	NC_007779	151656	0	T	G	bias_e_value=5.35423e-07	bias_p_value=1.15236e-13	fisher_strand_p_value=3.35692e-15	frequency=1.024351e-01	genotype_quality=904.8	ks_quality_p_value=1	log10_base_likelihood=-18.0462	log10_qual_likelihood_position_model=33.5494	log10_strand_likelihood_position_model=14.4741	new_cov=40/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=101/157	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=141/157
RA	82	.	NC_007779	162886	0	C	A	bias_e_value=28.4616	bias_p_value=6.12561e-06	fisher_strand_p_value=3.88668e-07	frequency=5.404854e-02	genotype_quality=891.3	ks_quality_p_value=1	log10_base_likelihood=-8.83368	log10_qual_likelihood_position_model=17.2882	log10_strand_likelihood_position_model=6.43847	new_cov=22/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=127/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/133
RA	83	.	NC_007779	167632	0	C	A	frequency=1	genotype_quality=925.0	new_cov=118/105	quality=925.0	ref_cov=0/0	tot_cov=118/105
RA	84	.	NC_007779	175694	0	T	G	bias_e_value=2.71705e-11	bias_p_value=5.84773e-18	fisher_strand_p_value=1.31482e-19	frequency=8.293104e-02	genotype_quality=707.2	ks_quality_p_value=1	log10_base_likelihood=-12.8281	log10_qual_likelihood_position_model=30.5232	log10_strand_likelihood_position_model=18.8811	new_cov=40/0	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=56/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/148
RA	85	.	NC_007779	182720	0	T	G	bias_e_value=2.2187e-06	bias_p_value=4.77517e-13	fisher_strand_p_value=1.45308e-14	frequency=5.931139e-02	genotype_quality=833.1	ks_quality_p_value=1	log10_base_likelihood=-7.74874	log10_qual_likelihood_position_model=37.4381	log10_strand_likelihood_position_model=13.8377	new_cov=34/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=83/155	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/156
RA	86	.	NC_007779	193477	1	.	G	bias_e_value=2590760	bias_p_value=0.557592	fisher_strand_p_value=0.242773	frequency=8.298874e-03	genotype_quality=1203.2	ks_quality_p_value=0.918447	log10_base_likelihood=-7.88879	log10_qual_likelihood_position_model=1.30163	log10_strand_likelihood_position_model=0.614799	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=6.80937e-08	ref_cov=117/122	reject=POLYMORPHISM_STRAND	tot_cov=119/122
RA	87	.	NC_007779	193480	0	C	G	bias_e_value=4.66433e-12	bias_p_value=1.00387e-18	fisher_strand_p_value=2.17445e-20	frequency=1.898351e-01	genotype_quality=614.0	ks_quality_p_value=0.997612	log10_base_likelihood=-56.4023	log10_qual_likelihood_position_model=30.5599	log10_strand_likelihood_position_model=19.6627	new_cov=40/0	polymorphism_quality=51.3	quality=51.3	quality_position_model=4.15641e-08	ref_cov=40/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=80/124
RA	88	.	NC_007779	193483	0	C	G	bias_e_value=4.65043e-06	bias_p_value=1.00088e-12	fisher_strand_p_value=3.11812e-14	frequency=1.005092e-01	genotype_quality=637.4	ks_quality_p_value=1	log10_base_likelihood=-11.5645	log10_qual_likelihood_position_model=24.6936	log10_strand_likelihood_position_model=13.5061	new_cov=27/0	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=44/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=71/124
RA	89	.	NC_007779	193489	0	G	T	bias_e_value=0.00264077	bias_p_value=5.68355e-10	fisher_strand_p_value=2.2264e-11	frequency=9.321308e-02	genotype_quality=792.0	ks_quality_p_value=1	log10_base_likelihood=-17.2628	log10_qual_likelihood_position_model=20.0064	log10_strand_likelihood_position_model=10.6524	new_cov=25/0	polymorphism_quality=11.9	quality=11.9	quality_position_model=Inf	ref_cov=69/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=94/136
RA	90	.	NC_007779	193496	0	A	T	bias_e_value=0.014468	bias_p_value=3.11386e-09	fisher_strand_p_value=1.31081e-10	frequency=9.267569e-02	genotype_quality=778.3	ks_quality_p_value=1	log10_base_likelihood=-30.1764	log10_qual_likelihood_position_model=25.6191	log10_strand_likelihood_position_model=9.88246	new_cov=20/0	polymorphism_quality=25.0	quality=25.0	quality_position_model=Inf	ref_cov=54/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=74/136
RA	91	.	NC_007779	197339	0	G	.	bias_e_value=3152850	bias_p_value=0.678569	fisher_strand_p_value=1	frequency=7.487297e-03	genotype_quality=1162.8	ks_quality_p_value=0.314728	log10_base_likelihood=-5.7165	log10_qual_likelihood_position_model=1.31585	log10_strand_likelihood_position_model=0.321142	new_cov=1/1	polymorphism_quality=0.2	quality=0.2	quality_position_model=6.3482e-06	ref_cov=103/162	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/163
RA	92	.	NC_007779	212548	0	T	G	bias_e_value=6.56262e-10	bias_p_value=1.41243e-16	fisher_strand_p_value=3.42699e-18	frequency=1.335702e-01	genotype_quality=539.9	ks_quality_p_value=1	log10_base_likelihood=-18.018	log10_qual_likelihood_position_model=34.6458	log10_strand_likelihood_position_model=17.4651	new_cov=39/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=44/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=84/113
RA	93	.	NC_007779	215133	1	.	A	bias_e_value=4000030	bias_p_value=0.860901	fisher_strand_p_value=1	frequency=7.843018e-03	genotype_quality=1266.7	ks_quality_p_value=0.521316	log10_base_likelihood=-8.23704	log10_qual_likelihood_position_model=1.26115	log10_strand_likelihood_position_model=0.299491	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.27732e-08	ref_cov=124/129	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/130
RA	94	.	NC_007779	222957	1	.	A	bias_e_value=4507760	bias_p_value=0.970176	fisher_strand_p_value=1	frequency=8.163452e-03	genotype_quality=1219.4	ks_quality_p_value=0.765928	log10_base_likelihood=-8.3399	log10_qual_likelihood_position_model=1.1052	log10_strand_likelihood_position_model=0.307205	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=7.041e-09	ref_cov=138/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/106
RA	95	.	NC_007779	233118	0	T	C	bias_e_value=45.8448	bias_p_value=9.86689e-06	fisher_strand_p_value=6.50182e-07	frequency=3.969574e-02	genotype_quality=613.5	ks_quality_p_value=0.995057	log10_base_likelihood=-6.43398	log10_qual_likelihood_position_model=10.0449	log10_strand_likelihood_position_model=6.18697	new_cov=0/7	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=139/17	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/24
RA	96	.	NC_007779	249538	0	T	G	bias_e_value=0.00204808	bias_p_value=4.40796e-10	fisher_strand_p_value=1.70901e-11	frequency=5.713844e-02	genotype_quality=709.8	ks_quality_p_value=1	log10_base_likelihood=-6.6578	log10_qual_likelihood_position_model=32.0209	log10_strand_likelihood_position_model=10.7673	new_cov=30/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=80/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/122
RA	97	.	NC_007779	258239	1	.	G	bias_e_value=2326700	bias_p_value=0.50076	fisher_strand_p_value=0.187136	frequency=8.028030e-03	genotype_quality=1243.0	ks_quality_p_value=1	log10_base_likelihood=-5.70315	log10_qual_likelihood_position_model=4.48962	log10_strand_likelihood_position_model=0.727843	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.0628692	ref_cov=106/141	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=108/141
RA	98	.	NC_007779	265564	0	T	G	bias_e_value=5.64385e-06	bias_p_value=1.21469e-12	fisher_strand_p_value=3.80791e-14	frequency=8.020115e-02	genotype_quality=576.3	ks_quality_p_value=1	log10_base_likelihood=-9.27938	log10_qual_likelihood_position_model=23.2039	log10_strand_likelihood_position_model=13.4193	new_cov=34/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=59/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=93/112
RA	99	.	NC_007779	269245	0	A	.	bias_e_value=4049000	bias_p_value=0.871439	fisher_strand_p_value=0.575719	frequency=1.090145e-02	genotype_quality=1118.7	ks_quality_p_value=0.934302	log10_base_likelihood=-8.22052	log10_qual_likelihood_position_model=3.12893	log10_strand_likelihood_position_model=0.507548	new_cov=1/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.88307e-06	ref_cov=157/114	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=159/116
RA	100	.	NC_007779	274547	0	A	G	frequency=1	genotype_quality=1151.6	new_cov=134/134	quality=1151.6	ref_cov=0/0	tot_cov=134/134
RA	101	.	NC_007779	300588	0	A	C	deleted=1	frequency=1	genotype_quality=0.4	new_cov=0/1	quality=0.4	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	102	.	NC_007779	329646	0	G	T	deleted=1	frequency=1	genotype_quality=0.9	new_cov=0/1	quality=0.9	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	103	.	NC_007779	365514	0	C	T	deleted=1	frequency=1	genotype_quality=19.9	new_cov=5/0	quality=19.9	ref_cov=0/0	tot_cov=5/0
RA	104	.	NC_007779	365524	0	G	.	deleted=1	frequency=1	genotype_quality=24.6	new_cov=5/0	quality=24.6	ref_cov=0/0	tot_cov=5/0
RA	105	.	NC_007779	374799	0	T	G	bias_e_value=1.47408e-18	bias_p_value=3.17258e-25	fisher_strand_p_value=5.15618e-27	frequency=1.178832e-01	genotype_quality=593.1	ks_quality_p_value=1	log10_base_likelihood=-14.2111	log10_qual_likelihood_position_model=34.9498	log10_strand_likelihood_position_model=26.2877	new_cov=35/0	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=15/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=51/144
RA	106	.	NC_007779	379226	0	C	A	bias_e_value=91207.9	bias_p_value=0.0196301	fisher_strand_p_value=0.00286394	frequency=2.082253e-02	genotype_quality=884.2	ks_quality_p_value=0.999771	log10_base_likelihood=-5.90567	log10_qual_likelihood_position_model=7.17121	log10_strand_likelihood_position_model=2.54304	new_cov=0/6	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=143/83	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=143/89
RA	107	.	NC_007779	379236	1	.	G	bias_e_value=2136340	bias_p_value=0.459791	fisher_strand_p_value=0.295212	frequency=1.530647e-02	genotype_quality=943.4	ks_quality_p_value=0.554218	log10_base_likelihood=-12.7863	log10_qual_likelihood_position_model=2.64868	log10_strand_likelihood_position_model=0.611042	new_cov=3/0	polymorphism_quality=7.4	quality=7.4	quality_position_model=1.52287e-11	ref_cov=120/73	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/73
RA	108	.	NC_007779	379237	0	G	.	bias_e_value=4574300	bias_p_value=0.984496	fisher_strand_p_value=1	frequency=3.316784e-02	genotype_quality=862.3	ks_quality_p_value=0.829159	log10_base_likelihood=-23.0449	log10_qual_likelihood_position_model=2.93923	log10_strand_likelihood_position_model=0.532564	new_cov=4/3	polymorphism_quality=17.8	quality=17.8	quality_position_model=9.64877e-22	ref_cov=124/80	reject=INDEL_HOMOPOLYMER	tot_cov=128/83
RA	109	.	NC_007779	387560	0	A	C	bias_e_value=1.05253e-12	bias_p_value=2.2653e-19	fisher_strand_p_value=4.73929e-21	frequency=1.153717e-01	genotype_quality=737.4	ks_quality_p_value=1	log10_base_likelihood=-18.2765	log10_qual_likelihood_position_model=35.8046	log10_strand_likelihood_position_model=20.3243	new_cov=0/55	polymorphism_quality=13.0	quality=13.0	quality_position_model=Inf	ref_cov=144/81	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/137
RA	110	.	NC_007779	387917	0	T	G	bias_e_value=2434.5	bias_p_value=0.000523962	fisher_strand_p_value=4.78627e-05	frequency=2.784252e-02	genotype_quality=483.2	ks_quality_p_value=1	log10_base_likelihood=-7.66604	log10_qual_likelihood_position_model=7.92656	log10_strand_likelihood_position_model=4.32903	new_cov=2/5	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=143/9	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=146/14
RA	111	.	NC_007779	387919	0	A	G	bias_e_value=1.52515e-05	bias_p_value=3.28249e-12	fisher_strand_p_value=1.06418e-13	frequency=6.273985e-02	genotype_quality=530.2	ks_quality_p_value=0.999124	log10_base_likelihood=-15.0032	log10_qual_likelihood_position_model=11.674	log10_strand_likelihood_position_model=12.973	new_cov=0/11	polymorphism_quality=9.7	quality=9.7	quality_position_model=Inf	ref_cov=148/5	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=148/16
RA	112	.	NC_007779	407306	0	C	A	bias_e_value=127.67	bias_p_value=2.74777e-05	fisher_strand_p_value=1.94161e-06	frequency=5.722094e-02	genotype_quality=792.0	ks_quality_p_value=1	log10_base_likelihood=-8.48296	log10_qual_likelihood_position_model=17.5855	log10_strand_likelihood_position_model=5.98981	new_cov=21/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=112/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/114
RA	113	.	NC_007779	418928	0	C	G	bias_e_value=0.110854	bias_p_value=2.38583e-08	fisher_strand_p_value=1.11043e-09	frequency=4.931259e-02	genotype_quality=634.1	ks_quality_p_value=0.993561	log10_base_likelihood=-7.58001	log10_qual_likelihood_position_model=11.1023	log10_strand_likelihood_position_model=8.95451	new_cov=10/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=16/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=26/146
RA	114	.	NC_007779	429745	0	T	.	bias_e_value=2311320	bias_p_value=0.497451	fisher_strand_p_value=1	frequency=1.090240e-02	genotype_quality=1111.6	ks_quality_p_value=0.185167	log10_base_likelihood=-8.25786	log10_qual_likelihood_position_model=2.65337	log10_strand_likelihood_position_model=0.413673	new_cov=2/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=4.39633e-07	ref_cov=139/133	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/134
RA	115	.	NC_007779	432858	0	T	G	bias_e_value=4.88759e-14	bias_p_value=1.05192e-20	fisher_strand_p_value=2.06537e-22	frequency=1.409497e-01	genotype_quality=650.2	ks_quality_p_value=1	log10_base_likelihood=-20.1135	log10_qual_likelihood_position_model=40.1779	log10_strand_likelihood_position_model=21.7322	new_cov=63/0	polymorphism_quality=14.8	quality=14.8	quality_position_model=Inf	ref_cov=75/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=139/127
RA	116	.	NC_007779	440767	0	G	T	bias_e_value=0.145518	bias_p_value=3.13189e-08	fisher_strand_p_value=1.46764e-09	frequency=8.405066e-02	genotype_quality=849.2	ks_quality_p_value=1	log10_base_likelihood=-19.281	log10_qual_likelihood_position_model=19.5234	log10_strand_likelihood_position_model=8.84342	new_cov=1/28	polymorphism_quality=14.0	quality=14.0	quality_position_model=Inf	ref_cov=145/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/127
RA	117	.	NC_007779	450484	0	G	T	bias_e_value=0.536147	bias_p_value=1.15392e-07	fisher_strand_p_value=6.05348e-09	frequency=7.872963e-02	genotype_quality=695.1	ks_quality_p_value=0.954575	log10_base_likelihood=-16.2568	log10_qual_likelihood_position_model=20.2428	log10_strand_likelihood_position_model=8.21799	new_cov=18/0	polymorphism_quality=10.9	quality=10.9	quality_position_model=Inf	ref_cov=59/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=77/127
RA	118	.	NC_007779	455713	1	.	T	bias_e_value=4579380	bias_p_value=0.98559	fisher_strand_p_value=1	frequency=8.130074e-03	genotype_quality=1220.3	ks_quality_p_value=0.835108	log10_base_likelihood=-8.33635	log10_qual_likelihood_position_model=0.82925	log10_strand_likelihood_position_model=0.29929	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=3.62384e-09	ref_cov=123/121	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/122
RA	119	.	NC_007779	465801	0	C	A	bias_e_value=0.000832642	bias_p_value=1.79204e-10	fisher_strand_p_value=6.8253e-12	frequency=9.662199e-02	genotype_quality=720.4	ks_quality_p_value=0.982329	log10_base_likelihood=-25.7811	log10_qual_likelihood_position_model=26.9299	log10_strand_likelihood_position_model=11.1659	new_cov=0/23	polymorphism_quality=20.6	quality=20.6	quality_position_model=Inf	ref_cov=137/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/78
RA	120	.	NC_007779	467487	1	.	T	bias_e_value=2089470	bias_p_value=0.449704	fisher_strand_p_value=1	frequency=9.259224e-03	genotype_quality=1056.4	ks_quality_p_value=0.158091	log10_base_likelihood=-8.45495	log10_qual_likelihood_position_model=2.18977	log10_strand_likelihood_position_model=0.302041	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=6.96055e-08	ref_cov=98/116	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=99/117
RA	121	.	NC_007779	468787	1	.	A	bias_e_value=4644750	bias_p_value=0.99966	fisher_strand_p_value=1	frequency=7.691383e-03	genotype_quality=1286.4	ks_quality_p_value=0.974046	log10_base_likelihood=-7.64664	log10_qual_likelihood_position_model=1.64188	log10_strand_likelihood_position_model=0.300283	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.28921e-07	ref_cov=123/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/136
RA	122	.	NC_007779	480442	1	.	G	bias_e_value=3904340	bias_p_value=0.840305	fisher_strand_p_value=0.506803	frequency=9.302139e-03	genotype_quality=1068.4	ks_quality_p_value=0.96896	log10_base_likelihood=-7.55221	log10_qual_likelihood_position_model=2.43754	log10_strand_likelihood_position_model=0.493707	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.72323e-06	ref_cov=120/93	reject=POLYMORPHISM_STRAND	tot_cov=122/93
RA	123	.	NC_007779	487248	0	C	A	bias_e_value=480.728	bias_p_value=0.000103464	fisher_strand_p_value=8.13433e-06	frequency=5.043745e-02	genotype_quality=816.2	ks_quality_p_value=1	log10_base_likelihood=-7.5197	log10_qual_likelihood_position_model=13.7413	log10_strand_likelihood_position_model=5.08968	new_cov=0/13	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=133/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/97
RA	124	.	NC_007779	494823	0	T	G	bias_e_value=1.96996e-10	bias_p_value=4.23982e-17	fisher_strand_p_value=9.98833e-19	frequency=1.049061e-01	genotype_quality=590.6	ks_quality_p_value=1	log10_base_likelihood=-12.5198	log10_qual_likelihood_position_model=30.6893	log10_strand_likelihood_position_model=18.0005	new_cov=29/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=Inf	ref_cov=27/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=57/130
RA	125	.	NC_007779	497098	0	A	G	bias_e_value=1484.52	bias_p_value=0.000319503	fisher_strand_p_value=2.79336e-05	frequency=4.277706e-02	genotype_quality=679.6	ks_quality_p_value=0.995449	log10_base_likelihood=-9.36289	log10_qual_likelihood_position_model=12.1007	log10_strand_likelihood_position_model=4.55387	new_cov=0/9	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=130/54	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=130/63
RA	126	.	NC_007779	503058	0	T	C	bias_e_value=4.52984e-05	bias_p_value=9.74929e-12	fisher_strand_p_value=3.27745e-13	frequency=9.327173e-02	genotype_quality=759.7	ks_quality_p_value=1	log10_base_likelihood=-12.5489	log10_qual_likelihood_position_model=26.7091	log10_strand_likelihood_position_model=12.4845	new_cov=0/31	polymorphism_quality=7.2	quality=7.2	quality_position_model=Inf	ref_cov=135/73	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/104
RA	127	.	NC_007779	506363	1	.	A	bias_e_value=4278880	bias_p_value=0.920916	fisher_strand_p_value=1	frequency=7.326126e-03	genotype_quality=1366.9	ks_quality_p_value=0.62964	log10_base_likelihood=-8.3911	log10_qual_likelihood_position_model=0.972006	log10_strand_likelihood_position_model=0.300749	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=4.47924e-09	ref_cov=128/143	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/144
RA	128	.	NC_007779	513848	0	A	C	bias_e_value=3.43884e-09	bias_p_value=7.40118e-16	fisher_strand_p_value=1.87294e-17	frequency=7.249975e-02	genotype_quality=628.0	ks_quality_p_value=1	log10_base_likelihood=-8.37278	log10_qual_likelihood_position_model=24.6298	log10_strand_likelihood_position_model=16.7275	new_cov=0/25	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=140/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=140/51
RA	129	.	NC_007779	522430	1	.	T	bias_e_value=4144110	bias_p_value=0.89191	fisher_strand_p_value=0.650609	frequency=2.325535e-02	genotype_quality=1036.7	ks_quality_p_value=0.880228	log10_base_likelihood=-23.1785	log10_qual_likelihood_position_model=3.23854	log10_strand_likelihood_position_model=0.569587	new_cov=4/1	polymorphism_quality=17.9	quality=17.9	quality_position_model=1.54676e-21	ref_cov=127/83	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/84
RA	130	.	NC_007779	524490	0	T	G	bias_e_value=9.64282e-08	bias_p_value=2.07536e-14	fisher_strand_p_value=5.75018e-16	frequency=9.852743e-02	genotype_quality=689.1	ks_quality_p_value=1	log10_base_likelihood=-18.9883	log10_qual_likelihood_position_model=27.4598	log10_strand_likelihood_position_model=15.2403	new_cov=26/0	polymorphism_quality=13.7	quality=13.7	quality_position_model=Inf	ref_cov=39/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=65/149
RA	131	.	NC_007779	527270	0	A	C	bias_e_value=0.000166191	bias_p_value=3.57682e-11	fisher_strand_p_value=1.25943e-12	frequency=7.959747e-02	genotype_quality=686.5	ks_quality_p_value=1	log10_base_likelihood=-9.41669	log10_qual_likelihood_position_model=25.7668	log10_strand_likelihood_position_model=11.8998	new_cov=0/23	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=141/50	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=141/73
RA	132	.	NC_007779	528272	0	T	.	bias_e_value=4538410	bias_p_value=0.976773	fisher_strand_p_value=1	frequency=2.192307e-02	genotype_quality=926.0	ks_quality_p_value=0.792357	log10_base_likelihood=-15.2832	log10_qual_likelihood_position_model=2.90111	log10_strand_likelihood_position_model=0.457013	new_cov=3/2	polymorphism_quality=9.9	quality=9.9	quality_position_model=5.46026e-14	ref_cov=136/87	reject=INDEL_HOMOPOLYMER	tot_cov=139/89
RA	133	.	NC_007779	535125	0	T	G	bias_e_value=5.58212e-17	bias_p_value=1.2014e-23	fisher_strand_p_value=2.07735e-25	frequency=1.605039e-01	genotype_quality=607.3	ks_quality_p_value=1	log10_base_likelihood=-19.243	log10_qual_likelihood_position_model=39.923	log10_strand_likelihood_position_model=24.6825	new_cov=64/0	polymorphism_quality=13.9	quality=13.9	quality_position_model=Inf	ref_cov=59/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/128
RA	134	.	NC_007779	535142	0	A	G	bias_e_value=0.0471791	bias_p_value=1.01541e-08	fisher_strand_p_value=4.50895e-10	frequency=6.034946e-02	genotype_quality=664.1	ks_quality_p_value=1	log10_base_likelihood=-5.80797	log10_qual_likelihood_position_model=14.7389	log10_strand_likelihood_position_model=9.34592	new_cov=21/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=61/128	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=82/128
RA	135	.	NC_007779	547694	0	A	G	frequency=1	genotype_quality=1232.6	new_cov=151/140	quality=1232.6	ref_cov=0/0	tot_cov=151/140
RA	136	.	NC_007779	547831	1	.	G	frequency=1	genotype_quality=1035.4	new_cov=111/129	quality=1035.4	ref_cov=0/1	tot_cov=111/130
RA	137	.	NC_007779	556653	0	A	C	bias_e_value=4.34055e-14	bias_p_value=9.34189e-21	fisher_strand_p_value=1.82985e-22	frequency=1.121655e-01	genotype_quality=630.4	ks_quality_p_value=1	log10_base_likelihood=-19.9238	log10_qual_likelihood_position_model=30.8422	log10_strand_likelihood_position_model=21.7376	new_cov=0/35	polymorphism_quality=14.6	quality=14.6	quality_position_model=Inf	ref_cov=145/29	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=145/64
RA	138	.	NC_007779	556858	0	A	T	frequency=1	genotype_quality=1194.2	new_cov=145/144	quality=1194.2	ref_cov=0/0	tot_cov=145/144
RA	139	.	NC_007779	569996	0	G	C	frequency=1	genotype_quality=1221.1	new_cov=148/128	quality=1221.1	ref_cov=0/0	tot_cov=148/128
RA	140	.	NC_007779	589157	0	T	G	bias_e_value=2.7127e-15	bias_p_value=5.83837e-22	fisher_strand_p_value=1.0836e-23	frequency=1.287313e-01	genotype_quality=602.8	ks_quality_p_value=1	log10_base_likelihood=-19.408	log10_qual_likelihood_position_model=38.3865	log10_strand_likelihood_position_model=22.9651	new_cov=40/0	polymorphism_quality=14.1	quality=14.1	quality_position_model=Inf	ref_cov=31/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=71/137
RA	141	.	NC_007779	595481	0	T	G	bias_e_value=5.71751e-13	bias_p_value=1.23054e-19	fisher_strand_p_value=2.54131e-21	frequency=7.472754e-02	genotype_quality=785.8	ks_quality_p_value=1	log10_base_likelihood=-6.42483	log10_qual_likelihood_position_model=37.1184	log10_strand_likelihood_position_model=20.7285	new_cov=59/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=89/146	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=149/146
RA	142	.	NC_007779	598799	0	T	G	bias_e_value=1.70808e-11	bias_p_value=3.67619e-18	fisher_strand_p_value=8.17836e-20	frequency=1.180778e-01	genotype_quality=587.0	ks_quality_p_value=1	log10_base_likelihood=-17.2645	log10_qual_likelihood_position_model=29.0679	log10_strand_likelihood_position_model=19.0873	new_cov=26/0	polymorphism_quality=11.9	quality=11.9	quality_position_model=Inf	ref_cov=19/139	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=45/139
RA	143	.	NC_007779	598802	0	T	G	bias_e_value=5.12236e-10	bias_p_value=1.10245e-16	fisher_strand_p_value=2.65851e-18	frequency=7.043839e-02	genotype_quality=601.5	ks_quality_p_value=1	log10_base_likelihood=-7.57626	log10_qual_likelihood_position_model=27.7072	log10_strand_likelihood_position_model=17.5754	new_cov=24/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=20/139	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=44/139
RA	144	.	NC_007779	606687	1	.	T	bias_e_value=1488430	bias_p_value=0.320345	fisher_strand_p_value=0.273271	frequency=1.140690e-02	genotype_quality=1299.5	ks_quality_p_value=0.350329	log10_base_likelihood=-12.9657	log10_qual_likelihood_position_model=1.66899	log10_strand_likelihood_position_model=0.683921	new_cov=3/0	polymorphism_quality=7.6	quality=7.6	quality_position_model=1.18556e-12	ref_cov=153/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=156/107
RA	145	.	NC_007779	606911	1	.	G	bias_e_value=98939.6	bias_p_value=0.0212941	fisher_strand_p_value=0.0068184	frequency=2.884579e-02	genotype_quality=1015.3	ks_quality_p_value=0.46196	log10_base_likelihood=-28.3865	log10_qual_likelihood_position_model=2.35674	log10_strand_likelihood_position_model=2.16632	new_cov=6/0	polymorphism_quality=23.2	quality=23.2	quality_position_model=4.48672e-26	ref_cov=86/116	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=92/116
RA	146	.	NC_007779	606915	0	T	G	bias_e_value=6575.06	bias_p_value=0.00141511	fisher_strand_p_value=0.000146601	frequency=2.786636e-02	genotype_quality=539.6	ks_quality_p_value=0.980195	log10_base_likelihood=-7.18099	log10_qual_likelihood_position_model=4.39886	log10_strand_likelihood_position_model=3.83386	new_cov=4/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=13/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=17/125
RA	147	.	NC_007779	612991	0	C	G	bias_e_value=1.4028e-10	bias_p_value=3.01917e-17	fisher_strand_p_value=7.06878e-19	frequency=1.315045e-01	genotype_quality=559.0	ks_quality_p_value=0.998035	log10_base_likelihood=-39.1841	log10_qual_likelihood_position_model=22.3962	log10_strand_likelihood_position_model=18.1507	new_cov=0/21	polymorphism_quality=34.0	quality=34.0	quality_position_model=Inf	ref_cov=126/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/31
RA	148	.	NC_007779	616029	0	C	A	bias_e_value=117.212	bias_p_value=2.52267e-05	fisher_strand_p_value=1.99469e-06	frequency=5.131531e-02	genotype_quality=679.5	ks_quality_p_value=0.88788	log10_base_likelihood=-15.4668	log10_qual_likelihood_position_model=16.5865	log10_strand_likelihood_position_model=5.70012	new_cov=0/11	polymorphism_quality=10.1	quality=10.1	quality_position_model=Inf	ref_cov=133/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/63
RA	149	.	NC_007779	623841	1	.	G	bias_e_value=2637960	bias_p_value=0.567752	fisher_strand_p_value=1	frequency=1.562500e-02	genotype_quality=634.4	ks_quality_p_value=0.229814	log10_base_likelihood=-8.9643	log10_qual_likelihood_position_model=1.7701	log10_strand_likelihood_position_model=0.0276869	new_cov=2/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=3.99626e-09	ref_cov=122/4	reject=POLYMORPHISM_STRAND	tot_cov=124/4
RA	150	.	NC_007779	623856	1	.	A	bias_e_value=4602150	bias_p_value=0.99049	fisher_strand_p_value=1	frequency=1.219463e-02	genotype_quality=811.4	ks_quality_p_value=0.865295	log10_base_likelihood=-8.70346	log10_qual_likelihood_position_model=1.07369	log10_strand_likelihood_position_model=0.222857	new_cov=2/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=2.26184e-09	ref_cov=125/37	reject=POLYMORPHISM_STRAND	tot_cov=127/37
RA	151	.	NC_007779	645484	0	A	C	bias_e_value=1.74119e-05	bias_p_value=3.74744e-12	fisher_strand_p_value=1.21926e-13	frequency=8.350801e-02	genotype_quality=870.5	ks_quality_p_value=1	log10_base_likelihood=-12.2906	log10_qual_likelihood_position_model=27.6853	log10_strand_likelihood_position_model=12.9139	new_cov=0/34	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=155/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=155/128
RA	152	.	NC_007779	645970	0	T	G	bias_e_value=1.46727e-11	bias_p_value=3.15792e-18	fisher_strand_p_value=7.00117e-20	frequency=1.134806e-01	genotype_quality=588.3	ks_quality_p_value=1	log10_base_likelihood=-22.4853	log10_qual_likelihood_position_model=25.2515	log10_strand_likelihood_position_model=19.1548	new_cov=25/0	polymorphism_quality=17.2	quality=17.2	quality_position_model=Inf	ref_cov=17/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=42/140
RA	153	.	NC_007779	645983	0	T	C	bias_e_value=35.2126	bias_p_value=7.57858e-06	fisher_strand_p_value=4.87897e-07	frequency=4.768133e-02	genotype_quality=638.3	ks_quality_p_value=1	log10_base_likelihood=-5.80723	log10_qual_likelihood_position_model=14.4896	log10_strand_likelihood_position_model=6.31167	new_cov=13/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=50/117	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=63/117
RA	154	.	NC_007779	646440	0	C	A	bias_e_value=3.97917e-09	bias_p_value=8.56412e-16	fisher_strand_p_value=2.17743e-17	frequency=8.352375e-02	genotype_quality=790.4	ks_quality_p_value=0.9991	log10_base_likelihood=-46.6318	log10_qual_likelihood_position_model=17.3603	log10_strand_likelihood_position_model=16.6621	new_cov=0/17	polymorphism_quality=41.5	quality=41.5	quality_position_model=1.0994e-14	ref_cov=174/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/29
RA	155	.	NC_007779	657963	1	.	T	bias_e_value=4255530	bias_p_value=0.915891	fisher_strand_p_value=1	frequency=7.379532e-03	genotype_quality=1318.7	ks_quality_p_value=0.618975	log10_base_likelihood=-7.90469	log10_qual_likelihood_position_model=2.1619	log10_strand_likelihood_position_model=0.300757	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.41169e-07	ref_cov=127/142	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/143
RA	156	.	NC_007779	657964	0	T	.	bias_e_value=1306040	bias_p_value=0.281091	fisher_strand_p_value=0.103016	frequency=2.172470e-02	genotype_quality=1040.3	ks_quality_p_value=0.772866	log10_base_likelihood=-16.8682	log10_qual_likelihood_position_model=6.29157	log10_strand_likelihood_position_model=1.14327	new_cov=5/1	polymorphism_quality=11.5	quality=11.5	quality_position_model=1.89641e-11	ref_cov=125/145	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/146
RA	157	.	NC_007779	660356	0	T	G	bias_e_value=4.03841e-20	bias_p_value=8.69161e-27	fisher_strand_p_value=1.33338e-28	frequency=1.801224e-01	genotype_quality=523.8	ks_quality_p_value=1	log10_base_likelihood=-22.7723	log10_qual_likelihood_position_model=44.9864	log10_strand_likelihood_position_model=27.875	new_cov=55/0	polymorphism_quality=17.5	quality=17.5	quality_position_model=Inf	ref_cov=31/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=86/124
RA	158	.	NC_007779	665062	0	C	A	bias_e_value=1.13665e-08	bias_p_value=2.44634e-15	fisher_strand_p_value=6.9737e-17	frequency=1.817460e-01	genotype_quality=564.2	ks_quality_p_value=0.916171	log10_base_likelihood=-49.919	log10_qual_likelihood_position_model=32.5969	log10_strand_likelihood_position_model=16.1565	new_cov=0/36	polymorphism_quality=44.8	quality=44.8	quality_position_model=0.00900228	ref_cov=111/44	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/82
RA	159	.	NC_007779	681584	0	G	A	bias_e_value=3176160	bias_p_value=0.683584	fisher_strand_p_value=0.338974	frequency=1.297092e-02	genotype_quality=1174.3	ks_quality_p_value=0.94135	log10_base_likelihood=-6.07654	log10_qual_likelihood_position_model=2.98888	log10_strand_likelihood_position_model=0.672733	new_cov=3/1	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.000370828	ref_cov=127/150	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=130/151
RA	160	.	NC_007779	686495	0	A	C	bias_e_value=2.0944e-14	bias_p_value=4.50764e-21	fisher_strand_p_value=8.7027e-23	frequency=1.341386e-01	genotype_quality=616.9	ks_quality_p_value=1	log10_base_likelihood=-45.3289	log10_qual_likelihood_position_model=27.5936	log10_strand_likelihood_position_model=22.0603	new_cov=0/29	polymorphism_quality=40.2	quality=40.2	quality_position_model=Inf	ref_cov=151/18	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/47
RA	161	.	NC_007779	687133	0	A	C	bias_e_value=0.139444	bias_p_value=3.00116e-08	fisher_strand_p_value=1.40344e-09	frequency=4.423714e-02	genotype_quality=854.5	ks_quality_p_value=1	log10_base_likelihood=-6.61243	log10_qual_likelihood_position_model=23.1992	log10_strand_likelihood_position_model=8.85281	new_cov=0/17	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=164/62	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=164/80
RA	162	.	NC_007779	688155	0	T	G	bias_e_value=1.37677e-06	bias_p_value=2.96313e-13	fisher_strand_p_value=8.88372e-15	frequency=7.139444e-02	genotype_quality=817.0	ks_quality_p_value=1	log10_base_likelihood=-8.18952	log10_qual_likelihood_position_model=41.2453	log10_strand_likelihood_position_model=14.0514	new_cov=38/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=90/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/146
RA	163	.	NC_007779	706385	1	.	T	bias_e_value=2287290	bias_p_value=0.492279	fisher_strand_p_value=0.232993	frequency=7.272720e-03	genotype_quality=1366.3	ks_quality_p_value=0.781635	log10_base_likelihood=-8.25235	log10_qual_likelihood_position_model=0.917088	log10_strand_likelihood_position_model=0.632658	new_cov=0/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.20032e-08	ref_cov=142/131	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/133
RA	164	.	NC_007779	706386	0	T	.	bias_e_value=938782	bias_p_value=0.202048	fisher_strand_p_value=0.440859	frequency=2.119255e-02	genotype_quality=1141.3	ks_quality_p_value=0.115131	log10_base_likelihood=-17.9077	log10_qual_likelihood_position_model=4.7666	log10_strand_likelihood_position_model=0.644606	new_cov=2/4	polymorphism_quality=12.6	quality=12.6	quality_position_model=1.43209e-14	ref_cov=142/135	reject=INDEL_HOMOPOLYMER	tot_cov=144/139
RA	165	.	NC_007779	710864	0	T	G	bias_e_value=0.0119944	bias_p_value=2.58148e-09	fisher_strand_p_value=1.0813e-10	frequency=5.699873e-02	genotype_quality=565.9	ks_quality_p_value=0.996781	log10_base_likelihood=-13.9722	log10_qual_likelihood_position_model=11.815	log10_strand_likelihood_position_model=9.96605	new_cov=9/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=7/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=16/138
RA	166	.	NC_007779	730851	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	167	.	NC_007779	730853	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	168	.	NC_007779	730854	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	169	.	NC_007779	730855	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	170	.	NC_007779	730856	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	171	.	NC_007779	730857	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	172	.	NC_007779	730858	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	173	.	NC_007779	730859	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	174	.	NC_007779	730860	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	175	.	NC_007779	749354	0	C	A	frequency=1	genotype_quality=1131.5	new_cov=146/128	quality=1131.5	ref_cov=0/0	tot_cov=147/128
RA	176	.	NC_007779	752693	0	A	C	bias_e_value=2.68219e-22	bias_p_value=5.7727e-29	fisher_strand_p_value=8.21453e-31	frequency=1.745682e-01	genotype_quality=733.8	ks_quality_p_value=1	log10_base_likelihood=-37.3748	log10_qual_likelihood_position_model=50.412	log10_strand_likelihood_position_model=30.0854	new_cov=0/55	polymorphism_quality=32.2	quality=32.2	quality_position_model=Inf	ref_cov=168/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=168/96
RA	177	.	NC_007779	753547	0	T	A	bias_e_value=0.133981	bias_p_value=2.88358e-08	fisher_strand_p_value=1.34581e-09	frequency=6.778336e-02	genotype_quality=755.9	ks_quality_p_value=1	log10_base_likelihood=-10.7458	log10_qual_likelihood_position_model=22.6412	log10_strand_likelihood_position_model=8.87101	new_cov=0/16	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=148/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=148/65
RA	178	.	NC_007779	758440	0	C	A	frequency=1	genotype_quality=1239.5	new_cov=147/154	quality=1239.5	ref_cov=0/0	tot_cov=147/154
RA	179	.	NC_007779	758450	0	T	A	bias_e_value=1571080	bias_p_value=0.338134	fisher_strand_p_value=0.428221	frequency=1.909447e-02	genotype_quality=1259.4	ks_quality_p_value=0.241572	log10_base_likelihood=-16.4603	log10_qual_likelihood_position_model=3.49139	log10_strand_likelihood_position_model=0.677172	new_cov=4/2	polymorphism_quality=11.1	quality=11.1	quality_position_model=2.31311e-14	ref_cov=145/163	reject=SURROUNDING_HOMOPOLYMER	tot_cov=149/165
RA	180	.	NC_007779	759019	0	C	G	bias_e_value=2.01873e-20	bias_p_value=4.34479e-27	fisher_strand_p_value=6.70052e-29	frequency=1.456928e-01	genotype_quality=684.6	ks_quality_p_value=0.984121	log10_base_likelihood=-72.1436	log10_qual_likelihood_position_model=28.6988	log10_strand_likelihood_position_model=28.1739	new_cov=0/28	polymorphism_quality=67.1	quality=67.1	quality_position_model=2.184e-17	ref_cov=159/5	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=159/33
RA	181	.	NC_007779	771319	0	T	G	bias_e_value=0.0370831	bias_p_value=7.98115e-09	fisher_strand_p_value=3.50486e-10	frequency=7.829762e-02	genotype_quality=522.9	ks_quality_p_value=1	log10_base_likelihood=-6.1925	log10_qual_likelihood_position_model=21.9239	log10_strand_likelihood_position_model=9.45533	new_cov=27/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=60/91	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/91
RA	182	.	NC_007779	796581	0	G	T	bias_e_value=64.9252	bias_p_value=1.39734e-05	fisher_strand_p_value=9.39185e-07	frequency=4.945087e-02	genotype_quality=819.6	ks_quality_p_value=1	log10_base_likelihood=-5.96023	log10_qual_likelihood_position_model=16.1252	log10_strand_likelihood_position_model=6.18462	new_cov=0/20	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=128/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/133
RA	183	.	NC_007779	814478	0	G	A	bias_e_value=64782.1	bias_p_value=0.0139426	fisher_strand_p_value=0.0981297	frequency=1.097488e-02	genotype_quality=1147.4	ks_quality_p_value=0.0195858	log10_base_likelihood=-5.58139	log10_qual_likelihood_position_model=2.4977	log10_strand_likelihood_position_model=1.0082	new_cov=3/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=0.00086547	ref_cov=123/146	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=126/146
RA	184	.	NC_007779	824398	0	A	C	bias_e_value=1.18276e-08	bias_p_value=2.54557e-15	fisher_strand_p_value=6.65535e-17	frequency=8.841324e-02	genotype_quality=710.9	ks_quality_p_value=1	log10_base_likelihood=-11.4976	log10_qual_likelihood_position_model=33.9379	log10_strand_likelihood_position_model=16.1768	new_cov=0/40	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=136/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/110
RA	185	.	NC_007779	827921	0	T	G	bias_e_value=2.14782e-11	bias_p_value=4.62261e-18	fisher_strand_p_value=1.03377e-19	frequency=8.352852e-02	genotype_quality=674.0	ks_quality_p_value=1	log10_base_likelihood=-10.3046	log10_qual_likelihood_position_model=30.9361	log10_strand_likelihood_position_model=18.9856	new_cov=44/0	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=60/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/138
RA	186	.	NC_007779	829585	0	G	T	bias_e_value=0.000779841	bias_p_value=1.6784e-10	fisher_strand_p_value=6.28956e-12	frequency=7.612562e-02	genotype_quality=661.5	ks_quality_p_value=0.995868	log10_base_likelihood=-21.089	log10_qual_likelihood_position_model=20.0686	log10_strand_likelihood_position_model=11.2014	new_cov=16/0	polymorphism_quality=15.8	quality=15.8	quality_position_model=Inf	ref_cov=27/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=43/141
RA	187	.	NC_007779	837857	0	A	.	bias_e_value=4604880	bias_p_value=0.99108	fisher_strand_p_value=1	frequency=1.110077e-02	genotype_quality=1107.5	ks_quality_p_value=0.869438	log10_base_likelihood=-7.96014	log10_qual_likelihood_position_model=2.02156	log10_strand_likelihood_position_model=0.411964	new_cov=1/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.97067e-07	ref_cov=130/137	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/139
RA	188	.	NC_007779	847616	0	T	C	bias_e_value=1278.57	bias_p_value=0.000275178	fisher_strand_p_value=2.36129e-05	frequency=4.335880e-02	genotype_quality=735.2	ks_quality_p_value=1	log10_base_likelihood=-7.75881	log10_qual_likelihood_position_model=17.4932	log10_strand_likelihood_position_model=4.62685	new_cov=13/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=90/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/123
RA	189	.	NC_007779	847635	0	A	C	bias_e_value=17.1853	bias_p_value=3.69867e-06	fisher_strand_p_value=2.26932e-07	frequency=4.461765e-02	genotype_quality=789.8	ks_quality_p_value=1	log10_base_likelihood=-6.76902	log10_qual_likelihood_position_model=21.598	log10_strand_likelihood_position_model=6.6441	new_cov=15/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=70/138	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=85/138
RA	190	.	NC_007779	853114	0	C	G	bias_e_value=5.78073e-09	bias_p_value=1.24415e-15	fisher_strand_p_value=3.19148e-17	frequency=1.093230e-01	genotype_quality=698.3	ks_quality_p_value=1	log10_base_likelihood=-30.0541	log10_qual_likelihood_position_model=21.8108	log10_strand_likelihood_position_model=16.498	new_cov=1/21	polymorphism_quality=24.9	quality=24.9	quality_position_model=Inf	ref_cov=151/15	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=152/36
RA	191	.	NC_007779	868836	1	.	C	bias_e_value=2994530	bias_p_value=0.644493	fisher_strand_p_value=0.609802	frequency=1.244831e-02	genotype_quality=1184.0	ks_quality_p_value=0.469644	log10_base_likelihood=-12.8421	log10_qual_likelihood_position_model=1.52083	log10_strand_likelihood_position_model=0.441439	new_cov=2/1	polymorphism_quality=7.5	quality=7.5	quality_position_model=6.33418e-13	ref_cov=114/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/125
RA	192	.	NC_007779	887234	0	C	A	frequency=1	genotype_quality=952.0	new_cov=142/108	quality=952.0	ref_cov=0/0	tot_cov=142/110
RA	193	.	NC_007779	888436	0	T	G	bias_e_value=3.45114e-07	bias_p_value=7.42768e-14	fisher_strand_p_value=2.13562e-15	frequency=6.018400e-02	genotype_quality=829.1	ks_quality_p_value=1	log10_base_likelihood=-6.80995	log10_qual_likelihood_position_model=31.2225	log10_strand_likelihood_position_model=14.6705	new_cov=41/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=94/146	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/146
RA	194	.	NC_007779	894943	0	T	G	bias_e_value=2.04439e-09	bias_p_value=4.4e-16	fisher_strand_p_value=1.09863e-17	frequency=8.396626e-02	genotype_quality=613.5	ks_quality_p_value=1	log10_base_likelihood=-9.2704	log10_qual_likelihood_position_model=27.1544	log10_strand_likelihood_position_model=16.9591	new_cov=25/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=25/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=50/141
RA	195	.	NC_007779	901814	0	A	C	bias_e_value=0.12704	bias_p_value=2.7342e-08	fisher_strand_p_value=1.27278e-09	frequency=7.513380e-02	genotype_quality=736.7	ks_quality_p_value=1	log10_base_likelihood=-9.30667	log10_qual_likelihood_position_model=25.4268	log10_strand_likelihood_position_model=9.19628	new_cov=0/28	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=121/93	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=121/122
RA	196	.	NC_007779	904838	0	C	A	bias_e_value=1.03494e-07	bias_p_value=2.22744e-14	fisher_strand_p_value=7.3981e-16	frequency=1.509848e-01	genotype_quality=774.9	ks_quality_p_value=0.835889	log10_base_likelihood=-45.1904	log10_qual_likelihood_position_model=33.2987	log10_strand_likelihood_position_model=15.2911	new_cov=45/0	polymorphism_quality=40.1	quality=40.1	quality_position_model=Inf	ref_cov=91/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/134
RA	197	.	NC_007779	911333	0	T	G	bias_e_value=0.00366081	bias_p_value=7.87892e-10	fisher_strand_p_value=3.12804e-11	frequency=5.524015e-02	genotype_quality=586.5	ks_quality_p_value=1	log10_base_likelihood=-10.4611	log10_qual_likelihood_position_model=17.3237	log10_strand_likelihood_position_model=10.5047	new_cov=14/0	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=22/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=36/135
RA	198	.	NC_007779	947970	0	C	A	bias_e_value=163.531	bias_p_value=3.51958e-05	fisher_strand_p_value=2.53473e-06	frequency=3.947830e-02	genotype_quality=912.5	ks_quality_p_value=1	log10_base_likelihood=-6.95681	log10_qual_likelihood_position_model=14.0954	log10_strand_likelihood_position_model=5.59607	new_cov=16/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=108/144	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/144
RA	199	.	NC_007779	954820	0	A	C	bias_e_value=2.14654e-13	bias_p_value=4.61986e-20	fisher_strand_p_value=9.34783e-22	frequency=1.677260e-01	genotype_quality=495.6	ks_quality_p_value=1	log10_base_likelihood=-18.6091	log10_qual_likelihood_position_model=34.0097	log10_strand_likelihood_position_model=21.0293	new_cov=0/50	polymorphism_quality=13.3	quality=13.3	quality_position_model=Inf	ref_cov=105/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/92
RA	200	.	NC_007779	969494	0	C	A	bias_e_value=29.174	bias_p_value=6.27893e-06	fisher_strand_p_value=3.99064e-07	frequency=4.746962e-02	genotype_quality=742.8	ks_quality_p_value=1	log10_base_likelihood=-6.62775	log10_qual_likelihood_position_model=13.2011	log10_strand_likelihood_position_model=6.39896	new_cov=16/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=79/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=96/133
RA	201	.	NC_007779	987436	0	A	C	bias_e_value=0.00257148	bias_p_value=5.53443e-10	fisher_strand_p_value=2.16563e-11	frequency=1.090450e-01	genotype_quality=604.7	ks_quality_p_value=1	log10_base_likelihood=-11.4037	log10_qual_likelihood_position_model=34.4497	log10_strand_likelihood_position_model=10.9501	new_cov=0/40	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=98/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=98/132
RA	202	.	NC_007779	987574	0	G	T	frequency=1	genotype_quality=813.7	new_cov=76/122	quality=813.7	ref_cov=0/0	tot_cov=76/122
RA	203	.	NC_007779	987916	0	T	G	bias_e_value=0.16523	bias_p_value=3.55614e-08	fisher_strand_p_value=1.67693e-09	frequency=5.543709e-02	genotype_quality=558.2	ks_quality_p_value=1	log10_base_likelihood=-16.3231	log10_qual_likelihood_position_model=13.0468	log10_strand_likelihood_position_model=8.77549	new_cov=10/0	polymorphism_quality=11.0	quality=11.0	quality_position_model=Inf	ref_cov=14/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=24/126
RA	204	.	NC_007779	991407	0	G	T	bias_e_value=63.2636	bias_p_value=1.36158e-05	fisher_strand_p_value=1.04126e-06	frequency=4.383850e-02	genotype_quality=941.0	ks_quality_p_value=0.877251	log10_base_likelihood=-8.45571	log10_qual_likelihood_position_model=19.9938	log10_strand_likelihood_position_model=5.98244	new_cov=0/18	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=151/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/144
RA	205	.	NC_007779	1001437	1	.	A	bias_e_value=2917040	bias_p_value=0.627817	fisher_strand_p_value=0.501724	frequency=7.326126e-03	genotype_quality=1369.5	ks_quality_p_value=0.544716	log10_base_likelihood=-8.15854	log10_qual_likelihood_position_model=2.08115	log10_strand_likelihood_position_model=0.533153	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.88949e-07	ref_cov=125/146	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/148
RA	206	.	NC_007779	1002413	0	T	G	bias_e_value=2.66649e-09	bias_p_value=5.73891e-16	fisher_strand_p_value=1.44276e-17	frequency=9.742641e-02	genotype_quality=755.6	ks_quality_p_value=1	log10_base_likelihood=-19.5039	log10_qual_likelihood_position_model=32.478	log10_strand_likelihood_position_model=16.8408	new_cov=38/0	polymorphism_quality=14.2	quality=14.2	quality_position_model=Inf	ref_cov=66/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/150
RA	207	.	NC_007779	1002640	0	G	.	bias_e_value=4635790	bias_p_value=0.997731	fisher_strand_p_value=1	frequency=7.687569e-03	genotype_quality=1126.4	ks_quality_p_value=0.93339	log10_base_likelihood=-5.56565	log10_qual_likelihood_position_model=1.19988	log10_strand_likelihood_position_model=0.301443	new_cov=1/1	polymorphism_quality=0.0	quality=0.0	quality_position_model=6.58538e-06	ref_cov=138/120	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/121
RA	208	.	NC_007779	1005102	1	.	T	bias_e_value=1978320	bias_p_value=0.425782	fisher_strand_p_value=1	frequency=1.293087e-02	genotype_quality=1136.2	ks_quality_p_value=0.145406	log10_base_likelihood=-13.1964	log10_qual_likelihood_position_model=2.09362	log10_strand_likelihood_position_model=0.406417	new_cov=1/2	polymorphism_quality=7.8	quality=7.8	quality_position_model=9.74335e-13	ref_cov=110/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=111/121
RA	209	.	NC_007779	1006080	0	C	A	bias_e_value=7131.23	bias_p_value=0.00153481	fisher_strand_p_value=0.000157297	frequency=3.294182e-02	genotype_quality=852.7	ks_quality_p_value=1	log10_base_likelihood=-6.19084	log10_qual_likelihood_position_model=10.5167	log10_strand_likelihood_position_model=3.80328	new_cov=11/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=105/135	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/135
RA	210	.	NC_007779	1013042	0	G	C	bias_e_value=1.01257	bias_p_value=2.1793e-07	fisher_strand_p_value=1.12922e-08	frequency=4.942656e-02	genotype_quality=671.6	ks_quality_p_value=1	log10_base_likelihood=-11.198	log10_qual_likelihood_position_model=10.5985	log10_strand_likelihood_position_model=7.94722	new_cov=0/10	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=143/22	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=143/32
RA	211	.	NC_007779	1019391	0	A	.	bias_e_value=4613240	bias_p_value=0.992878	fisher_strand_p_value=1	frequency=9.338379e-03	genotype_quality=1312.9	ks_quality_p_value=0.883048	log10_base_likelihood=-7.96783	log10_qual_likelihood_position_model=1.91265	log10_strand_likelihood_position_model=0.379245	new_cov=2/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.38001e-07	ref_cov=179/139	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=181/140
RA	212	.	NC_007779	1030153	1	.	A	bias_e_value=4038660	bias_p_value=0.869215	fisher_strand_p_value=1	frequency=8.298874e-03	genotype_quality=1144.7	ks_quality_p_value=0.534327	log10_base_likelihood=-7.98404	log10_qual_likelihood_position_model=2.64165	log10_strand_likelihood_position_model=0.301391	new_cov=1/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=6.2925e-07	ref_cov=128/111	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/112
RA	213	.	NC_007779	1037604	0	C	G	bias_e_value=2.91374e-08	bias_p_value=6.27106e-15	fisher_strand_p_value=1.68413e-16	frequency=1.449990e-01	genotype_quality=529.1	ks_quality_p_value=0.99769	log10_base_likelihood=-31.2741	log10_qual_likelihood_position_model=22.7167	log10_strand_likelihood_position_model=15.7736	new_cov=23/0	polymorphism_quality=26.1	quality=26.1	quality_position_model=Inf	ref_cov=18/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=41/112
RA	214	.	NC_007779	1072428	0	T	G	bias_e_value=0.0146691	bias_p_value=3.15713e-09	fisher_strand_p_value=1.32983e-10	frequency=5.195951e-02	genotype_quality=705.4	ks_quality_p_value=1	log10_base_likelihood=-8.36837	log10_qual_likelihood_position_model=19.0224	log10_strand_likelihood_position_model=9.8762	new_cov=21/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=60/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=81/138
RA	215	.	NC_007779	1078290	0	G	T	bias_e_value=2486860	bias_p_value=0.535231	fisher_strand_p_value=1	frequency=1.217461e-02	genotype_quality=1035.6	ks_quality_p_value=0.208399	log10_base_likelihood=-6.91138	log10_qual_likelihood_position_model=2.26425	log10_strand_likelihood_position_model=0.417253	new_cov=2/1	polymorphism_quality=1.4	quality=1.4	quality_position_model=4.41659e-06	ref_cov=123/120	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=125/121
RA	216	.	NC_007779	1086017	0	A	C	bias_e_value=6.00824e-11	bias_p_value=1.29311e-17	fisher_strand_p_value=2.96155e-19	frequency=1.030436e-01	genotype_quality=684.9	ks_quality_p_value=1	log10_base_likelihood=-12.9725	log10_qual_likelihood_position_model=30.0525	log10_strand_likelihood_position_model=18.5285	new_cov=0/42	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=136/57	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=136/99
RA	217	.	NC_007779	1093686	0	T	C	frequency=1	genotype_quality=1166.3	new_cov=117/145	quality=1166.3	ref_cov=0/0	tot_cov=117/145
RA	218	.	NC_007779	1097580	0	C	T	bias_e_value=461390	bias_p_value=0.099302	fisher_strand_p_value=0.763528	frequency=1.566858e-01	genotype_quality=853.4	ks_quality_p_value=0.0265502	log10_base_likelihood=-141.604	log10_qual_likelihood_position_model=20.1394	log10_strand_likelihood_position_model=0.93914	new_cov=24/28	polymorphism_quality=136.7	quality=136.7	quality_position_model=4.37837e-123	ref_cov=122/156	tot_cov=148/184
RA	219	.	NC_007779	1097765	0	A	.	bias_e_value=3753710	bias_p_value=0.807888	fisher_strand_p_value=1	frequency=5.130768e-03	genotype_quality=2159.7	ks_quality_p_value=0.4482	log10_base_likelihood=-7.4183	log10_qual_likelihood_position_model=1.13597	log10_strand_likelihood_position_model=0.372742	new_cov=1/2	polymorphism_quality=1.9	quality=1.9	quality_position_model=7.90735e-08	ref_cov=245/335	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=247/337
RA	220	.	NC_007779	1102094	0	G	A	bias_e_value=330987	bias_p_value=0.0712361	fisher_strand_p_value=0.107611	frequency=1.114750e-02	genotype_quality=1141.7	ks_quality_p_value=0.124627	log10_base_likelihood=-5.87806	log10_qual_likelihood_position_model=1.85078	log10_strand_likelihood_position_model=0.968143	new_cov=0/3	polymorphism_quality=0.3	quality=0.3	quality_position_model=7.57765e-05	ref_cov=140/125	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=140/128
RA	221	.	NC_007779	1105181	1	.	T	bias_e_value=3954870	bias_p_value=0.851181	fisher_strand_p_value=1	frequency=6.600380e-03	genotype_quality=1511.1	ks_quality_p_value=0.506712	log10_base_likelihood=-7.8394	log10_qual_likelihood_position_model=2.05296	log10_strand_likelihood_position_model=0.300167	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.16992e-07	ref_cov=145/156	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=146/157
RA	222	.	NC_007779	1116582	0	G	C	bias_e_value=5.46376e-24	bias_p_value=1.17593e-30	fisher_strand_p_value=1.58872e-32	frequency=1.782632e-01	genotype_quality=492.1	ks_quality_p_value=0.997237	log10_base_likelihood=-62.2215	log10_qual_likelihood_position_model=22.7635	log10_strand_likelihood_position_model=31.799	new_cov=0/29	polymorphism_quality=57.2	quality=57.2	quality_position_model=1.24579e-09	ref_cov=131/0	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=131/29
RA	223	.	NC_007779	1132905	0	G	C	bias_e_value=2.50151	bias_p_value=5.38383e-07	fisher_strand_p_value=2.94259e-08	frequency=5.442762e-02	genotype_quality=726.5	ks_quality_p_value=0.997397	log10_base_likelihood=-15.0269	log10_qual_likelihood_position_model=13.9784	log10_strand_likelihood_position_model=7.53127	new_cov=12/0	polymorphism_quality=9.7	quality=9.7	quality_position_model=Inf	ref_cov=39/147	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=51/147
RA	224	.	NC_007779	1148417	0	C	A	bias_e_value=7876.41	bias_p_value=0.00169519	fisher_strand_p_value=0.000182477	frequency=4.201889e-02	genotype_quality=921.0	ks_quality_p_value=0.963025	log10_base_likelihood=-6.48072	log10_qual_likelihood_position_model=18.7955	log10_strand_likelihood_position_model=3.80089	new_cov=17/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=153/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=172/109
RA	225	.	NC_007779	1153441	1	.	G	bias_e_value=699997	bias_p_value=0.150656	fisher_strand_p_value=0.145619	frequency=7.812500e-03	genotype_quality=1281.7	ks_quality_p_value=0.236923	log10_base_likelihood=-8.09062	log10_qual_likelihood_position_model=1.99524	log10_strand_likelihood_position_model=0.836782	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.73842e-07	ref_cov=96/158	reject=POLYMORPHISM_STRAND	tot_cov=98/158
RA	226	.	NC_007779	1158848	0	T	G	bias_e_value=2.44349e-22	bias_p_value=5.25897e-29	fisher_strand_p_value=7.47344e-31	frequency=1.793470e-01	genotype_quality=608.8	ks_quality_p_value=1	log10_base_likelihood=-25.4815	log10_qual_likelihood_position_model=44.6853	log10_strand_likelihood_position_model=30.1265	new_cov=63/0	polymorphism_quality=20.2	quality=20.2	quality_position_model=Inf	ref_cov=39/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/136
RA	227	.	NC_007779	1163018	0	T	G	bias_e_value=3.05277e-09	bias_p_value=6.57027e-16	fisher_strand_p_value=1.65754e-17	frequency=1.247926e-01	genotype_quality=759.1	ks_quality_p_value=1	log10_base_likelihood=-18.8664	log10_qual_likelihood_position_model=33.4216	log10_strand_likelihood_position_model=16.7805	new_cov=44/0	polymorphism_quality=13.6	quality=13.6	quality_position_model=Inf	ref_cov=81/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/144
RA	228	.	NC_007779	1164942	0	A	G	bias_e_value=35.9777	bias_p_value=7.74325e-06	fisher_strand_p_value=4.99237e-07	frequency=4.810095e-02	genotype_quality=613.4	ks_quality_p_value=1	log10_base_likelihood=-6.35719	log10_qual_likelihood_position_model=14.1454	log10_strand_likelihood_position_model=6.30918	new_cov=10/1	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=26/135	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=36/136
RA	229	.	NC_007779	1164944	0	T	G	bias_e_value=0.00481665	bias_p_value=1.03666e-09	fisher_strand_p_value=4.1629e-11	frequency=4.727459e-02	genotype_quality=620.9	ks_quality_p_value=1	log10_base_likelihood=-5.68008	log10_qual_likelihood_position_model=19.6778	log10_strand_likelihood_position_model=10.3806	new_cov=15/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=26/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=41/132
RA	230	.	NC_007779	1170573	0	C	T	frequency=1	genotype_quality=1062.0	new_cov=174/81	quality=1062.0	ref_cov=0/0	tot_cov=175/81
RA	231	.	NC_007779	1177683	0	A	G	bias_e_value=4.56885e-06	bias_p_value=9.83323e-13	fisher_strand_p_value=3.06167e-14	frequency=1.207595e-01	genotype_quality=527.1	ks_quality_p_value=1	log10_base_likelihood=-24.1768	log10_qual_likelihood_position_model=25.9851	log10_strand_likelihood_position_model=13.514	new_cov=22/0	polymorphism_quality=18.9	quality=18.9	quality_position_model=Inf	ref_cov=28/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=50/121
RA	232	.	NC_007779	1197797	0	C	T	bias_e_value=4637840	bias_p_value=0.998173	fisher_strand_p_value=1	frequency=2.232838e-02	genotype_quality=1129.2	ks_quality_p_value=0.940169	log10_base_likelihood=-12.8115	log10_qual_likelihood_position_model=2.94712	log10_strand_likelihood_position_model=0.502085	new_cov=3/3	polymorphism_quality=7.4	quality=7.4	quality_position_model=2.24164e-11	ref_cov=136/126	tot_cov=139/129
RA	233	.	NC_007779	1197809	0	C	T	bias_e_value=4195170	bias_p_value=0.902899	fisher_strand_p_value=1	frequency=1.880169e-02	genotype_quality=1108.4	ks_quality_p_value=0.593038	log10_base_likelihood=-10.1979	log10_qual_likelihood_position_model=2.39893	log10_strand_likelihood_position_model=0.500205	new_cov=2/3	polymorphism_quality=4.8	quality=4.8	quality_position_model=2.92167e-09	ref_cov=130/130	tot_cov=132/133
RA	234	.	NC_007779	1197822	0	T	C	bias_e_value=1705960	bias_p_value=0.367163	fisher_strand_p_value=0.370953	frequency=1.842690e-02	genotype_quality=1076.0	ks_quality_p_value=0.314311	log10_base_likelihood=-10.7168	log10_qual_likelihood_position_model=4.35672	log10_strand_likelihood_position_model=0.780627	new_cov=1/4	polymorphism_quality=5.3	quality=5.3	quality_position_model=1.73719e-07	ref_cov=131/134	reject=POLYMORPHISM_STRAND	tot_cov=132/138
RA	235	.	NC_007779	1197824	0	A	G	bias_e_value=1853360	bias_p_value=0.398888	fisher_strand_p_value=0.370928	frequency=1.845455e-02	genotype_quality=1069.3	ks_quality_p_value=0.355324	log10_base_likelihood=-9.97832	log10_qual_likelihood_position_model=4.1954	log10_strand_likelihood_position_model=0.780438	new_cov=1/4	polymorphism_quality=4.5	quality=4.5	quality_position_model=6.90058e-07	ref_cov=130/133	reject=POLYMORPHISM_STRAND	tot_cov=131/137
RA	236	.	NC_007779	1197857	0	G	C	bias_e_value=3795940	bias_p_value=0.816975	fisher_strand_p_value=0.616923	frequency=1.080799e-02	genotype_quality=1154.2	ks_quality_p_value=0.745159	log10_base_likelihood=-6.83881	log10_qual_likelihood_position_model=2.19623	log10_strand_likelihood_position_model=0.432509	new_cov=1/2	polymorphism_quality=1.3	quality=1.3	quality_position_model=4.6326e-06	ref_cov=140/134	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=141/136
RA	237	.	NC_007779	1213001	0	T	C	bias_e_value=1421570	bias_p_value=0.305954	fisher_strand_p_value=0.142868	frequency=1.541710e-02	genotype_quality=1066.9	ks_quality_p_value=0.627745	log10_base_likelihood=-9.30396	log10_qual_likelihood_position_model=1.85646	log10_strand_likelihood_position_model=0.944576	new_cov=4/0	polymorphism_quality=3.9	quality=3.9	quality_position_model=1.9283e-08	ref_cov=147/108	reject=POLYMORPHISM_STRAND	tot_cov=151/108
RA	238	.	NC_007779	1213013	0	T	C	bias_e_value=1838910	bias_p_value=0.395777	fisher_strand_p_value=0.135385	frequency=1.616287e-02	genotype_quality=1004.2	ks_quality_p_value=0.962213	log10_base_likelihood=-8.9951	log10_qual_likelihood_position_model=1.82704	log10_strand_likelihood_position_model=0.994445	new_cov=4/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=4.21795e-08	ref_cov=136/107	reject=POLYMORPHISM_STRAND	tot_cov=140/107
RA	239	.	NC_007779	1213658	0	C	.	bias_e_value=4564680	bias_p_value=0.982426	fisher_strand_p_value=1	frequency=1.388454e-02	genotype_quality=608.2	ks_quality_p_value=0.818475	log10_base_likelihood=-6.08605	log10_qual_likelihood_position_model=1.45038	log10_strand_likelihood_position_model=0.322916	new_cov=1/1	polymorphism_quality=0.5	quality=0.5	quality_position_model=3.61694e-06	ref_cov=54/88	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=55/89
RA	240	.	NC_007779	1215933	0	C	A	bias_e_value=1.77574	bias_p_value=3.8218e-07	fisher_strand_p_value=2.08715e-08	frequency=4.951954e-02	genotype_quality=806.7	ks_quality_p_value=0.97888	log10_base_likelihood=-8.62764	log10_qual_likelihood_position_model=18.1684	log10_strand_likelihood_position_model=7.68045	new_cov=0/13	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=156/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=156/60
RA	241	.	NC_007779	1223826	0	T	C	bias_e_value=0.00173924	bias_p_value=3.74326e-10	fisher_strand_p_value=1.44179e-11	frequency=7.362413e-02	genotype_quality=577.0	ks_quality_p_value=1	log10_base_likelihood=-7.82274	log10_qual_likelihood_position_model=18.1603	log10_strand_likelihood_position_model=10.8411	new_cov=0/19	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=124/36	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/55
RA	242	.	NC_007779	1224173	0	G	A	bias_e_value=6.29655e-10	bias_p_value=1.35517e-16	fisher_strand_p_value=3.28467e-18	frequency=1.698380e-01	genotype_quality=622.4	ks_quality_p_value=1	log10_base_likelihood=-36.1147	log10_qual_likelihood_position_model=34.3252	log10_strand_likelihood_position_model=17.4835	new_cov=0/42	polymorphism_quality=31.0	quality=31.0	quality_position_model=Inf	ref_cov=129/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/102
RA	243	.	NC_007779	1260543	1	.	G	bias_e_value=3653150	bias_p_value=0.786244	fisher_strand_p_value=0.512444	frequency=7.692337e-03	genotype_quality=1300.4	ks_quality_p_value=0.823873	log10_base_likelihood=-8.13524	log10_qual_likelihood_position_model=1.08728	log10_strand_likelihood_position_model=0.467453	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.60383e-08	ref_cov=150/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=152/108
RA	244	.	NC_007779	1260547	0	T	G	bias_e_value=17.5108	bias_p_value=3.76873e-06	fisher_strand_p_value=2.31514e-07	frequency=3.620052e-02	genotype_quality=577.1	ks_quality_p_value=1	log10_base_likelihood=-7.93995	log10_qual_likelihood_position_model=11.6389	log10_strand_likelihood_position_model=6.63542	new_cov=11/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=36/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=47/126
RA	245	.	NC_007779	1262041	0	T	C	bias_e_value=87812.3	bias_p_value=0.0188993	fisher_strand_p_value=0.00273895	frequency=3.287411e-02	genotype_quality=908.0	ks_quality_p_value=1	log10_base_likelihood=-6.49959	log10_qual_likelihood_position_model=12.972	log10_strand_likelihood_position_model=2.8928	new_cov=1/12	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=131/120	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=132/132
RA	246	.	NC_007779	1262472	0	A	C	bias_e_value=3.02005e-09	bias_p_value=6.49986e-16	fisher_strand_p_value=1.63932e-17	frequency=8.908463e-02	genotype_quality=764.7	ks_quality_p_value=1	log10_base_likelihood=-12.8301	log10_qual_likelihood_position_model=30.3161	log10_strand_likelihood_position_model=16.7853	new_cov=0/46	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=140/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/130
RA	247	.	NC_007779	1262561	0	C	T	bias_e_value=4109290	bias_p_value=0.884417	fisher_strand_p_value=0.621134	frequency=1.022625e-02	genotype_quality=1238.2	ks_quality_p_value=0.900795	log10_base_likelihood=-5.63233	log10_qual_likelihood_position_model=1.30034	log10_strand_likelihood_position_model=0.427505	new_cov=1/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=9.69112e-06	ref_cov=146/143	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=147/145
RA	248	.	NC_007779	1273395	1	.	G	bias_e_value=1457090	bias_p_value=0.313599	fisher_strand_p_value=0.154382	frequency=6.733894e-03	genotype_quality=1495.3	ks_quality_p_value=0.601611	log10_base_likelihood=-7.59308	log10_qual_likelihood_position_model=3.00955	log10_strand_likelihood_position_model=0.811404	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=1.3352e-05	ref_cov=115/180	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/180
RA	249	.	NC_007779	1273399	0	T	G	bias_e_value=3.59533e-35	bias_p_value=7.73801e-42	fisher_strand_p_value=7.71715e-44	frequency=2.070541e-01	genotype_quality=720.3	ks_quality_p_value=1	log10_base_likelihood=-50.0834	log10_qual_likelihood_position_model=58.9664	log10_strand_likelihood_position_model=43.1134	new_cov=72/1	polymorphism_quality=45.0	quality=45.0	quality_position_model=Inf	ref_cov=25/181	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/182
RA	250	.	NC_007779	1273404	0	A	T	bias_e_value=1.7277	bias_p_value=3.71842e-07	fisher_strand_p_value=1.98472e-08	frequency=3.168392e-02	genotype_quality=782.0	ks_quality_p_value=1	log10_base_likelihood=-7.43748	log10_qual_likelihood_position_model=9.87829	log10_strand_likelihood_position_model=7.7023	new_cov=7/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=12/184	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=19/184
RA	251	.	NC_007779	1288364	0	G	A	deleted=1	frequency=1	genotype_quality=88.1	new_cov=10/16	quality=88.1	ref_cov=0/0	tot_cov=10/16
RA	252	.	NC_007779	1288370	0	A	G	deleted=1	frequency=1	genotype_quality=29.7	new_cov=3/6	quality=29.7	ref_cov=0/0	tot_cov=3/6
RA	253	.	NC_007779	1288462	0	T	C	deleted=1	frequency=1	genotype_quality=44.5	new_cov=16/5	quality=44.5	ref_cov=0/0	tot_cov=16/5
RA	254	.	NC_007779	1288911	0	T	G	bias_e_value=0.0116844	bias_p_value=2.51476e-09	fisher_strand_p_value=1.04877e-10	frequency=3.987312e-02	genotype_quality=874.3	ks_quality_p_value=1	log10_base_likelihood=-7.18896	log10_qual_likelihood_position_model=24.9621	log10_strand_likelihood_position_model=9.97932	new_cov=26/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=89/145	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/145
RA	255	.	NC_007779	1294035	0	T	A	bias_e_value=625.733	bias_p_value=0.000134672	fisher_strand_p_value=1.08318e-05	frequency=4.604912e-02	genotype_quality=917.1	ks_quality_p_value=1	log10_base_likelihood=-9.41386	log10_qual_likelihood_position_model=22.9498	log10_strand_likelihood_position_model=4.9653	new_cov=0/14	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=147/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=147/123
RA	256	.	NC_007779	1303904	0	A	G	bias_e_value=4393760	bias_p_value=0.945641	fisher_strand_p_value=1	frequency=6.711912e-02	genotype_quality=929.2	ks_quality_p_value=0.688943	log10_base_likelihood=-48.5555	log10_qual_likelihood_position_model=7.66159	log10_strand_likelihood_position_model=0.718741	new_cov=9/9	polymorphism_quality=43.5	quality=43.5	quality_position_model=1.69293e-42	ref_cov=128/122	tot_cov=137/131
RA	257	.	NC_007779	1306022	0	T	.	bias_e_value=4594040	bias_p_value=0.988746	fisher_strand_p_value=1	frequency=1.033497e-02	genotype_quality=1175.5	ks_quality_p_value=0.853774	log10_base_likelihood=-7.81291	log10_qual_likelihood_position_model=2.69802	log10_strand_likelihood_position_model=0.380906	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.31362e-06	ref_cov=160/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=163/127
RA	258	.	NC_007779	1306089	0	G	C	bias_e_value=26.753	bias_p_value=5.75787e-06	fisher_strand_p_value=3.64784e-07	frequency=4.801321e-02	genotype_quality=666.4	ks_quality_p_value=0.997328	log10_base_likelihood=-8.25782	log10_qual_likelihood_position_model=12.1022	log10_strand_likelihood_position_model=6.43796	new_cov=10/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=34/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=44/134
RA	259	.	NC_007779	1318876	0	G	A	frequency=1	genotype_quality=969.3	new_cov=124/111	quality=969.3	ref_cov=0/0	tot_cov=124/111
RA	260	.	NC_007779	1324190	0	T	C	bias_e_value=0.0307953	bias_p_value=6.62787e-09	fisher_strand_p_value=2.88595e-10	frequency=6.599998e-02	genotype_quality=757.3	ks_quality_p_value=1	log10_base_likelihood=-10.1644	log10_qual_likelihood_position_model=16.9369	log10_strand_likelihood_position_model=9.53971	new_cov=0/22	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=146/74	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/97
RA	261	.	NC_007779	1324681	1	.	A	bias_e_value=4646060	bias_p_value=0.999942	fisher_strand_p_value=1	frequency=8.620262e-03	genotype_quality=1148.9	ks_quality_p_value=0.989263	log10_base_likelihood=-7.57279	log10_qual_likelihood_position_model=2.87177	log10_strand_likelihood_position_model=0.309739	new_cov=1/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=2.99375e-06	ref_cov=133/97	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/98
RA	262	.	NC_007779	1330179	0	T	G	bias_e_value=6.00244e-07	bias_p_value=1.29187e-13	fisher_strand_p_value=3.77628e-15	frequency=8.982658e-02	genotype_quality=745.2	ks_quality_p_value=1	log10_base_likelihood=-18.2338	log10_qual_likelihood_position_model=30.4758	log10_strand_likelihood_position_model=14.4229	new_cov=33/0	polymorphism_quality=12.9	quality=12.9	quality_position_model=Inf	ref_cov=65/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=98/141
RA	263	.	NC_007779	1352913	1	.	T	bias_e_value=5323.66	bias_p_value=0.00114578	fisher_strand_p_value=0.000275087	frequency=3.684235e-02	genotype_quality=869.3	ks_quality_p_value=0.413108	log10_base_likelihood=-33.5218	log10_qual_likelihood_position_model=2.94089	log10_strand_likelihood_position_model=3.56053	new_cov=7/0	polymorphism_quality=28.3	quality=28.3	quality_position_model=2.94072e-29	ref_cov=54/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=61/129
RA	264	.	NC_007779	1352922	0	T	C	bias_e_value=1.53931	bias_p_value=3.31297e-07	fisher_strand_p_value=1.77432e-08	frequency=4.624844e-02	genotype_quality=574.4	ks_quality_p_value=0.990166	log10_base_likelihood=-9.33614	log10_qual_likelihood_position_model=10.8342	log10_strand_likelihood_position_model=7.75097	new_cov=8/0	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=13/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=21/144
RA	265	.	NC_007779	1352924	0	A	C	bias_e_value=8588.44	bias_p_value=0.00184843	fisher_strand_p_value=0.000193554	frequency=3.391266e-02	genotype_quality=539.8	ks_quality_p_value=1	log10_base_likelihood=-6.48912	log10_qual_likelihood_position_model=12.0727	log10_strand_likelihood_position_model=3.73451	new_cov=6/3	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=16/139	reject=EVALUE,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=22/142
RA	266	.	NC_007779	1362103	0	A	C	bias_e_value=0.000416129	bias_p_value=8.95607e-11	fisher_strand_p_value=3.26287e-12	frequency=4.480648e-02	genotype_quality=825.7	ks_quality_p_value=1	log10_base_likelihood=-5.60163	log10_qual_likelihood_position_model=38.3619	log10_strand_likelihood_position_model=11.4864	new_cov=0/31	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=138/87	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/118
RA	267	.	NC_007779	1371749	1	.	T	bias_e_value=530587	bias_p_value=0.114195	fisher_strand_p_value=1	frequency=2.413845e-02	genotype_quality=1369.1	ks_quality_p_value=0.024183	log10_base_likelihood=-32.2109	log10_qual_likelihood_position_model=4.88289	log10_strand_likelihood_position_model=0.532458	new_cov=3/4	polymorphism_quality=27.0	quality=27.0	quality_position_model=4.95532e-29	ref_cov=130/153	reject=INDEL_HOMOPOLYMER	tot_cov=133/157
RA	268	.	NC_007779	1374596	0	C	A	bias_e_value=13292	bias_p_value=0.00286075	fisher_strand_p_value=0.000381997	frequency=3.647423e-02	genotype_quality=843.0	ks_quality_p_value=0.826537	log10_base_likelihood=-5.9556	log10_qual_likelihood_position_model=14.4772	log10_strand_likelihood_position_model=3.62443	new_cov=12/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=117/124	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/124
RA	269	.	NC_007779	1378219	0	A	C	bias_e_value=2.30148e-17	bias_p_value=4.95333e-24	fisher_strand_p_value=8.43334e-26	frequency=1.497145e-01	genotype_quality=626.5	ks_quality_p_value=1	log10_base_likelihood=-21.4119	log10_qual_likelihood_position_model=51.2798	log10_strand_likelihood_position_model=25.074	new_cov=0/55	polymorphism_quality=16.1	quality=16.1	quality_position_model=Inf	ref_cov=133/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/101
RA	270	.	NC_007779	1378854	0	A	C	bias_e_value=1.22929e-13	bias_p_value=2.64572e-20	fisher_strand_p_value=5.29243e-22	frequency=8.210945e-02	genotype_quality=748.8	ks_quality_p_value=1	log10_base_likelihood=-10.3904	log10_qual_likelihood_position_model=32.9694	log10_strand_likelihood_position_model=21.2763	new_cov=0/48	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=149/61	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/109
RA	271	.	NC_007779	1385448	0	A	C	bias_e_value=1.85295e-07	bias_p_value=3.98798e-14	fisher_strand_p_value=1.12591e-15	frequency=5.454969e-02	genotype_quality=734.9	ks_quality_p_value=1	log10_base_likelihood=-5.6055	log10_qual_likelihood_position_model=29.1626	log10_strand_likelihood_position_model=14.9485	new_cov=0/39	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=139/79	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/118
RA	272	.	NC_007779	1386502	0	T	G	bias_e_value=5.44283e-12	bias_p_value=1.17142e-18	fisher_strand_p_value=2.53997e-20	frequency=9.339714e-02	genotype_quality=730.1	ks_quality_p_value=1	log10_base_likelihood=-11.9773	log10_qual_likelihood_position_model=40.8776	log10_strand_likelihood_position_model=19.5952	new_cov=41/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=57/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=98/154
RA	273	.	NC_007779	1405508	0	G	T	bias_e_value=1.58586e-08	bias_p_value=3.41315e-15	fisher_strand_p_value=8.99444e-17	frequency=1.291785e-01	genotype_quality=556.1	ks_quality_p_value=1	log10_base_likelihood=-53.7426	log10_qual_likelihood_position_model=18.88	log10_strand_likelihood_position_model=16.046	new_cov=20/0	polymorphism_quality=48.7	quality=48.7	quality_position_model=5.61578e-21	ref_cov=13/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=33/121
RA	274	.	NC_007779	1409137	0	G	T	bias_e_value=7.38811e-07	bias_p_value=1.59009e-13	fisher_strand_p_value=4.67729e-15	frequency=1.559696e-01	genotype_quality=753.3	ks_quality_p_value=1	log10_base_likelihood=-45.129	log10_qual_likelihood_position_model=23.7467	log10_strand_likelihood_position_model=14.3495	new_cov=0/50	polymorphism_quality=40.0	quality=40.0	quality_position_model=5.48596e-09	ref_cov=122/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/157
RA	275	.	NC_007779	1412694	0	C	A	bias_e_value=0.611992	bias_p_value=1.31715e-07	fisher_strand_p_value=6.64228e-09	frequency=5.889082e-02	genotype_quality=891.9	ks_quality_p_value=1	log10_base_likelihood=-7.00687	log10_qual_likelihood_position_model=20.4335	log10_strand_likelihood_position_model=8.17768	new_cov=25/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=111/139	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/139
RA	276	.	NC_007779	1429714	0	C	.	deleted=1	frequency=1	genotype_quality=-0.2	new_cov=0/1	quality=-0.2	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	277	.	NC_007779	1429766	0	T	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	278	.	NC_007779	1437441	0	G	A	bias_e_value=0.170716	bias_p_value=3.6742e-08	fisher_strand_p_value=1.7354e-09	frequency=5.257130e-02	genotype_quality=778.7	ks_quality_p_value=1	log10_base_likelihood=-13.4289	log10_qual_likelihood_position_model=14.983	log10_strand_likelihood_position_model=8.7606	new_cov=0/11	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=162/25	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=163/37
RA	279	.	NC_007779	1437447	0	G	C	bias_e_value=4.32321e-15	bias_p_value=9.30456e-22	fisher_strand_p_value=1.74229e-23	frequency=1.409864e-01	genotype_quality=788.2	ks_quality_p_value=1	log10_base_likelihood=-27.4691	log10_qual_likelihood_position_model=32.7817	log10_strand_likelihood_position_model=22.7589	new_cov=0/44	polymorphism_quality=22.3	quality=22.3	quality_position_model=Inf	ref_cov=165/51	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=165/96
RA	280	.	NC_007779	1438936	1	.	T	bias_e_value=3894780	bias_p_value=0.838247	fisher_strand_p_value=0.50144	frequency=9.049416e-03	genotype_quality=1096.3	ks_quality_p_value=0.973578	log10_base_likelihood=-7.97955	log10_qual_likelihood_position_model=1.95765	log10_strand_likelihood_position_model=0.532087	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.15163e-07	ref_cov=118/101	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=120/101
RA	281	.	NC_007779	1442205	0	G	C	bias_e_value=0.212968	bias_p_value=4.58357e-08	fisher_strand_p_value=2.19072e-09	frequency=5.254459e-02	genotype_quality=624.2	ks_quality_p_value=0.999178	log10_base_likelihood=-7.45684	log10_qual_likelihood_position_model=12.5273	log10_strand_likelihood_position_model=8.65941	new_cov=0/10	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=135/16	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=135/26
RA	282	.	NC_007779	1476017	0	T	.	bias_e_value=4460910	bias_p_value=0.960093	fisher_strand_p_value=1	frequency=1.184845e-02	genotype_quality=948.2	ks_quality_p_value=0.731128	log10_base_likelihood=-8.02974	log10_qual_likelihood_position_model=1.68363	log10_strand_likelihood_position_model=0.389527	new_cov=1/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=7.07006e-08	ref_cov=113/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=115/138
RA	283	.	NC_007779	1483588	0	G	A	frequency=1	genotype_quality=934.4	new_cov=168/62	quality=934.4	ref_cov=0/0	tot_cov=168/62
RA	284	.	NC_007779	1483616	0	C	G	bias_e_value=2.06849e-11	bias_p_value=4.45188e-18	fisher_strand_p_value=9.94736e-20	frequency=1.028495e-01	genotype_quality=763.7	ks_quality_p_value=1	log10_base_likelihood=-37.6529	log10_qual_likelihood_position_model=24.2156	log10_strand_likelihood_position_model=19.0023	new_cov=0/22	polymorphism_quality=32.5	quality=32.5	quality_position_model=Inf	ref_cov=168/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=168/38
RA	285	.	NC_007779	1493621	0	T	C	bias_e_value=228.368	bias_p_value=4.91502e-05	fisher_strand_p_value=3.63398e-06	frequency=4.496288e-02	genotype_quality=904.9	ks_quality_p_value=1	log10_base_likelihood=-13.404	log10_qual_likelihood_position_model=15.0465	log10_strand_likelihood_position_model=5.43962	new_cov=0/14	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=151/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/111
RA	286	.	NC_007779	1496775	0	T	.	frequency=1	genotype_quality=1480.4	new_cov=120/173	quality=1480.4	ref_cov=0/0	tot_cov=120/173
RA	287	.	NC_007779	1502095	1	.	T	bias_e_value=4626080	bias_p_value=0.99564	fisher_strand_p_value=1	frequency=9.090424e-03	genotype_quality=1101.8	ks_quality_p_value=0.908088	log10_base_likelihood=-8.42801	log10_qual_likelihood_position_model=1.17908	log10_strand_likelihood_position_model=0.299626	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=6.68618e-09	ref_cov=105/113	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=106/114
RA	288	.	NC_007779	1509116	1	.	G	bias_e_value=2320150	bias_p_value=0.49935	fisher_strand_p_value=0.205987	frequency=7.518768e-03	genotype_quality=1339.7	ks_quality_p_value=0.904405	log10_base_likelihood=-7.96092	log10_qual_likelihood_position_model=0.98421	log10_strand_likelihood_position_model=0.686161	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=3.19398e-08	ref_cov=119/145	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/145
RA	289	.	NC_007779	1512930	0	T	C	bias_e_value=1.73704e-11	bias_p_value=3.73851e-18	fisher_strand_p_value=8.32019e-20	frequency=1.526365e-01	genotype_quality=601.4	ks_quality_p_value=1	log10_base_likelihood=-17.6857	log10_qual_likelihood_position_model=27.3513	log10_strand_likelihood_position_model=19.0799	new_cov=0/43	polymorphism_quality=12.4	quality=12.4	quality_position_model=Inf	ref_cov=129/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=129/95
RA	290	.	NC_007779	1515709	0	A	G	bias_e_value=1.22394e-16	bias_p_value=2.63421e-23	fisher_strand_p_value=4.61863e-25	frequency=1.801133e-01	genotype_quality=651.4	ks_quality_p_value=1	log10_base_likelihood=-46.9715	log10_qual_likelihood_position_model=45.2787	log10_strand_likelihood_position_model=24.3355	new_cov=48/0	polymorphism_quality=41.9	quality=41.9	quality_position_model=Inf	ref_cov=46/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=94/152
RA	291	.	NC_007779	1515714	0	A	T	bias_e_value=1.13063e-05	bias_p_value=2.43338e-12	fisher_strand_p_value=7.8039e-14	frequency=1.054673e-01	genotype_quality=767.7	ks_quality_p_value=1	log10_base_likelihood=-24.9023	log10_qual_likelihood_position_model=29.5001	log10_strand_likelihood_position_model=13.1077	new_cov=26/0	polymorphism_quality=19.7	quality=19.7	quality_position_model=Inf	ref_cov=55/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=81/149
RA	292	.	NC_007779	1527466	0	T	A	bias_e_value=0.082344	bias_p_value=1.77224e-08	fisher_strand_p_value=8.0789e-10	frequency=8.267546e-02	genotype_quality=827.0	ks_quality_p_value=1	log10_base_likelihood=-20.3382	log10_qual_likelihood_position_model=22.6473	log10_strand_likelihood_position_model=9.09265	new_cov=0/22	polymorphism_quality=15.1	quality=15.1	quality_position_model=Inf	ref_cov=145/80	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=145/102
RA	293	.	NC_007779	1527474	0	G	A	bias_e_value=1.88019e-07	bias_p_value=4.04661e-14	fisher_strand_p_value=1.14294e-15	frequency=1.350503e-01	genotype_quality=743.7	ks_quality_p_value=1	log10_base_likelihood=-42.6849	log10_qual_likelihood_position_model=33.1746	log10_strand_likelihood_position_model=14.942	new_cov=0/37	polymorphism_quality=37.6	quality=37.6	quality_position_model=Inf	ref_cov=146/77	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/114
RA	294	.	NC_007779	1527479	0	C	A	bias_e_value=1.11643	bias_p_value=2.40282e-07	fisher_strand_p_value=1.59794e-08	frequency=6.652117e-02	genotype_quality=913.8	ks_quality_p_value=0.783331	log10_base_likelihood=-19.0933	log10_qual_likelihood_position_model=27.1127	log10_strand_likelihood_position_model=7.79644	new_cov=0/21	polymorphism_quality=13.8	quality=13.8	quality_position_model=Inf	ref_cov=151/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=151/122
RA	295	.	NC_007779	1531018	0	A	C	bias_e_value=3.32461e-11	bias_p_value=7.15533e-18	fisher_strand_p_value=1.61633e-19	frequency=1.440096e-01	genotype_quality=500.5	ks_quality_p_value=1	log10_base_likelihood=-21.1263	log10_qual_likelihood_position_model=27.4007	log10_strand_likelihood_position_model=18.7915	new_cov=0/30	polymorphism_quality=15.9	quality=15.9	quality_position_model=Inf	ref_cov=117/22	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/52
RA	296	.	NC_007779	1537499	0	A	G	bias_e_value=1.17441e-14	bias_p_value=2.52761e-21	fisher_strand_p_value=4.825e-23	frequency=1.815662e-01	genotype_quality=683.9	ks_quality_p_value=1	log10_base_likelihood=-38.4623	log10_qual_likelihood_position_model=42.0206	log10_strand_likelihood_position_model=22.3165	new_cov=57/0	polymorphism_quality=33.3	quality=33.3	quality_position_model=Inf	ref_cov=70/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/142
RA	297	.	NC_007779	1552367	0	G	T	bias_e_value=0.0212374	bias_p_value=4.57078e-09	fisher_strand_p_value=1.959e-10	frequency=6.186104e-02	genotype_quality=752.4	ks_quality_p_value=0.99905	log10_base_likelihood=-8.79902	log10_qual_likelihood_position_model=15.0207	log10_strand_likelihood_position_model=9.70796	new_cov=0/21	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=138/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/83
RA	298	.	NC_007779	1552377	0	A	C	bias_e_value=3.98014e-21	bias_p_value=8.56619e-28	fisher_strand_p_value=1.26837e-29	frequency=1.625829e-01	genotype_quality=572.3	ks_quality_p_value=1	log10_base_likelihood=-20.0707	log10_qual_likelihood_position_model=39.5104	log10_strand_likelihood_position_model=28.8968	new_cov=0/51	polymorphism_quality=14.8	quality=14.8	quality_position_model=Inf	ref_cov=135/27	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/78
RA	299	.	NC_007779	1556166	0	T	.	bias_e_value=4600590	bias_p_value=0.990155	fisher_strand_p_value=1	frequency=1.223469e-02	genotype_quality=943.8	ks_quality_p_value=0.863003	log10_base_likelihood=-8.07614	log10_qual_likelihood_position_model=2.55129	log10_strand_likelihood_position_model=0.380047	new_cov=1/2	polymorphism_quality=2.6	quality=2.6	quality_position_model=4.90801e-07	ref_cov=106/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/137
RA	300	.	NC_007779	1561891	0	T	A	bias_e_value=107.168	bias_p_value=2.3065e-05	fisher_strand_p_value=1.60841e-06	frequency=6.518888e-02	genotype_quality=717.3	ks_quality_p_value=1	log10_base_likelihood=-8.33387	log10_qual_likelihood_position_model=16.3123	log10_strand_likelihood_position_model=5.7936	new_cov=0/16	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=115/80	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/97
RA	301	.	NC_007779	1561902	0	A	C	bias_e_value=0.00703186	bias_p_value=1.51342e-09	fisher_strand_p_value=6.17524e-11	frequency=6.314325e-02	genotype_quality=727.0	ks_quality_p_value=1	log10_base_likelihood=-6.14997	log10_qual_likelihood_position_model=25.0524	log10_strand_likelihood_position_model=10.2093	new_cov=0/25	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=132/72	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/97
RA	302	.	NC_007779	1562465	0	T	G	bias_e_value=1.2454e-07	bias_p_value=2.68038e-14	fisher_strand_p_value=7.48105e-16	frequency=1.316915e-01	genotype_quality=593.3	ks_quality_p_value=1	log10_base_likelihood=-25.0163	log10_qual_likelihood_position_model=27.5813	log10_strand_likelihood_position_model=15.126	new_cov=34/0	polymorphism_quality=19.8	quality=19.8	quality_position_model=Inf	ref_cov=54/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=88/127
RA	303	.	NC_007779	1562474	0	A	C	bias_e_value=12099.3	bias_p_value=0.00260405	fisher_strand_p_value=0.000284093	frequency=4.422474e-02	genotype_quality=660.6	ks_quality_p_value=1	log10_base_likelihood=-9.80847	log10_qual_likelihood_position_model=12.7732	log10_strand_likelihood_position_model=3.56779	new_cov=11/1	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=71/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/118
RA	304	.	NC_007779	1562518	0	A	C	bias_e_value=0.0613869	bias_p_value=1.32119e-08	fisher_strand_p_value=5.93948e-10	frequency=9.130096e-02	genotype_quality=399.9	ks_quality_p_value=1	log10_base_likelihood=-8.41409	log10_qual_likelihood_position_model=16.7234	log10_strand_likelihood_position_model=9.22625	new_cov=0/24	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=81/45	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=81/71
RA	305	.	NC_007779	1586575	0	T	G	bias_e_value=0.0431776	bias_p_value=9.29284e-09	fisher_strand_p_value=4.1096e-10	frequency=4.422855e-02	genotype_quality=848.7	ks_quality_p_value=1	log10_base_likelihood=-8.15293	log10_qual_likelihood_position_model=22.1678	log10_strand_likelihood_position_model=9.63213	new_cov=32/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=116/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/132
RA	306	.	NC_007779	1615814	0	C	A	frequency=1	genotype_quality=999.0	new_cov=130/124	quality=999.0	ref_cov=0/0	tot_cov=130/124
RA	307	.	NC_007779	1626064	0	T	.	bias_e_value=3811690	bias_p_value=0.820366	fisher_strand_p_value=1	frequency=1.579380e-02	genotype_quality=1026.5	ks_quality_p_value=0.464096	log10_base_likelihood=-10.6841	log10_qual_likelihood_position_model=5.30389	log10_strand_likelihood_position_model=0.42483	new_cov=2/2	polymorphism_quality=5.3	quality=5.3	quality_position_model=7.72488e-07	ref_cov=131/118	reject=INDEL_HOMOPOLYMER	tot_cov=133/120
RA	308	.	NC_007779	1628027	0	G	T	bias_e_value=0.000731696	bias_p_value=1.57478e-10	fisher_strand_p_value=5.93268e-12	frequency=3.502178e-01	genotype_quality=188.1	ks_quality_p_value=0.98815	log10_base_likelihood=-79.5957	log10_qual_likelihood_position_model=20.6903	log10_strand_likelihood_position_model=11.3122	new_cov=32/0	polymorphism_quality=74.6	quality=74.6	quality_position_model=5.94497e-50	ref_cov=18/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=50/41
RA	309	.	NC_007779	1641155	0	T	.	bias_e_value=4199300	bias_p_value=0.903787	fisher_strand_p_value=0.606882	frequency=1.152897e-02	genotype_quality=1051.6	ks_quality_p_value=0.979999	log10_base_likelihood=-7.98807	log10_qual_likelihood_position_model=2.28299	log10_strand_likelihood_position_model=0.445906	new_cov=1/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=3.73334e-07	ref_cov=135/122	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=136/124
RA	310	.	NC_007779	1646748	1	.	C	bias_e_value=2050500	bias_p_value=0.441316	fisher_strand_p_value=0.174201	frequency=6.797791e-03	genotype_quality=1396.3	ks_quality_p_value=0.881624	log10_base_likelihood=-6.02124	log10_qual_likelihood_position_model=3.59279	log10_strand_likelihood_position_model=0.75895	new_cov=0/2	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.00242051	ref_cov=171/121	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=171/123
RA	311	.	NC_007779	1651009	0	T	G	bias_e_value=5.51787e-16	bias_p_value=1.18758e-22	fisher_strand_p_value=2.13972e-24	frequency=1.442375e-01	genotype_quality=507.7	ks_quality_p_value=1	log10_base_likelihood=-31.5995	log10_qual_likelihood_position_model=30.1385	log10_strand_likelihood_position_model=23.6696	new_cov=29/0	polymorphism_quality=26.4	quality=26.4	quality_position_model=Inf	ref_cov=10/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=39/129
RA	312	.	NC_007779	1669599	0	C	.	frequency=1	genotype_quality=1003.9	new_cov=94/104	quality=1003.9	ref_cov=0/0	tot_cov=94/104
RA	313	.	NC_007779	1681026	0	A	C	bias_e_value=1.26378e-06	bias_p_value=2.71995e-13	fisher_strand_p_value=8.13314e-15	frequency=7.592535e-02	genotype_quality=705.7	ks_quality_p_value=1	log10_base_likelihood=-7.76894	log10_qual_likelihood_position_model=28.1499	log10_strand_likelihood_position_model=14.0897	new_cov=0/38	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=133/80	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/119
RA	314	.	NC_007779	1681402	0	T	G	bias_e_value=4.5253e-06	bias_p_value=9.7395e-13	fisher_strand_p_value=3.03155e-14	frequency=6.631184e-02	genotype_quality=722.1	ks_quality_p_value=1	log10_base_likelihood=-9.13059	log10_qual_likelihood_position_model=27.4275	log10_strand_likelihood_position_model=13.5183	new_cov=25/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=47/147	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/147
RA	315	.	NC_007779	1685437	0	A	C	bias_e_value=0.0518265	bias_p_value=1.11543e-08	fisher_strand_p_value=4.97482e-10	frequency=4.830647e-02	genotype_quality=825.7	ks_quality_p_value=1	log10_base_likelihood=-6.95353	log10_qual_likelihood_position_model=29.7591	log10_strand_likelihood_position_model=9.30322	new_cov=0/27	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=140/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/130
RA	316	.	NC_007779	1686426	0	A	C	bias_e_value=0.00155776	bias_p_value=3.35267e-10	fisher_strand_p_value=1.28567e-11	frequency=4.887581e-02	genotype_quality=761.3	ks_quality_p_value=1	log10_base_likelihood=-5.98226	log10_qual_likelihood_position_model=40.5517	log10_strand_likelihood_position_model=10.9881	new_cov=0/36	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=116/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/132
RA	317	.	NC_007779	1686463	0	A	C	bias_e_value=4.27947e-11	bias_p_value=9.21042e-18	fisher_strand_p_value=2.09277e-19	frequency=1.345677e-01	genotype_quality=557.4	ks_quality_p_value=1	log10_base_likelihood=-11.7491	log10_qual_likelihood_position_model=31.6706	log10_strand_likelihood_position_model=18.6793	new_cov=0/50	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=110/57	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/107
RA	318	.	NC_007779	1703024	0	A	C	bias_e_value=6.81489e-06	bias_p_value=1.46672e-12	fisher_strand_p_value=4.62624e-14	frequency=8.479500e-02	genotype_quality=646.9	ks_quality_p_value=1	log10_base_likelihood=-8.68466	log10_qual_likelihood_position_model=29.8105	log10_strand_likelihood_position_model=13.3348	new_cov=0/35	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=121/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=121/104
RA	319	.	NC_007779	1703335	0	G	C	bias_e_value=2.74087e-05	bias_p_value=5.89901e-12	fisher_strand_p_value=2.03543e-13	frequency=7.306480e-02	genotype_quality=701.3	ks_quality_p_value=0.957557	log10_base_likelihood=-22.5824	log10_qual_likelihood_position_model=16.2465	log10_strand_likelihood_position_model=12.6913	new_cov=14/0	polymorphism_quality=17.3	quality=17.3	quality_position_model=Inf	ref_cov=15/156	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=29/156
RA	320	.	NC_007779	1713510	0	A	C	bias_e_value=1.63805e-14	bias_p_value=3.52547e-21	fisher_strand_p_value=6.7737e-23	frequency=1.417971e-01	genotype_quality=710.2	ks_quality_p_value=1	log10_base_likelihood=-23.8769	log10_qual_likelihood_position_model=46.083	log10_strand_likelihood_position_model=22.1692	new_cov=0/55	polymorphism_quality=18.6	quality=18.6	quality_position_model=Inf	ref_cov=144/68	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/124
RA	321	.	NC_007779	1716031	1	.	T	bias_e_value=1475830	bias_p_value=0.317632	fisher_strand_p_value=0.362512	frequency=1.556396e-02	genotype_quality=1236.5	ks_quality_p_value=0.260906	log10_base_likelihood=-18.0853	log10_qual_likelihood_position_model=2.79349	log10_strand_likelihood_position_model=0.619513	new_cov=3/1	polymorphism_quality=12.8	quality=12.8	quality_position_model=8.83785e-17	ref_cov=123/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=126/131
RA	322	.	NC_007779	1772183	1	.	T	bias_e_value=4155180	bias_p_value=0.894292	fisher_strand_p_value=1	frequency=7.462502e-03	genotype_quality=1319.7	ks_quality_p_value=0.576985	log10_base_likelihood=-8.47145	log10_qual_likelihood_position_model=2.40749	log10_strand_likelihood_position_model=0.299503	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.11742e-07	ref_cov=131/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/136
RA	323	.	NC_007779	1781198	0	T	.	bias_e_value=3291110	bias_p_value=0.708325	fisher_strand_p_value=0.352981	frequency=1.599121e-02	genotype_quality=1014.0	ks_quality_p_value=0.967248	log10_base_likelihood=-11.3925	log10_qual_likelihood_position_model=3.00467	log10_strand_likelihood_position_model=0.638674	new_cov=3/1	polymorphism_quality=6.0	quality=6.0	quality_position_model=1.00672e-09	ref_cov=117/129	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=120/130
RA	324	.	NC_007779	1801443	0	A	C	bias_e_value=4.88705e-15	bias_p_value=1.05181e-21	fisher_strand_p_value=1.97414e-23	frequency=1.091094e-01	genotype_quality=688.5	ks_quality_p_value=1	log10_base_likelihood=-9.83462	log10_qual_likelihood_position_model=48.6107	log10_strand_likelihood_position_model=22.7046	new_cov=0/54	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=133/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/110
RA	325	.	NC_007779	1801456	0	C	G	bias_e_value=3.26944	bias_p_value=7.03661e-07	fisher_strand_p_value=4.15309e-08	frequency=8.329535e-02	genotype_quality=809.6	ks_quality_p_value=0.938118	log10_base_likelihood=-22.7642	log10_qual_likelihood_position_model=22.6373	log10_strand_likelihood_position_model=7.51529	new_cov=0/24	polymorphism_quality=17.5	quality=17.5	quality_position_model=Inf	ref_cov=127/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/133
RA	326	.	NC_007779	1809046	0	C	.	bias_e_value=494086	bias_p_value=0.106339	fisher_strand_p_value=0.500571	frequency=7.268906e-03	genotype_quality=1151.6	ks_quality_p_value=0.0441442	log10_base_likelihood=-5.64505	log10_qual_likelihood_position_model=1.85342	log10_strand_likelihood_position_model=0.545413	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=4.79636e-05	ref_cov=145/128	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=147/128
RA	327	.	NC_007779	1820099	0	A	C	bias_e_value=2.28134e-17	bias_p_value=4.90999e-24	fisher_strand_p_value=8.35829e-26	frequency=1.692867e-01	genotype_quality=716.5	ks_quality_p_value=1	log10_base_likelihood=-42.7731	log10_qual_likelihood_position_model=36.95	log10_strand_likelihood_position_model=25.0779	new_cov=0/52	polymorphism_quality=37.7	quality=37.7	quality_position_model=Inf	ref_cov=160/54	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=160/106
RA	328	.	NC_007779	1826775	0	G	A	bias_e_value=2467.55	bias_p_value=0.000531075	fisher_strand_p_value=4.85784e-05	frequency=4.431152e-02	genotype_quality=959.3	ks_quality_p_value=1	log10_base_likelihood=-9.89803	log10_qual_likelihood_position_model=18.5967	log10_strand_likelihood_position_model=4.42138	new_cov=0/15	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=132/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=132/143
RA	329	.	NC_007779	1837206	0	G	T	bias_e_value=0.000795423	bias_p_value=1.71194e-10	fisher_strand_p_value=6.54394e-12	frequency=7.956886e-02	genotype_quality=740.0	ks_quality_p_value=0.977029	log10_base_likelihood=-20.7701	log10_qual_likelihood_position_model=21.4129	log10_strand_likelihood_position_model=11.1842	new_cov=18/0	polymorphism_quality=15.5	quality=15.5	quality_position_model=Inf	ref_cov=38/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=56/150
RA	330	.	NC_007779	1840899	0	G	T	bias_e_value=892.579	bias_p_value=0.000192104	fisher_strand_p_value=1.59472e-05	frequency=3.694725e-02	genotype_quality=832.9	ks_quality_p_value=1	log10_base_likelihood=-5.82996	log10_qual_likelihood_position_model=14.4094	log10_strand_likelihood_position_model=4.79731	new_cov=0/14	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=129/100	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/115
RA	331	.	NC_007779	1844073	0	G	A	frequency=1	genotype_quality=1100.0	new_cov=132/137	quality=1100.0	ref_cov=0/0	tot_cov=132/137
RA	332	.	NC_007779	1844634	0	A	.	bias_e_value=181649	bias_p_value=0.0390952	fisher_strand_p_value=0.0315657	frequency=1.388168e-02	genotype_quality=570.7	ks_quality_p_value=0.205049	log10_base_likelihood=-5.69204	log10_qual_likelihood_position_model=1.69045	log10_strand_likelihood_position_model=1.50079	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.000299663	ref_cov=24/118	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=26/118
RA	333	.	NC_007779	1879404	0	A	C	bias_e_value=7.15728e-11	bias_p_value=1.54042e-17	fisher_strand_p_value=3.56307e-19	frequency=1.077933e-01	genotype_quality=623.7	ks_quality_p_value=0.994218	log10_base_likelihood=-24.7855	log10_qual_likelihood_position_model=25.8857	log10_strand_likelihood_position_model=18.4482	new_cov=0/23	polymorphism_quality=19.5	quality=19.5	quality_position_model=Inf	ref_cov=150/17	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=150/41
RA	334	.	NC_007779	1879984	1	.	G	bias_e_value=2301660	bias_p_value=0.495372	fisher_strand_p_value=0.218811	frequency=8.298874e-03	genotype_quality=1205.3	ks_quality_p_value=0.840621	log10_base_likelihood=-8.04699	log10_qual_likelihood_position_model=0.637072	log10_strand_likelihood_position_model=0.659932	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.07268e-08	ref_cov=111/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=113/128
RA	335	.	NC_007779	1881068	1	.	T	bias_e_value=960970	bias_p_value=0.206823	fisher_strand_p_value=1	frequency=7.220268e-03	genotype_quality=1345.6	ks_quality_p_value=0.0523674	log10_base_likelihood=-8.0569	log10_qual_likelihood_position_model=2.27273	log10_strand_likelihood_position_model=0.29951	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=2.17826e-07	ref_cov=136/139	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=137/140
RA	336	.	NC_007779	1889729	1	.	A	bias_e_value=3688270	bias_p_value=0.793801	fisher_strand_p_value=0.591691	frequency=1.123619e-02	genotype_quality=1315.6	ks_quality_p_value=0.728524	log10_base_likelihood=-13.0671	log10_qual_likelihood_position_model=1.37888	log10_strand_likelihood_position_model=0.471198	new_cov=1/2	polymorphism_quality=7.7	quality=7.7	quality_position_model=2.87151e-13	ref_cov=145/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=146/121
RA	337	.	NC_007779	1906477	1	.	G	bias_e_value=35483.6	bias_p_value=0.00763691	fisher_strand_p_value=0.000963589	frequency=3.240585e-02	genotype_quality=1020.9	ks_quality_p_value=0.997213	log10_base_likelihood=-27.0507	log10_qual_likelihood_position_model=8.98864	log10_strand_likelihood_position_model=3.01611	new_cov=7/0	polymorphism_quality=21.8	quality=21.8	quality_position_model=3.69302e-17	ref_cov=75/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=82/134
RA	338	.	NC_007779	1906488	0	G	T	bias_e_value=10.4288	bias_p_value=2.24452e-06	fisher_strand_p_value=1.33454e-07	frequency=5.843019e-02	genotype_quality=820.0	ks_quality_p_value=0.999312	log10_base_likelihood=-9.08212	log10_qual_likelihood_position_model=15.691	log10_strand_likelihood_position_model=6.87467	new_cov=17/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=79/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=96/135
RA	339	.	NC_007779	1913464	0	T	G	bias_e_value=4.18162e-07	bias_p_value=8.99983e-14	fisher_strand_p_value=2.60244e-15	frequency=7.704020e-02	genotype_quality=655.6	ks_quality_p_value=1	log10_base_likelihood=-7.03628	log10_qual_likelihood_position_model=26.1561	log10_strand_likelihood_position_model=14.8856	new_cov=43/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=80/123	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/123
RA	340	.	NC_007779	1918872	0	T	A	frequency=1	genotype_quality=1056.2	new_cov=144/124	quality=1056.2	ref_cov=0/0	tot_cov=144/126
RA	341	.	NC_007779	1920746	0	G	T	bias_e_value=28.1498	bias_p_value=6.05849e-06	fisher_strand_p_value=3.84122e-07	frequency=3.731251e-02	genotype_quality=823.2	ks_quality_p_value=1	log10_base_likelihood=-6.4431	log10_qual_likelihood_position_model=14.0528	log10_strand_likelihood_position_model=6.41553	new_cov=0/15	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=144/78	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/95
RA	342	.	NC_007779	1926746	0	G	A	bias_e_value=3694210	bias_p_value=0.79508	fisher_strand_p_value=0.634594	frequency=1.364040e-02	genotype_quality=1237.2	ks_quality_p_value=0.68167	log10_base_likelihood=-7.47084	log10_qual_likelihood_position_model=2.49553	log10_strand_likelihood_position_model=0.504171	new_cov=3/1	polymorphism_quality=2.0	quality=2.0	quality_position_model=2.47035e-06	ref_cov=161/126	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=164/128
RA	343	.	NC_007779	1956118	0	C	A	bias_e_value=0.297778	bias_p_value=6.40888e-08	fisher_strand_p_value=3.12389e-09	frequency=5.356741e-02	genotype_quality=527.8	ks_quality_p_value=0.996504	log10_base_likelihood=-16.6917	log10_qual_likelihood_position_model=9.5467	log10_strand_likelihood_position_model=8.5053	new_cov=0/7	polymorphism_quality=11.4	quality=11.4	quality_position_model=Inf	ref_cov=119/4	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/11
RA	344	.	NC_007779	1956848	0	T	.	bias_e_value=2656440	bias_p_value=0.571729	fisher_strand_p_value=1	frequency=1.078510e-02	genotype_quality=1131.8	ks_quality_p_value=0.232529	log10_base_likelihood=-8.36042	log10_qual_likelihood_position_model=2.57579	log10_strand_likelihood_position_model=0.386867	new_cov=2/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.68064e-07	ref_cov=151/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=153/125
RA	345	.	NC_007779	1971508	0	A	C	bias_e_value=0.000114185	bias_p_value=2.45753e-11	fisher_strand_p_value=8.59681e-13	frequency=9.953403e-02	genotype_quality=454.2	ks_quality_p_value=0.992955	log10_base_likelihood=-22.742	log10_qual_likelihood_position_model=15.9492	log10_strand_likelihood_position_model=12.0657	new_cov=0/15	polymorphism_quality=17.5	quality=17.5	quality_position_model=Inf	ref_cov=110/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=110/28
RA	346	.	NC_007779	1973476	0	G	A	frequency=1	genotype_quality=886.0	new_cov=102/117	quality=886.0	ref_cov=0/0	tot_cov=102/117
RA	347	.	NC_007779	1981406	0	A	.	bias_e_value=1742790	bias_p_value=0.37509	fisher_strand_p_value=0.261341	frequency=1.144409e-02	genotype_quality=1052.6	ks_quality_p_value=0.46036	log10_base_likelihood=-8.55119	log10_qual_likelihood_position_model=1.31777	log10_strand_likelihood_position_model=0.73915	new_cov=0/3	polymorphism_quality=3.1	quality=3.1	quality_position_model=1.9683e-08	ref_cov=113/146	reject=POLYMORPHISM_STRAND	tot_cov=113/149
RA	348	.	NC_007779	1981408	0	C	G	bias_e_value=1233320	bias_p_value=0.26544	fisher_strand_p_value=0.263961	frequency=1.118469e-02	genotype_quality=1156.1	ks_quality_p_value=0.278553	log10_base_likelihood=-7.94153	log10_qual_likelihood_position_model=1.60366	log10_strand_likelihood_position_model=0.725472	new_cov=0/3	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.60586e-07	ref_cov=114/151	reject=POLYMORPHISM_STRAND	tot_cov=114/154
RA	349	.	NC_007779	1981413	0	A	G	bias_e_value=1368870	bias_p_value=0.294614	fisher_strand_p_value=0.260595	frequency=1.107025e-02	genotype_quality=1092.5	ks_quality_p_value=0.326302	log10_base_likelihood=-6.25079	log10_qual_likelihood_position_model=1.8671	log10_strand_likelihood_position_model=0.743739	new_cov=0/3	polymorphism_quality=0.7	quality=0.7	quality_position_model=1.83974e-05	ref_cov=117/150	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=117/153
RA	350	.	NC_007779	1993884	0	C	A	bias_e_value=743598	bias_p_value=0.16004	fisher_strand_p_value=0.037321	frequency=3.029346e-02	genotype_quality=977.7	ks_quality_p_value=1	log10_base_likelihood=-7.30177	log10_qual_likelihood_position_model=12.4215	log10_strand_likelihood_position_model=1.65788	new_cov=1/8	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=120/124	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=121/132
RA	351	.	NC_007779	1993894	0	A	C	bias_e_value=0.049733	bias_p_value=1.07037e-08	fisher_strand_p_value=4.7647e-10	frequency=1.005025e-01	genotype_quality=844.8	ks_quality_p_value=1	log10_base_likelihood=-26.7879	log10_qual_likelihood_position_model=28.6065	log10_strand_likelihood_position_model=9.51373	new_cov=0/37	polymorphism_quality=21.6	quality=21.6	quality_position_model=Inf	ref_cov=115/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/163
RA	352	.	NC_007779	1999251	0	T	G	bias_e_value=0.00648963	bias_p_value=1.39672e-09	fisher_strand_p_value=5.67969e-11	frequency=1.028295e-01	genotype_quality=511.1	ks_quality_p_value=1	log10_base_likelihood=-8.62136	log10_qual_likelihood_position_model=26.1621	log10_strand_likelihood_position_model=10.3459	new_cov=38/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=71/78	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/78
RA	353	.	NC_007779	2004055	0	A	C	bias_e_value=1.60421e-30	bias_p_value=3.45263e-37	fisher_strand_p_value=3.85984e-39	frequency=3.124075e-01	genotype_quality=509.4	ks_quality_p_value=1	log10_base_likelihood=-81.2729	log10_qual_likelihood_position_model=56.6346	log10_strand_likelihood_position_model=38.4883	new_cov=0/98	polymorphism_quality=76.3	quality=76.3	quality_position_model=Inf	ref_cov=128/44	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/143
RA	354	.	NC_007779	2005401	0	C	T	frequency=1	genotype_quality=1177.3	new_cov=144/138	quality=1177.3	ref_cov=0/0	tot_cov=144/138
RA	355	.	NC_007779	2005920	1	.	A	bias_e_value=4206960	bias_p_value=0.905437	fisher_strand_p_value=0.597975	frequency=1.006413e-02	genotype_quality=1479.0	ks_quality_p_value=0.999932	log10_base_likelihood=-10.9276	log10_qual_likelihood_position_model=3.74139	log10_strand_likelihood_position_model=0.460424	new_cov=1/2	polymorphism_quality=5.5	quality=5.5	quality_position_model=1.13607e-08	ref_cov=159/136	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=160/138
RA	356	.	NC_007779	2012824	0	C	.	bias_e_value=4519640	bias_p_value=0.972732	fisher_strand_p_value=1	frequency=7.777214e-03	genotype_quality=1078.9	ks_quality_p_value=0.77575	log10_base_likelihood=-5.58047	log10_qual_likelihood_position_model=1.23362	log10_strand_likelihood_position_model=0.29987	new_cov=1/1	polymorphism_quality=0.0	quality=0.0	quality_position_model=6.86701e-06	ref_cov=123/132	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/133
RA	357	.	NC_007779	2023811	0	C	A	bias_e_value=38.8443	bias_p_value=8.36021e-06	fisher_strand_p_value=5.41877e-07	frequency=4.160690e-02	genotype_quality=1035.0	ks_quality_p_value=1	log10_base_likelihood=-9.22492	log10_qual_likelihood_position_model=18.8736	log10_strand_likelihood_position_model=6.3869	new_cov=21/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=141/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=162/154
RA	358	.	NC_007779	2035868	1	.	T	bias_e_value=3332820	bias_p_value=0.717301	fisher_strand_p_value=0.520846	frequency=1.526737e-02	genotype_quality=632.8	ks_quality_p_value=0.671734	log10_base_likelihood=-8.89418	log10_qual_likelihood_position_model=1.43187	log10_strand_likelihood_position_model=0.430498	new_cov=0/2	polymorphism_quality=3.4	quality=3.4	quality_position_model=5.49862e-09	ref_cov=51/78	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=51/80
RA	359	.	NC_007779	2050720	0	G	T	bias_e_value=55.6994	bias_p_value=1.19878e-05	fisher_strand_p_value=7.96929e-07	frequency=4.582977e-02	genotype_quality=957.4	ks_quality_p_value=1	log10_base_likelihood=-6.42291	log10_qual_likelihood_position_model=20.1546	log10_strand_likelihood_position_model=6.13172	new_cov=0/21	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=135/130	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/151
RA	360	.	NC_007779	2060392	0	T	G	bias_e_value=7.11683e-09	bias_p_value=1.53171e-15	fisher_strand_p_value=3.95076e-17	frequency=1.034808e-01	genotype_quality=713.8	ks_quality_p_value=1	log10_base_likelihood=-14.4706	log10_qual_likelihood_position_model=57.1328	log10_strand_likelihood_position_model=16.4974	new_cov=58/0	polymorphism_quality=9.1	quality=9.1	quality_position_model=Inf	ref_cov=104/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=163/122
RA	361	.	NC_007779	2065611	0	C	A	bias_e_value=987.422	bias_p_value=0.000212517	fisher_strand_p_value=1.78046e-05	frequency=5.088234e-02	genotype_quality=884.1	ks_quality_p_value=1	log10_base_likelihood=-11.0068	log10_qual_likelihood_position_model=16.2549	log10_strand_likelihood_position_model=4.86919	new_cov=20/0	polymorphism_quality=5.6	quality=5.6	quality_position_model=Inf	ref_cov=140/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=160/113
RA	362	.	NC_007779	2072726	1	.	G	bias_e_value=3827060	bias_p_value=0.823674	fisher_strand_p_value=0.504041	frequency=7.490158e-03	genotype_quality=1347.9	ks_quality_p_value=0.929353	log10_base_likelihood=-8.1949	log10_qual_likelihood_position_model=1.58658	log10_strand_likelihood_position_model=0.513814	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=5.09132e-08	ref_cov=146/119	reject=POLYMORPHISM_STRAND	tot_cov=148/119
RA	363	.	NC_007779	2076214	0	A	C	bias_e_value=0.00194094	bias_p_value=4.17736e-10	fisher_strand_p_value=1.6161e-11	frequency=6.891346e-02	genotype_quality=660.9	ks_quality_p_value=1	log10_base_likelihood=-7.50084	log10_qual_likelihood_position_model=22.0332	log10_strand_likelihood_position_model=10.7915	new_cov=0/27	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=120/66	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/93
RA	364	.	NC_007779	2082880	1	.	A	bias_e_value=4198010	bias_p_value=0.903511	fisher_strand_p_value=1	frequency=9.090424e-03	genotype_quality=1096.2	ks_quality_p_value=0.594213	log10_base_likelihood=-8.36582	log10_qual_likelihood_position_model=0.987385	log10_strand_likelihood_position_model=0.299087	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=4.91281e-09	ref_cov=110/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=111/109
RA	365	.	NC_007779	2095582	0	G	T	bias_e_value=78.4256	bias_p_value=1.6879e-05	fisher_strand_p_value=1.15014e-06	frequency=3.710270e-02	genotype_quality=1003.4	ks_quality_p_value=1	log10_base_likelihood=-7.22955	log10_qual_likelihood_position_model=15.7588	log10_strand_likelihood_position_model=5.93925	new_cov=0/18	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=154/126	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/144
RA	366	.	NC_007779	2098223	0	T	G	bias_e_value=3.06236e-14	bias_p_value=6.59093e-21	fisher_strand_p_value=1.28207e-22	frequency=1.453900e-01	genotype_quality=594.5	ks_quality_p_value=1	log10_base_likelihood=-11.7835	log10_qual_likelihood_position_model=37.1561	log10_strand_likelihood_position_model=21.8921	new_cov=57/0	polymorphism_quality=6.4	quality=6.4	quality_position_model=Inf	ref_cov=57/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/119
RA	367	.	NC_007779	2110101	1	.	T	bias_e_value=1851130	bias_p_value=0.398407	fisher_strand_p_value=0.182113	frequency=8.474350e-03	genotype_quality=1184.4	ks_quality_p_value=0.72242	log10_base_likelihood=-8.54899	log10_qual_likelihood_position_model=1.12824	log10_strand_likelihood_position_model=0.739658	new_cov=2/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=1.26319e-08	ref_cov=99/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=101/135
RA	368	.	NC_007779	2170094	0	C	A	frequency=1	genotype_quality=1187.5	new_cov=110/174	quality=1187.5	ref_cov=0/0	tot_cov=110/174
RA	369	.	NC_007779	2174678	0	C	G	bias_e_value=5.36185e-10	bias_p_value=1.154e-16	fisher_strand_p_value=2.78596e-18	frequency=1.339207e-01	genotype_quality=690.5	ks_quality_p_value=1	log10_base_likelihood=-38.5911	log10_qual_likelihood_position_model=27.5654	log10_strand_likelihood_position_model=17.555	new_cov=0/27	polymorphism_quality=33.4	quality=33.4	quality_position_model=Inf	ref_cov=139/27	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=139/54
RA	370	.	NC_007779	2178210	0	A	C	bias_e_value=1847700	bias_p_value=0.397668	fisher_strand_p_value=0.139207	frequency=3.772640e-02	genotype_quality=1259.9	ks_quality_p_value=0.942466	log10_base_likelihood=-39.5169	log10_qual_likelihood_position_model=8.05286	log10_strand_likelihood_position_model=1.23709	new_cov=9/3	polymorphism_quality=34.4	quality=34.4	quality_position_model=1.72938e-32	ref_cov=153/153	tot_cov=162/156
RA	371	.	NC_007779	2199432	0	G	C	bias_e_value=8.84835e-16	bias_p_value=1.90437e-22	fisher_strand_p_value=3.46121e-24	frequency=1.298957e-01	genotype_quality=731.1	ks_quality_p_value=1	log10_base_likelihood=-47.7105	log10_qual_likelihood_position_model=25.7939	log10_strand_likelihood_position_model=23.4608	new_cov=0/27	polymorphism_quality=42.6	quality=42.6	quality_position_model=Inf	ref_cov=164/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=164/40
RA	372	.	NC_007779	2211749	0	G	C	bias_e_value=9.48173	bias_p_value=2.04069e-06	fisher_strand_p_value=1.20527e-07	frequency=5.498743e-02	genotype_quality=653.5	ks_quality_p_value=1	log10_base_likelihood=-11.7749	log10_qual_likelihood_position_model=13.7608	log10_strand_likelihood_position_model=6.91892	new_cov=11/0	polymorphism_quality=6.4	quality=6.4	quality_position_model=Inf	ref_cov=35/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=46/133
RA	373	.	NC_007779	2212417	0	G	T	bias_e_value=5.4338e-06	bias_p_value=1.16948e-12	fisher_strand_p_value=3.68872e-14	frequency=6.520748e-02	genotype_quality=739.8	ks_quality_p_value=0.992673	log10_base_likelihood=-20.7492	log10_qual_likelihood_position_model=17.4582	log10_strand_likelihood_position_model=13.4331	new_cov=13/0	polymorphism_quality=15.5	quality=15.5	quality_position_model=Inf	ref_cov=10/162	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=23/162
RA	374	.	NC_007779	2213136	0	G	T	bias_e_value=1.45486e-15	bias_p_value=3.13121e-22	fisher_strand_p_value=5.948e-24	frequency=2.250838e-01	genotype_quality=483.2	ks_quality_p_value=0.965681	log10_base_likelihood=-91.795	log10_qual_likelihood_position_model=28.8855	log10_strand_likelihood_position_model=23.2256	new_cov=37/0	polymorphism_quality=86.8	quality=86.8	quality_position_model=5.27917e-42	ref_cov=17/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=54/110
RA	375	.	NC_007779	2222886	0	T	G	bias_e_value=1827.7	bias_p_value=0.000393364	fisher_strand_p_value=3.53181e-05	frequency=2.447319e-02	genotype_quality=649.4	ks_quality_p_value=0.988949	log10_base_likelihood=-8.48201	log10_qual_likelihood_position_model=6.85038	log10_strand_likelihood_position_model=4.452	new_cov=4/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=10/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=14/149
RA	376	.	NC_007779	2225700	0	T	G	bias_e_value=571.912	bias_p_value=0.000123089	fisher_strand_p_value=9.82571e-06	frequency=2.185345e-02	genotype_quality=666.1	ks_quality_p_value=0.999717	log10_base_likelihood=-5.649	log10_qual_likelihood_position_model=7.04903	log10_strand_likelihood_position_model=5.00764	new_cov=4/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=7/159	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=11/159
RA	377	.	NC_007779	2226744	0	T	G	bias_e_value=1.86675e-10	bias_p_value=4.01769e-17	fisher_strand_p_value=9.45275e-19	frequency=1.275983e-01	genotype_quality=763.6	ks_quality_p_value=1	log10_base_likelihood=-23.4606	log10_qual_likelihood_position_model=37.3384	log10_strand_likelihood_position_model=18.0244	new_cov=42/0	polymorphism_quality=18.2	quality=18.2	quality_position_model=Inf	ref_cov=68/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=110/149
RA	378	.	NC_007779	2227306	0	A	C	bias_e_value=170.93	bias_p_value=3.67882e-05	fisher_strand_p_value=2.65854e-06	frequency=3.348637e-02	genotype_quality=1126.0	ks_quality_p_value=1	log10_base_likelihood=-8.9318	log10_qual_likelihood_position_model=23.1676	log10_strand_likelihood_position_model=5.66941	new_cov=19/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=143/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=162/151
RA	379	.	NC_007779	2231556	0	T	G	bias_e_value=0.874512	bias_p_value=1.88216e-07	fisher_strand_p_value=9.67504e-09	frequency=5.416393e-02	genotype_quality=629.3	ks_quality_p_value=1	log10_base_likelihood=-7.02255	log10_qual_likelihood_position_model=19.677	log10_strand_likelihood_position_model=8.01435	new_cov=18/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=54/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/113
RA	380	.	NC_007779	2233731	1	.	A	bias_e_value=3897910	bias_p_value=0.838923	fisher_strand_p_value=0.497741	frequency=9.388924e-03	genotype_quality=1061.0	ks_quality_p_value=0.982707	log10_base_likelihood=-7.93798	log10_qual_likelihood_position_model=1.74623	log10_strand_likelihood_position_model=0.591908	new_cov=0/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.65469e-07	ref_cov=105/106	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=105/108
RA	381	.	NC_007779	2245262	0	G	C	bias_e_value=0.00487604	bias_p_value=1.04944e-09	fisher_strand_p_value=4.21639e-11	frequency=6.737232e-02	genotype_quality=664.0	ks_quality_p_value=1	log10_base_likelihood=-15.5153	log10_qual_likelihood_position_model=14.6528	log10_strand_likelihood_position_model=10.3751	new_cov=0/13	polymorphism_quality=10.2	quality=10.2	quality_position_model=Inf	ref_cov=141/20	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=141/33
RA	382	.	NC_007779	2249963	0	T	G	bias_e_value=8.17671e-17	bias_p_value=1.75982e-23	fisher_strand_p_value=3.06349e-25	frequency=2.077727e-01	genotype_quality=602.6	ks_quality_p_value=1	log10_base_likelihood=-40.7166	log10_qual_likelihood_position_model=53.704	log10_strand_likelihood_position_model=24.5295	new_cov=69/0	polymorphism_quality=35.6	quality=35.6	quality_position_model=Inf	ref_cov=65/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/123
RA	383	.	NC_007779	2264335	0	A	C	bias_e_value=0.00126621	bias_p_value=2.72518e-10	fisher_strand_p_value=1.03648e-11	frequency=4.947090e-02	genotype_quality=707.9	ks_quality_p_value=1	log10_base_likelihood=-5.64804	log10_qual_likelihood_position_model=23.6861	log10_strand_likelihood_position_model=10.9844	new_cov=0/24	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=129/57	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=129/82
RA	384	.	NC_007779	2264339	0	A	C	bias_e_value=0.00436704	bias_p_value=9.39891e-10	fisher_strand_p_value=3.75892e-11	frequency=8.147860e-02	genotype_quality=692.0	ks_quality_p_value=1	log10_base_likelihood=-10.3849	log10_qual_likelihood_position_model=25.8452	log10_strand_likelihood_position_model=10.4249	new_cov=0/25	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=125/65	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/90
RA	385	.	NC_007779	2271801	1	.	A	bias_e_value=4640850	bias_p_value=0.99882	fisher_strand_p_value=1	frequency=8.196831e-03	genotype_quality=1212.0	ks_quality_p_value=0.951816	log10_base_likelihood=-8.09616	log10_qual_likelihood_position_model=2.36476	log10_strand_likelihood_position_model=0.308805	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=2.52626e-07	ref_cov=139/103	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=140/104
RA	386	.	NC_007779	2278635	0	C	A	bias_e_value=3.55575	bias_p_value=7.65281e-07	fisher_strand_p_value=4.25823e-08	frequency=5.600405e-02	genotype_quality=938.1	ks_quality_p_value=1	log10_base_likelihood=-14.7106	log10_qual_likelihood_position_model=18.2284	log10_strand_likelihood_position_model=7.37077	new_cov=22/0	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=116/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/148
RA	387	.	NC_007779	2278884	0	T	G	bias_e_value=1.54536e-06	bias_p_value=3.32598e-13	fisher_strand_p_value=1.00073e-14	frequency=8.345842e-02	genotype_quality=781.4	ks_quality_p_value=1	log10_base_likelihood=-14.8598	log10_qual_likelihood_position_model=35.9671	log10_strand_likelihood_position_model=13.9997	new_cov=36/0	polymorphism_quality=9.5	quality=9.5	quality_position_model=Inf	ref_cov=81/143	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/143
RA	388	.	NC_007779	2287114	0	C	A	bias_e_value=0.00144843	bias_p_value=3.11737e-10	fisher_strand_p_value=1.35411e-11	frequency=7.679462e-02	genotype_quality=978.8	ks_quality_p_value=0.880269	log10_base_likelihood=-17.9797	log10_qual_likelihood_position_model=30.9632	log10_strand_likelihood_position_model=10.8683	new_cov=0/26	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=175/95	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=176/121
RA	389	.	NC_007779	2307309	0	T	C	bias_e_value=7.22757e-07	bias_p_value=1.55554e-13	fisher_strand_p_value=4.57261e-15	frequency=8.656549e-02	genotype_quality=588.6	ks_quality_p_value=1	log10_base_likelihood=-20.4982	log10_qual_likelihood_position_model=15.5059	log10_strand_likelihood_position_model=14.3398	new_cov=0/17	polymorphism_quality=15.2	quality=15.2	quality_position_model=Inf	ref_cov=146/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/33
RA	390	.	NC_007779	2331120	0	T	G	bias_e_value=4.31346e-27	bias_p_value=9.28357e-34	fisher_strand_p_value=1.13965e-35	frequency=1.962662e-01	genotype_quality=638.2	ks_quality_p_value=1	log10_base_likelihood=-38.6669	log10_qual_likelihood_position_model=50.3058	log10_strand_likelihood_position_model=34.9432	new_cov=75/0	polymorphism_quality=33.5	quality=33.5	quality_position_model=Inf	ref_cov=45/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/152
RA	391	.	NC_007779	2332580	0	A	C	bias_e_value=6.65539e-11	bias_p_value=1.4324e-17	fisher_strand_p_value=3.28843e-19	frequency=9.463024e-02	genotype_quality=543.0	ks_quality_p_value=1	log10_base_likelihood=-6.99515	log10_qual_likelihood_position_model=26.1824	log10_strand_likelihood_position_model=18.483	new_cov=0/43	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=114/47	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/90
RA	392	.	NC_007779	2342393	0	A	C	bias_e_value=2.12653e-10	bias_p_value=4.5768e-17	fisher_strand_p_value=1.08021e-18	frequency=1.340985e-01	genotype_quality=638.6	ks_quality_p_value=1	log10_base_likelihood=-13.9764	log10_qual_likelihood_position_model=34.3088	log10_strand_likelihood_position_model=17.9665	new_cov=0/44	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=125/59	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/103
RA	393	.	NC_007779	2347976	0	A	C	bias_e_value=2.99876e-20	bias_p_value=6.45404e-27	fisher_strand_p_value=9.85546e-29	frequency=1.014862e-01	genotype_quality=660.5	ks_quality_p_value=1	log10_base_likelihood=-9.51197	log10_qual_likelihood_position_model=43.998	log10_strand_likelihood_position_model=28.0063	new_cov=0/52	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=145/35	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=145/87
RA	394	.	NC_007779	2348491	0	C	A	bias_e_value=5.01888	bias_p_value=1.08018e-06	fisher_strand_p_value=6.13507e-08	frequency=5.907869e-02	genotype_quality=755.7	ks_quality_p_value=1	log10_base_likelihood=-6.43224	log10_qual_likelihood_position_model=13.0479	log10_strand_likelihood_position_model=7.21218	new_cov=0/16	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=130/63	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/79
RA	395	.	NC_007779	2353815	0	A	C	bias_e_value=1.696e-10	bias_p_value=3.65019e-17	fisher_strand_p_value=8.56831e-19	frequency=1.033196e-01	genotype_quality=548.4	ks_quality_p_value=1	log10_base_likelihood=-17.975	log10_qual_likelihood_position_model=28.5644	log10_strand_likelihood_position_model=18.0671	new_cov=0/24	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=128/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/40
RA	396	.	NC_007779	2354264	0	A	C	bias_e_value=4.41925e-08	bias_p_value=9.51127e-15	fisher_strand_p_value=2.57797e-16	frequency=5.776358e-02	genotype_quality=874.3	ks_quality_p_value=1	log10_base_likelihood=-9.26444	log10_qual_likelihood_position_model=36.9139	log10_strand_likelihood_position_model=15.5887	new_cov=0/35	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=165/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=165/111
RA	397	.	NC_007779	2354291	0	A	C	bias_e_value=1.60004e-20	bias_p_value=3.44365e-27	fisher_strand_p_value=5.20781e-29	frequency=1.944294e-01	genotype_quality=676.0	ks_quality_p_value=1	log10_base_likelihood=-38.6855	log10_qual_likelihood_position_model=41.9399	log10_strand_likelihood_position_model=28.2833	new_cov=0/62	polymorphism_quality=33.5	quality=33.5	quality_position_model=Inf	ref_cov=156/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=156/117
RA	398	.	NC_007779	2359977	1	.	T	bias_e_value=3999770	bias_p_value=0.860845	fisher_strand_p_value=0.521354	frequency=7.686615e-03	genotype_quality=1286.5	ks_quality_p_value=0.999762	log10_base_likelihood=-6.57647	log10_qual_likelihood_position_model=2.58276	log10_strand_likelihood_position_model=0.433716	new_cov=0/2	polymorphism_quality=1.0	quality=1.0	quality_position_model=2.23397e-05	ref_cov=102/156	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=102/158
RA	399	.	NC_007779	2362369	0	C	A	bias_e_value=3092100	bias_p_value=0.665492	fisher_strand_p_value=0.315546	frequency=4.441643e-02	genotype_quality=714.4	ks_quality_p_value=0.96211	log10_base_likelihood=-9.45685	log10_qual_likelihood_position_model=16.1835	log10_strand_likelihood_position_model=0.97829	new_cov=7/10	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=127/102	reject=SURROUNDING_HOMOPOLYMER	tot_cov=134/112
RA	400	.	NC_007779	2373239	0	A	C	bias_e_value=6.31617e-07	bias_p_value=1.35939e-13	fisher_strand_p_value=3.97976e-15	frequency=5.795670e-02	genotype_quality=603.0	ks_quality_p_value=1	log10_base_likelihood=-5.82977	log10_qual_likelihood_position_model=22.0305	log10_strand_likelihood_position_model=14.4001	new_cov=0/22	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=133/27	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/49
RA	401	.	NC_007779	2406075	0	C	T	frequency=1	genotype_quality=1026.0	new_cov=128/123	quality=1026.0	ref_cov=0/0	tot_cov=128/123
RA	402	.	NC_007779	2409404	0	A	C	bias_e_value=4.69629e-11	bias_p_value=1.01075e-17	fisher_strand_p_value=2.30158e-19	frequency=1.086307e-01	genotype_quality=768.8	ks_quality_p_value=1	log10_base_likelihood=-18.98	log10_qual_likelihood_position_model=31.8617	log10_strand_likelihood_position_model=18.638	new_cov=0/37	polymorphism_quality=13.7	quality=13.7	quality_position_model=Inf	ref_cov=162/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=162/95
RA	403	.	NC_007779	2410316	0	A	C	bias_e_value=0.00143658	bias_p_value=3.09187e-10	fisher_strand_p_value=1.18184e-11	frequency=1.217599e-01	genotype_quality=668.2	ks_quality_p_value=1	log10_base_likelihood=-23.9089	log10_qual_likelihood_position_model=30.8029	log10_strand_likelihood_position_model=11.1257	new_cov=1/41	polymorphism_quality=18.7	quality=18.7	quality_position_model=Inf	ref_cov=115/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/136
RA	404	.	NC_007779	2416102	0	G	A	frequency=1	genotype_quality=1133.1	new_cov=129/149	quality=1133.1	ref_cov=0/0	tot_cov=129/149
RA	405	.	NC_007779	2417605	0	C	A	bias_e_value=0.00728386	bias_p_value=1.56766e-09	fisher_strand_p_value=8.61633e-11	frequency=1.097250e-01	genotype_quality=913.9	ks_quality_p_value=0.743488	log10_base_likelihood=-29.916	log10_qual_likelihood_position_model=39.1935	log10_strand_likelihood_position_model=10.3628	new_cov=41/0	polymorphism_quality=24.7	quality=24.7	quality_position_model=Inf	ref_cov=138/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=180/125
RA	406	.	NC_007779	2418070	1	.	A	bias_e_value=2722870	bias_p_value=0.586027	fisher_strand_p_value=1	frequency=6.896019e-03	genotype_quality=1450.2	ks_quality_p_value=0.242475	log10_base_likelihood=-8.18642	log10_qual_likelihood_position_model=1.40085	log10_strand_likelihood_position_model=0.299716	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=2.00807e-08	ref_cov=147/141	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=148/142
RA	407	.	NC_007779	2426889	0	A	C	bias_e_value=0.196944	bias_p_value=4.2387e-08	fisher_strand_p_value=2.01755e-09	frequency=4.397392e-02	genotype_quality=621.9	ks_quality_p_value=0.99939	log10_base_likelihood=-10.7549	log10_qual_likelihood_position_model=11.7007	log10_strand_likelihood_position_model=8.69518	new_cov=0/8	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=149/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/18
RA	408	.	NC_007779	2446437	0	A	C	bias_e_value=4.80257e-06	bias_p_value=1.03363e-12	fisher_strand_p_value=3.22346e-14	frequency=8.000565e-02	genotype_quality=700.6	ks_quality_p_value=1	log10_base_likelihood=-7.74451	log10_qual_likelihood_position_model=24.6155	log10_strand_likelihood_position_model=13.4917	new_cov=0/28	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=140/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=140/83
RA	409	.	NC_007779	2461212	0	A	.	bias_e_value=3285460	bias_p_value=0.707108	fisher_strand_p_value=0.496644	frequency=1.341629e-02	genotype_quality=605.3	ks_quality_p_value=0.685178	log10_base_likelihood=-5.70335	log10_qual_likelihood_position_model=0.967236	log10_strand_likelihood_position_model=0.599155	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=5.52619e-06	ref_cov=73/74	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=75/74
RA	410	.	NC_007779	2465370	0	C	A	bias_e_value=5.83137e-10	bias_p_value=1.25505e-16	fisher_strand_p_value=3.05659e-18	frequency=1.153326e-01	genotype_quality=620.8	ks_quality_p_value=0.993335	log10_base_likelihood=-37.0394	log10_qual_likelihood_position_model=20.8848	log10_strand_likelihood_position_model=17.5148	new_cov=0/20	polymorphism_quality=31.9	quality=31.9	quality_position_model=Inf	ref_cov=134/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/31
RA	411	.	NC_007779	2466047	0	G	A	bias_e_value=30063.7	bias_p_value=0.00647041	fisher_strand_p_value=0.00079519	frequency=3.187656e-02	genotype_quality=1018.5	ks_quality_p_value=1	log10_base_likelihood=-7.78324	log10_qual_likelihood_position_model=15.3038	log10_strand_likelihood_position_model=3.34871	new_cov=0/11	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=133/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/136
RA	412	.	NC_007779	2468327	0	C	.	bias_e_value=166253	bias_p_value=0.0357815	fisher_strand_p_value=0.0818587	frequency=1.309586e-02	genotype_quality=972.4	ks_quality_p_value=0.0711198	log10_base_likelihood=-9.05114	log10_qual_likelihood_position_model=2.99115	log10_strand_likelihood_position_model=1.08693	new_cov=3/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=7.4046e-07	ref_cov=97/129	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=100/129
RA	413	.	NC_007779	2475172	0	T	.	bias_e_value=1398330	bias_p_value=0.300953	fisher_strand_p_value=0.531566	frequency=1.388359e-02	genotype_quality=593.5	ks_quality_p_value=0.164834	log10_base_likelihood=-5.9088	log10_qual_likelihood_position_model=0.960359	log10_strand_likelihood_position_model=0.400415	new_cov=2/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=2.05335e-06	ref_cov=89/53	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=91/53
RA	414	.	NC_007779	2517218	0	A	C	bias_e_value=1.62997e-14	bias_p_value=3.50809e-21	fisher_strand_p_value=6.73966e-23	frequency=1.181908e-01	genotype_quality=535.7	ks_quality_p_value=1	log10_base_likelihood=-15.9668	log10_qual_likelihood_position_model=38.3553	log10_strand_likelihood_position_model=22.1714	new_cov=0/38	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=121/25	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=121/63
RA	415	.	NC_007779	2519319	0	T	G	bias_e_value=0.000779331	bias_p_value=1.6773e-10	fisher_strand_p_value=6.25931e-12	frequency=9.364796e-02	genotype_quality=805.8	ks_quality_p_value=1	log10_base_likelihood=-15.5976	log10_qual_likelihood_position_model=29.2186	log10_strand_likelihood_position_model=11.2035	new_cov=32/0	polymorphism_quality=10.3	quality=10.3	quality_position_model=Inf	ref_cov=93/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/135
RA	416	.	NC_007779	2522930	0	T	G	bias_e_value=1160.98	bias_p_value=0.00024987	fisher_strand_p_value=2.12488e-05	frequency=5.841589e-02	genotype_quality=730.7	ks_quality_p_value=1	log10_base_likelihood=-8.06775	log10_qual_likelihood_position_model=18.5936	log10_strand_likelihood_position_model=4.84729	new_cov=19/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=101/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/115
RA	417	.	NC_007779	2536601	0	T	G	bias_e_value=6.13721e-07	bias_p_value=1.32087e-13	fisher_strand_p_value=3.86365e-15	frequency=1.233649e-01	genotype_quality=615.4	ks_quality_p_value=1	log10_base_likelihood=-18.6137	log10_qual_likelihood_position_model=29.9705	log10_strand_likelihood_position_model=14.413	new_cov=31/0	polymorphism_quality=13.3	quality=13.3	quality_position_model=Inf	ref_cov=49/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=80/123
RA	418	.	NC_007779	2538628	0	C	T	frequency=1	genotype_quality=1153.9	new_cov=143/140	quality=1153.9	ref_cov=0/0	tot_cov=143/140
RA	419	.	NC_007779	2556426	0	G	T	bias_e_value=0.013663	bias_p_value=2.9406e-09	fisher_strand_p_value=1.73738e-10	frequency=7.561302e-02	genotype_quality=943.8	ks_quality_p_value=0.71071	log10_base_likelihood=-19.2623	log10_qual_likelihood_position_model=28.589	log10_strand_likelihood_position_model=9.76011	new_cov=0/30	polymorphism_quality=14.0	quality=14.0	quality_position_model=Inf	ref_cov=154/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/155
RA	420	.	NC_007779	2581900	0	G	T	bias_e_value=6055.5	bias_p_value=0.00130329	fisher_strand_p_value=0.000131124	frequency=4.385757e-02	genotype_quality=839.4	ks_quality_p_value=1	log10_base_likelihood=-7.12355	log10_qual_likelihood_position_model=14.5026	log10_strand_likelihood_position_model=4.12719	new_cov=0/17	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=107/134	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/153
RA	421	.	NC_007779	2593271	0	A	C	bias_e_value=0.000271264	bias_p_value=5.83824e-11	fisher_strand_p_value=2.09313e-12	frequency=7.673931e-02	genotype_quality=683.3	ks_quality_p_value=1	log10_base_likelihood=-11.5623	log10_qual_likelihood_position_model=34.9717	log10_strand_likelihood_position_model=11.6792	new_cov=0/33	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=120/79	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=120/112
RA	422	.	NC_007779	2600440	0	A	G	bias_e_value=64.0189	bias_p_value=1.37784e-05	fisher_strand_p_value=9.25138e-07	frequency=7.879019e-02	genotype_quality=639.9	ks_quality_p_value=1	log10_base_likelihood=-11.1982	log10_qual_likelihood_position_model=15.3398	log10_strand_likelihood_position_model=6.34894	new_cov=23/1	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=88/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/111
RA	423	.	NC_007779	2604001	0	T	G	bias_e_value=4.16762e-06	bias_p_value=8.96971e-13	fisher_strand_p_value=2.78458e-14	frequency=8.511496e-02	genotype_quality=556.9	ks_quality_p_value=1	log10_base_likelihood=-9.35828	log10_qual_likelihood_position_model=22.7571	log10_strand_likelihood_position_model=13.5552	new_cov=25/0	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=34/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=59/115
RA	424	.	NC_007779	2616347	0	A	C	bias_e_value=6.38946e-10	bias_p_value=1.37516e-16	fisher_strand_p_value=3.33436e-18	frequency=9.078836e-02	genotype_quality=544.7	ks_quality_p_value=1	log10_base_likelihood=-11.1209	log10_qual_likelihood_position_model=25.5255	log10_strand_likelihood_position_model=17.477	new_cov=0/25	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=124/19	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/44
RA	425	.	NC_007779	2623159	0	T	G	bias_e_value=2.32916e-23	bias_p_value=5.0129e-30	fisher_strand_p_value=6.89034e-32	frequency=2.016282e-01	genotype_quality=568.2	ks_quality_p_value=1	log10_base_likelihood=-38.1894	log10_qual_likelihood_position_model=47.5023	log10_strand_likelihood_position_model=31.1618	new_cov=61/0	polymorphism_quality=33.0	quality=33.0	quality_position_model=Inf	ref_cov=33/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=95/136
RA	426	.	NC_007779	2623164	0	A	T	bias_e_value=135.082	bias_p_value=2.90727e-05	fisher_strand_p_value=2.06318e-06	frequency=5.475283e-02	genotype_quality=745.9	ks_quality_p_value=1	log10_base_likelihood=-6.51427	log10_qual_likelihood_position_model=12.5735	log10_strand_likelihood_position_model=5.68546	new_cov=15/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=84/128	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=99/128
RA	427	.	NC_007779	2623173	0	G	T	bias_e_value=0.089973	bias_p_value=1.93643e-08	fisher_strand_p_value=8.86492e-10	frequency=8.476543e-02	genotype_quality=828.1	ks_quality_p_value=1	log10_base_likelihood=-13.9524	log10_qual_likelihood_position_model=18.0773	log10_strand_likelihood_position_model=9.05233	new_cov=24/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=84/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/133
RA	428	.	NC_007779	2640922	0	T	G	bias_e_value=4.01846e-10	bias_p_value=8.64867e-17	fisher_strand_p_value=2.07315e-18	frequency=1.246991e-01	genotype_quality=602.4	ks_quality_p_value=1	log10_base_likelihood=-12.6715	log10_qual_likelihood_position_model=39.5642	log10_strand_likelihood_position_model=17.6834	new_cov=45/0	polymorphism_quality=7.3	quality=7.3	quality_position_model=Inf	ref_cov=60/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/120
RA	429	.	NC_007779	2641345	0	T	G	bias_e_value=0.00880199	bias_p_value=1.8944e-09	fisher_strand_p_value=7.80429e-11	frequency=8.285856e-02	genotype_quality=478.8	ks_quality_p_value=1	log10_base_likelihood=-21.6179	log10_qual_likelihood_position_model=14.7445	log10_strand_likelihood_position_model=10.1077	new_cov=12/0	polymorphism_quality=16.3	quality=16.3	quality_position_model=Inf	ref_cov=13/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=25/114
RA	430	.	NC_007779	2643192	0	C	A	bias_e_value=3259560	bias_p_value=0.701534	fisher_strand_p_value=0.371078	frequency=1.784325e-02	genotype_quality=1187.9	ks_quality_p_value=0.903194	log10_base_likelihood=-12.6906	log10_qual_likelihood_position_model=1.84491	log10_strand_likelihood_position_model=0.781534	new_cov=1/4	polymorphism_quality=7.3	quality=7.3	quality_position_model=4.30175e-12	ref_cov=136/139	reject=POLYMORPHISM_STRAND	tot_cov=137/143
RA	431	.	NC_007779	2646804	0	A	C	bias_e_value=6.58589e-09	bias_p_value=1.41744e-15	fisher_strand_p_value=3.64853e-17	frequency=8.154106e-02	genotype_quality=736.7	ks_quality_p_value=1	log10_base_likelihood=-8.37693	log10_qual_likelihood_position_model=38.735	log10_strand_likelihood_position_model=16.4379	new_cov=0/40	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=141/70	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=141/110
RA	432	.	NC_007779	2648595	0	A	C	bias_e_value=0.0699539	bias_p_value=1.50557e-08	fisher_strand_p_value=6.81026e-10	frequency=5.709410e-02	genotype_quality=539.4	ks_quality_p_value=1	log10_base_likelihood=-9.28367	log10_qual_likelihood_position_model=13.6765	log10_strand_likelihood_position_model=9.16684	new_cov=0/10	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=125/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/22
RA	433	.	NC_007779	2672817	0	A	C	bias_e_value=3.77223e-10	bias_p_value=8.11873e-17	fisher_strand_p_value=1.94311e-18	frequency=1.168566e-01	genotype_quality=536.2	ks_quality_p_value=1	log10_base_likelihood=-19.9394	log10_qual_likelihood_position_model=25.7368	log10_strand_likelihood_position_model=17.7115	new_cov=0/32	polymorphism_quality=14.7	quality=14.7	quality_position_model=Inf	ref_cov=122/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=122/64
RA	434	.	NC_007779	2680638	0	G	T	bias_e_value=1674.15	bias_p_value=0.000360317	fisher_strand_p_value=3.2075e-05	frequency=2.802849e-02	genotype_quality=1053.2	ks_quality_p_value=0.989003	log10_base_likelihood=-7.08226	log10_qual_likelihood_position_model=15.2445	log10_strand_likelihood_position_model=4.49383	new_cov=0/14	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=158/137	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=158/151
RA	435	.	NC_007779	2690409	1	.	C	bias_e_value=1083820	bias_p_value=0.233263	fisher_strand_p_value=0.0623167	frequency=1.315594e-02	genotype_quality=1101.7	ks_quality_p_value=0.988372	log10_base_likelihood=-10.4028	log10_qual_likelihood_position_model=5.21074	log10_strand_likelihood_position_model=1.2054	new_cov=0/3	polymorphism_quality=5.0	quality=5.0	quality_position_model=7.94442e-06	ref_cov=137/88	reject=POLYMORPHISM_STRAND	tot_cov=137/91
RA	436	.	NC_007779	2700681	0	T	G	bias_e_value=0.00690213	bias_p_value=1.4855e-09	fisher_strand_p_value=6.05652e-11	frequency=6.968975e-02	genotype_quality=814.6	ks_quality_p_value=1	log10_base_likelihood=-6.84348	log10_qual_likelihood_position_model=27.0187	log10_strand_likelihood_position_model=10.2178	new_cov=28/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=93/141	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/141
RA	437	.	NC_007779	2704581	0	G	C	bias_e_value=354.87	bias_p_value=7.63763e-05	fisher_strand_p_value=5.87137e-06	frequency=4.869556e-02	genotype_quality=613.8	ks_quality_p_value=0.996915	log10_base_likelihood=-6.03035	log10_qual_likelihood_position_model=10.6805	log10_strand_likelihood_position_model=5.23126	new_cov=10/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=43/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=53/113
RA	438	.	NC_007779	2706106	0	A	C	bias_e_value=0.00197672	bias_p_value=4.25436e-10	fisher_strand_p_value=1.6471e-11	frequency=4.783773e-02	genotype_quality=744.9	ks_quality_p_value=1	log10_base_likelihood=-5.5897	log10_qual_likelihood_position_model=23.3343	log10_strand_likelihood_position_model=10.7833	new_cov=0/27	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=132/74	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/101
RA	439	.	NC_007779	2708923	0	A	C	bias_e_value=0.0293267	bias_p_value=6.3118e-09	fisher_strand_p_value=2.74222e-10	frequency=6.288147e-02	genotype_quality=729.9	ks_quality_p_value=1	log10_base_likelihood=-7.12349	log10_qual_likelihood_position_model=22.2129	log10_strand_likelihood_position_model=9.5619	new_cov=0/26	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=128/83	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=128/109
RA	440	.	NC_007779	2708935	0	A	C	bias_e_value=8.20811e-12	bias_p_value=1.76658e-18	fisher_strand_p_value=3.86563e-20	frequency=1.546054e-01	genotype_quality=615.5	ks_quality_p_value=1	log10_base_likelihood=-23.013	log10_qual_likelihood_position_model=31.3322	log10_strand_likelihood_position_model=19.4128	new_cov=0/44	polymorphism_quality=17.8	quality=17.8	quality_position_model=Inf	ref_cov=134/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/99
RA	441	.	NC_007779	2767290	0	A	T	bias_e_value=163989	bias_p_value=0.0352942	fisher_strand_p_value=0.00572724	frequency=3.420258e-02	genotype_quality=891.5	ks_quality_p_value=1	log10_base_likelihood=-7.3475	log10_qual_likelihood_position_model=11.2886	log10_strand_likelihood_position_model=2.52461	new_cov=10/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=129/106	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=139/106
RA	442	.	NC_007779	2768299	0	C	.	bias_e_value=2456190	bias_p_value=0.52863	fisher_strand_p_value=1	frequency=7.514954e-03	genotype_quality=1136.0	ks_quality_p_value=0.204217	log10_base_likelihood=-5.64891	log10_qual_likelihood_position_model=2.58806	log10_strand_likelihood_position_model=0.311443	new_cov=1/1	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.000162136	ref_cov=154/110	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=155/111
RA	443	.	NC_007779	2771144	0	G	T	bias_e_value=0.653624	bias_p_value=1.40675e-07	fisher_strand_p_value=8.00346e-09	frequency=6.265450e-02	genotype_quality=738.8	ks_quality_p_value=0.889492	log10_base_likelihood=-10.749	log10_qual_likelihood_position_model=20.1499	log10_strand_likelihood_position_model=8.09672	new_cov=0/21	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=134/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/106
RA	444	.	NC_007779	2774179	0	A	T	bias_e_value=25352.6	bias_p_value=0.00545648	fisher_strand_p_value=0.000654967	frequency=4.328156e-02	genotype_quality=941.2	ks_quality_p_value=1	log10_base_likelihood=-11.2273	log10_qual_likelihood_position_model=18.7868	log10_strand_likelihood_position_model=3.21836	new_cov=12/0	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=127/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=139/114
RA	445	.	NC_007779	2780301	0	A	C	bias_e_value=1.46139e-07	bias_p_value=3.14526e-14	fisher_strand_p_value=8.81904e-16	frequency=5.791855e-02	genotype_quality=818.3	ks_quality_p_value=1	log10_base_likelihood=-6.54519	log10_qual_likelihood_position_model=28.6481	log10_strand_likelihood_position_model=15.0546	new_cov=0/36	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=155/78	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=155/114
RA	446	.	NC_007779	2782993	0	T	.	bias_e_value=3240710	bias_p_value=0.697476	fisher_strand_p_value=0.497269	frequency=1.110554e-02	genotype_quality=738.3	ks_quality_p_value=0.666565	log10_base_likelihood=-5.71847	log10_qual_likelihood_position_model=1.37973	log10_strand_likelihood_position_model=0.594842	new_cov=2/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=1.42972e-05	ref_cov=89/89	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=91/89
RA	447	.	NC_007779	2791171	0	G	T	bias_e_value=29.8053	bias_p_value=6.4148e-06	fisher_strand_p_value=4.08293e-07	frequency=5.250788e-02	genotype_quality=885.4	ks_quality_p_value=1	log10_base_likelihood=-10.7414	log10_qual_likelihood_position_model=14.5045	log10_strand_likelihood_position_model=6.38903	new_cov=0/17	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=147/98	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/115
RA	448	.	NC_007779	2791635	0	C	T	bias_e_value=9.20095e-12	bias_p_value=1.98026e-18	fisher_strand_p_value=4.34431e-20	frequency=1.415515e-01	genotype_quality=555.8	ks_quality_p_value=1	log10_base_likelihood=-17.3005	log10_qual_likelihood_position_model=27.4117	log10_strand_likelihood_position_model=19.3621	new_cov=0/29	polymorphism_quality=12.0	quality=12.0	quality_position_model=Inf	ref_cov=127/21	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/50
RA	449	.	NC_007779	2791639	0	C	G	bias_e_value=0.00111866	bias_p_value=2.40762e-10	fisher_strand_p_value=9.12342e-12	frequency=9.581804e-02	genotype_quality=668.6	ks_quality_p_value=0.998789	log10_base_likelihood=-21.939	log10_qual_likelihood_position_model=16.7763	log10_strand_likelihood_position_model=11.0398	new_cov=0/20	polymorphism_quality=16.7	quality=16.7	quality_position_model=Inf	ref_cov=131/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/61
RA	450	.	NC_007779	2792526	0	G	C	bias_e_value=13726.6	bias_p_value=0.00295428	fisher_strand_p_value=0.000332634	frequency=3.871250e-02	genotype_quality=697.6	ks_quality_p_value=0.984159	log10_base_likelihood=-9.66533	log10_qual_likelihood_position_model=10.3042	log10_strand_likelihood_position_model=3.47803	new_cov=9/0	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=78/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/119
RA	451	.	NC_007779	2793036	1	.	G	bias_e_value=1330170	bias_p_value=0.286284	fisher_strand_p_value=0.10351	frequency=1.071358e-02	genotype_quality=1403.0	ks_quality_p_value=0.789104	log10_base_likelihood=-12.4448	log10_qual_likelihood_position_model=2.83586	log10_strand_likelihood_position_model=0.985018	new_cov=3/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=1.27645e-10	ref_cov=129/148	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/148
RA	452	.	NC_007779	2797644	0	C	A	bias_e_value=48.6101	bias_p_value=1.0462e-05	fisher_strand_p_value=6.89261e-07	frequency=5.781078e-02	genotype_quality=747.7	ks_quality_p_value=0.999365	log10_base_likelihood=-9.49597	log10_qual_likelihood_position_model=12.7611	log10_strand_likelihood_position_model=6.16162	new_cov=0/14	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=134/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/83
RA	453	.	NC_007779	2805462	1	.	G	bias_e_value=3614760	bias_p_value=0.777982	fisher_strand_p_value=0.504044	frequency=7.812500e-03	genotype_quality=1283.8	ks_quality_p_value=0.818842	log10_base_likelihood=-7.99434	log10_qual_likelihood_position_model=1.05891	log10_strand_likelihood_position_model=0.513273	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.33608e-08	ref_cov=140/114	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/114
RA	454	.	NC_007779	2816615	0	G	C	bias_e_value=2.84765e-21	bias_p_value=6.12881e-28	fisher_strand_p_value=1.11508e-29	frequency=2.156358e-01	genotype_quality=659.3	ks_quality_p_value=0.809746	log10_base_likelihood=-64.0839	log10_qual_likelihood_position_model=45.6422	log10_strand_likelihood_position_model=28.9527	new_cov=51/0	polymorphism_quality=59.1	quality=59.1	quality_position_model=Inf	ref_cov=30/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=81/144
RA	455	.	NC_007779	2817030	0	G	C	bias_e_value=2.16743e-30	bias_p_value=4.66483e-37	fisher_strand_p_value=6.92667e-39	frequency=2.952671e-01	genotype_quality=591.6	ks_quality_p_value=0.755457	log10_base_likelihood=-126.666	log10_qual_likelihood_position_model=51.5546	log10_strand_likelihood_position_model=38.1595	new_cov=75/0	polymorphism_quality=121.8	quality=121.8	quality_position_model=2.9502e-39	ref_cov=31/143	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=107/143
RA	456	.	NC_007779	2830767	0	G	T	bias_e_value=8697.1	bias_p_value=0.00187182	fisher_strand_p_value=0.000196292	frequency=3.118420e-02	genotype_quality=1004.5	ks_quality_p_value=1	log10_base_likelihood=-7.88496	log10_qual_likelihood_position_model=14.6692	log10_strand_likelihood_position_model=3.84001	new_cov=0/15	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=126/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/165
RA	457	.	NC_007779	2833875	0	A	C	bias_e_value=2.76063e-10	bias_p_value=5.94152e-17	fisher_strand_p_value=1.41122e-18	frequency=9.338665e-02	genotype_quality=724.4	ks_quality_p_value=1	log10_base_likelihood=-11.5034	log10_qual_likelihood_position_model=38.5093	log10_strand_likelihood_position_model=17.8504	new_cov=0/39	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=138/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/94
RA	458	.	NC_007779	2833989	0	A	C	bias_e_value=1.2082e-05	bias_p_value=2.60034e-12	fisher_strand_p_value=8.35773e-14	frequency=6.316710e-02	genotype_quality=577.9	ks_quality_p_value=1	log10_base_likelihood=-6.67203	log10_qual_likelihood_position_model=19.5051	log10_strand_likelihood_position_model=13.0779	new_cov=0/15	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=132/13	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/28
RA	459	.	NC_007779	2839296	0	A	G	bias_e_value=0.000186892	bias_p_value=4.02235e-11	fisher_strand_p_value=1.4224e-12	frequency=6.440973e-02	genotype_quality=667.0	ks_quality_p_value=1	log10_base_likelihood=-10.245	log10_qual_likelihood_position_model=20.3413	log10_strand_likelihood_position_model=11.847	new_cov=15/0	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=22/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=37/153
RA	460	.	NC_007779	2847445	0	G	T	bias_e_value=0.0465626	bias_p_value=1.00214e-08	fisher_strand_p_value=4.44731e-10	frequency=5.993748e-02	genotype_quality=957.7	ks_quality_p_value=1	log10_base_likelihood=-14.5042	log10_qual_likelihood_position_model=18.5515	log10_strand_likelihood_position_model=9.3519	new_cov=0/23	polymorphism_quality=9.1	quality=9.1	quality_position_model=Inf	ref_cov=167/96	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=167/119
RA	461	.	NC_007779	2862216	1	.	T	bias_e_value=484935	bias_p_value=0.104369	fisher_strand_p_value=0.498039	frequency=7.843018e-03	genotype_quality=1265.4	ks_quality_p_value=0.0433346	log10_base_likelihood=-8.58296	log10_qual_likelihood_position_model=1.87185	log10_strand_likelihood_position_model=0.60036	new_cov=2/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=4.89839e-08	ref_cov=126/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/127
RA	462	.	NC_007779	2865228	0	A	G	bias_e_value=4143040	bias_p_value=0.89168	fisher_strand_p_value=0.628548	frequency=1.258850e-02	genotype_quality=1271.5	ks_quality_p_value=0.910464	log10_base_likelihood=-7.67141	log10_qual_likelihood_position_model=2.9463	log10_strand_likelihood_position_model=0.531076	new_cov=1/3	polymorphism_quality=2.2	quality=2.2	quality_position_model=4.81527e-06	ref_cov=143/169	reject=POLYMORPHISM_STRAND	tot_cov=144/172
RA	463	.	NC_007779	2866111	0	A	G	frequency=1	genotype_quality=1120.0	new_cov=117/141	quality=1120.0	ref_cov=0/0	tot_cov=117/141
RA	464	.	NC_007779	2872916	0	T	G	bias_e_value=7.29204e-05	bias_p_value=1.56942e-11	fisher_strand_p_value=5.36485e-13	frequency=6.806612e-02	genotype_quality=733.9	ks_quality_p_value=1	log10_base_likelihood=-6.74662	log10_qual_likelihood_position_model=38.4393	log10_strand_likelihood_position_model=12.2704	new_cov=35/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=81/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/122
RA	465	.	NC_007779	2893759	0	C	G	bias_e_value=3831260	bias_p_value=0.824578	fisher_strand_p_value=0.586976	frequency=1.201248e-02	genotype_quality=1022.4	ks_quality_p_value=0.800076	log10_base_likelihood=-5.69587	log10_qual_likelihood_position_model=3.98811	log10_strand_likelihood_position_model=0.480137	new_cov=1/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.00763265	ref_cov=136/108	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=137/110
RA	466	.	NC_007779	2895131	0	A	C	bias_e_value=8.05589e-07	bias_p_value=1.73382e-13	fisher_strand_p_value=5.11346e-15	frequency=8.296680e-02	genotype_quality=635.6	ks_quality_p_value=1	log10_base_likelihood=-14.1134	log10_qual_likelihood_position_model=24.8337	log10_strand_likelihood_position_model=14.2913	new_cov=0/21	polymorphism_quality=8.8	quality=8.8	quality_position_model=Inf	ref_cov=138/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/48
RA	467	.	NC_007779	2895144	0	G	C	bias_e_value=0.0132541	bias_p_value=2.8526e-09	fisher_strand_p_value=1.19623e-10	frequency=8.488035e-02	genotype_quality=575.3	ks_quality_p_value=1	log10_base_likelihood=-9.5583	log10_qual_likelihood_position_model=16.4349	log10_strand_likelihood_position_model=9.92219	new_cov=0/17	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=118/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/50
RA	468	.	NC_007779	2898953	1	.	A	bias_e_value=4390100	bias_p_value=0.944853	fisher_strand_p_value=1	frequency=8.031845e-03	genotype_quality=1232.0	ks_quality_p_value=0.686838	log10_base_likelihood=-8.28686	log10_qual_likelihood_position_model=1.78719	log10_strand_likelihood_position_model=0.312431	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=4.08341e-08	ref_cov=102/145	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=103/146
RA	469	.	NC_007779	2898954	0	A	.	bias_e_value=187954	bias_p_value=0.0404522	fisher_strand_p_value=0.0690966	frequency=1.189804e-02	genotype_quality=1046.1	ks_quality_p_value=0.0975859	log10_base_likelihood=-8.38551	log10_qual_likelihood_position_model=2.46532	log10_strand_likelihood_position_model=1.16054	new_cov=3/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.23516e-06	ref_cov=101/148	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/148
RA	470	.	NC_007779	2905194	1	.	G	bias_e_value=783796	bias_p_value=0.168691	fisher_strand_p_value=0.0399882	frequency=1.398468e-02	genotype_quality=706.1	ks_quality_p_value=0.999802	log10_base_likelihood=-7.46921	log10_qual_likelihood_position_model=1.98956	log10_strand_likelihood_position_model=1.39807	new_cov=2/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=6.31657e-06	ref_cov=27/114	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=29/114
RA	471	.	NC_007779	2915479	0	C	G	bias_e_value=103.916	bias_p_value=2.23651e-05	fisher_strand_p_value=1.55703e-06	frequency=3.969002e-02	genotype_quality=615.5	ks_quality_p_value=0.999342	log10_base_likelihood=-6.92597	log10_qual_likelihood_position_model=9.66153	log10_strand_likelihood_position_model=5.8077	new_cov=0/8	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=127/25	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/33
RA	472	.	NC_007779	2926157	0	T	G	bias_e_value=1.09649e-11	bias_p_value=2.35991e-18	fisher_strand_p_value=5.19763e-20	frequency=9.822559e-02	genotype_quality=512.9	ks_quality_p_value=1	log10_base_likelihood=-14.7015	log10_qual_likelihood_position_model=25.1116	log10_strand_likelihood_position_model=19.2842	new_cov=22/0	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=9/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=31/126
RA	473	.	NC_007779	2939008	0	A	C	bias_e_value=7.8142e-06	bias_p_value=1.6818e-12	fisher_strand_p_value=5.32837e-14	frequency=1.123481e-01	genotype_quality=689.0	ks_quality_p_value=1	log10_base_likelihood=-14.9038	log10_qual_likelihood_position_model=28.3403	log10_strand_likelihood_position_model=13.2734	new_cov=0/33	polymorphism_quality=9.6	quality=9.6	quality_position_model=Inf	ref_cov=130/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=130/103
RA	474	.	NC_007779	2941550	0	T	.	bias_e_value=3153390	bias_p_value=0.678684	fisher_strand_p_value=0.359764	frequency=1.315022e-02	genotype_quality=1240.1	ks_quality_p_value=0.875097	log10_base_likelihood=-11.2624	log10_qual_likelihood_position_model=1.87002	log10_strand_likelihood_position_model=0.625773	new_cov=3/1	polymorphism_quality=5.9	quality=5.9	quality_position_model=9.11831e-11	ref_cov=145/155	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=148/156
RA	475	.	NC_007779	2983097	0	A	C	bias_e_value=8.26999e-09	bias_p_value=1.7799e-15	fisher_strand_p_value=4.60923e-17	frequency=1.093135e-01	genotype_quality=584.3	ks_quality_p_value=1	log10_base_likelihood=-12.5853	log10_qual_likelihood_position_model=39.196	log10_strand_likelihood_position_model=16.3364	new_cov=0/36	polymorphism_quality=7.2	quality=7.2	quality_position_model=Inf	ref_cov=113/44	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/80
RA	476	.	NC_007779	2987535	0	A	C	bias_e_value=1.88881e-34	bias_p_value=4.06516e-41	fisher_strand_p_value=4.12311e-43	frequency=2.824569e-01	genotype_quality=539.2	ks_quality_p_value=1	log10_base_likelihood=-82.1949	log10_qual_likelihood_position_model=64.6252	log10_strand_likelihood_position_model=42.3848	new_cov=0/86	polymorphism_quality=77.2	quality=77.2	quality_position_model=Inf	ref_cov=147/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=147/118
RA	477	.	NC_007779	2999826	0	A	C	bias_e_value=1.28945e-15	bias_p_value=2.77521e-22	fisher_strand_p_value=5.07937e-24	frequency=1.237588e-01	genotype_quality=621.5	ks_quality_p_value=1	log10_base_likelihood=-16.4667	log10_qual_likelihood_position_model=36.3256	log10_strand_likelihood_position_model=23.2942	new_cov=0/45	polymorphism_quality=11.1	quality=11.1	quality_position_model=Inf	ref_cov=138/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/84
RA	478	.	NC_007779	3003330	0	G	A	frequency=1	genotype_quality=1101.5	new_cov=139/126	quality=1101.5	ref_cov=0/0	tot_cov=139/126
RA	479	.	NC_007779	3016772	1	.	G	bias_e_value=2457800	bias_p_value=0.528977	fisher_strand_p_value=0.206607	frequency=9.302139e-03	genotype_quality=1072.0	ks_quality_p_value=0.989487	log10_base_likelihood=-7.71042	log10_qual_likelihood_position_model=1.48101	log10_strand_likelihood_position_model=0.684854	new_cov=2/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.88805e-07	ref_cov=96/117	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/117
RA	480	.	NC_007779	3029385	0	C	A	bias_e_value=1.17058e-11	bias_p_value=2.51936e-18	fisher_strand_p_value=5.58447e-20	frequency=1.085930e-01	genotype_quality=752.5	ks_quality_p_value=0.99508	log10_base_likelihood=-44.7665	log10_qual_likelihood_position_model=26.0727	log10_strand_likelihood_position_model=19.253	new_cov=0/23	polymorphism_quality=39.7	quality=39.7	quality_position_model=Inf	ref_cov=165/17	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=165/40
RA	481	.	NC_007779	3031146	0	C	A	bias_e_value=342.663	bias_p_value=7.37491e-05	fisher_strand_p_value=5.63555e-06	frequency=3.881168e-02	genotype_quality=952.4	ks_quality_p_value=1	log10_base_likelihood=-9.45365	log10_qual_likelihood_position_model=14.4722	log10_strand_likelihood_position_model=5.24906	new_cov=16/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=121/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/146
RA	482	.	NC_007779	3034413	0	A	C	bias_e_value=5.53604e-20	bias_p_value=1.19149e-26	fisher_strand_p_value=1.83689e-28	frequency=1.785822e-01	genotype_quality=560.9	ks_quality_p_value=1	log10_base_likelihood=-34.2267	log10_qual_likelihood_position_model=40.0098	log10_strand_likelihood_position_model=27.7359	new_cov=0/53	polymorphism_quality=29.1	quality=29.1	quality_position_model=Inf	ref_cov=134/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/86
RA	483	.	NC_007779	3035390	0	T	C	bias_e_value=4.07329e-22	bias_p_value=8.76667e-29	fisher_strand_p_value=1.47713e-30	frequency=1.914244e-01	genotype_quality=440.3	ks_quality_p_value=0.849662	log10_base_likelihood=-71.6637	log10_qual_likelihood_position_model=23.6929	log10_strand_likelihood_position_model=29.8306	new_cov=0/37	polymorphism_quality=66.7	quality=66.7	quality_position_model=2.71338e-20	ref_cov=143/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=145/47
RA	484	.	NC_007779	3044679	1	.	A	bias_e_value=3946210	bias_p_value=0.849317	fisher_strand_p_value=0.503981	frequency=1.041126e-02	genotype_quality=872.7	ks_quality_p_value=1	log10_base_likelihood=-5.77349	log10_qual_likelihood_position_model=3.41821	log10_strand_likelihood_position_model=0.509645	new_cov=0/2	polymorphism_quality=0.2	quality=0.2	quality_position_model=0.00154557	ref_cov=85/105	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=85/107
RA	485	.	NC_007779	3044712	0	T	C	bias_e_value=10.7017	bias_p_value=2.30325e-06	fisher_strand_p_value=1.37142e-07	frequency=3.578186e-02	genotype_quality=592.3	ks_quality_p_value=0.999518	log10_base_likelihood=-6.6513	log10_qual_likelihood_position_model=10.0252	log10_strand_likelihood_position_model=6.86283	new_cov=7/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=14/153	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=21/153
RA	486	.	NC_007779	3049815	0	G	T	frequency=1	genotype_quality=1084.3	new_cov=138/127	quality=1084.3	ref_cov=0/0	tot_cov=138/127
RA	487	.	NC_007779	3074129	0	G	T	bias_e_value=193.141	bias_p_value=4.15685e-05	fisher_strand_p_value=3.03286e-06	frequency=5.526161e-02	genotype_quality=866.6	ks_quality_p_value=1	log10_base_likelihood=-11.1867	log10_qual_likelihood_position_model=14.7261	log10_strand_likelihood_position_model=5.56592	new_cov=0/19	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=126/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/142
RA	488	.	NC_007779	3082401	0	C	A	bias_e_value=7621.13	bias_p_value=0.00164025	fisher_strand_p_value=0.000169389	frequency=4.044724e-02	genotype_quality=800.0	ks_quality_p_value=1	log10_base_likelihood=-6.76887	log10_qual_likelihood_position_model=11.1193	log10_strand_likelihood_position_model=3.77111	new_cov=12/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=100/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/113
RA	489	.	NC_007779	3084663	0	C	A	bias_e_value=2252.24	bias_p_value=0.000484736	fisher_strand_p_value=4.3936e-05	frequency=3.226662e-02	genotype_quality=1026.3	ks_quality_p_value=1	log10_base_likelihood=-5.97091	log10_qual_likelihood_position_model=15.3657	log10_strand_likelihood_position_model=4.56928	new_cov=17/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=151/137	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=168/137
RA	490	.	NC_007779	3085178	0	A	.	bias_e_value=4632790	bias_p_value=0.997085	fisher_strand_p_value=1	frequency=1.131344e-02	genotype_quality=1096.1	ks_quality_p_value=0.924622	log10_base_likelihood=-8.2065	log10_qual_likelihood_position_model=2.00268	log10_strand_likelihood_position_model=0.414711	new_cov=2/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.05366e-07	ref_cov=133/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=135/130
RA	491	.	NC_007779	3088549	0	G	T	bias_e_value=20.186	bias_p_value=4.34451e-06	fisher_strand_p_value=2.71955e-07	frequency=5.399799e-02	genotype_quality=946.1	ks_quality_p_value=0.990573	log10_base_likelihood=-8.35814	log10_qual_likelihood_position_model=20.2906	log10_strand_likelihood_position_model=6.68165	new_cov=0/24	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=135/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/163
RA	492	.	NC_007779	3089270	0	C	A	bias_e_value=0.0703244	bias_p_value=1.51355e-08	fisher_strand_p_value=6.84804e-10	frequency=7.487440e-02	genotype_quality=1003.5	ks_quality_p_value=1	log10_base_likelihood=-21.8618	log10_qual_likelihood_position_model=20.9978	log10_strand_likelihood_position_model=9.16443	new_cov=28/0	polymorphism_quality=16.6	quality=16.6	quality_position_model=Inf	ref_cov=121/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=150/152
RA	493	.	NC_007779	3105663	1	.	T	bias_e_value=2610470	bias_p_value=0.561834	fisher_strand_p_value=0.247191	frequency=7.490158e-03	genotype_quality=1307.1	ks_quality_p_value=0.913517	log10_base_likelihood=-8.12879	log10_qual_likelihood_position_model=1.91287	log10_strand_likelihood_position_model=0.606967	new_cov=0/2	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.61912e-07	ref_cov=134/131	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/133
RA	494	.	NC_007779	3110532	0	C	A	bias_e_value=0.0210393	bias_p_value=4.52815e-09	fisher_strand_p_value=1.94579e-10	frequency=6.538343e-02	genotype_quality=573.6	ks_quality_p_value=0.996035	log10_base_likelihood=-17.0388	log10_qual_likelihood_position_model=12.4212	log10_strand_likelihood_position_model=9.7109	new_cov=0/10	polymorphism_quality=11.7	quality=11.7	quality_position_model=Inf	ref_cov=127/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/20
RA	495	.	NC_007779	3124070	0	G	.	bias_e_value=4421390	bias_p_value=0.951587	fisher_strand_p_value=1	frequency=8.363724e-03	genotype_quality=984.8	ks_quality_p_value=0.705426	log10_base_likelihood=-5.63905	log10_qual_likelihood_position_model=1.30169	log10_strand_likelihood_position_model=0.299324	new_cov=1/1	polymorphism_quality=0.1	quality=0.1	quality_position_model=7.01711e-06	ref_cov=116/120	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=118/121
RA	496	.	NC_007779	3124071	0	C	.	bias_e_value=4464040	bias_p_value=0.960767	fisher_strand_p_value=1	frequency=8.363724e-03	genotype_quality=988.5	ks_quality_p_value=0.733291	log10_base_likelihood=-5.59805	log10_qual_likelihood_position_model=1.22654	log10_strand_likelihood_position_model=0.299692	new_cov=1/1	polymorphism_quality=0.0	quality=0.0	quality_position_model=6.46725e-06	ref_cov=114/122	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=116/123
RA	497	.	NC_007779	3141459	0	C	A	deleted=1	frequency=1	genotype_quality=1.0	new_cov=1/0	quality=1.0	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	498	.	NC_007779	3152412	0	T	G	bias_e_value=5.01515e-09	bias_p_value=1.07938e-15	fisher_strand_p_value=2.75849e-17	frequency=8.113337e-02	genotype_quality=767.7	ks_quality_p_value=1	log10_base_likelihood=-6.71952	log10_qual_likelihood_position_model=44.6517	log10_strand_likelihood_position_model=16.5593	new_cov=46/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=80/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/132
RA	499	.	NC_007779	3160153	0	G	C	bias_e_value=7.83663e-14	bias_p_value=1.68663e-20	fisher_strand_p_value=3.43907e-22	frequency=1.260834e-01	genotype_quality=579.6	ks_quality_p_value=0.972113	log10_base_likelihood=-45.4333	log10_qual_likelihood_position_model=19.9736	log10_strand_likelihood_position_model=21.4636	new_cov=21/0	polymorphism_quality=40.3	quality=40.3	quality_position_model=7.7638e-06	ref_cov=5/139	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=26/140
RA	500	.	NC_007779	3162929	0	G	C	bias_e_value=0.108222	bias_p_value=2.32919e-08	fisher_strand_p_value=1.5596e-09	frequency=9.664726e-02	genotype_quality=668.9	ks_quality_p_value=0.689811	log10_base_likelihood=-19.2944	log10_qual_likelihood_position_model=25.0474	log10_strand_likelihood_position_model=8.80699	new_cov=24/0	polymorphism_quality=14.0	quality=14.0	quality_position_model=Inf	ref_cov=76/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/117
RA	501	.	NC_007779	3195467	0	A	C	bias_e_value=6.28125e-06	bias_p_value=1.35187e-12	fisher_strand_p_value=4.25269e-14	frequency=8.983755e-02	genotype_quality=825.9	ks_quality_p_value=1	log10_base_likelihood=-12.676	log10_qual_likelihood_position_model=30.0496	log10_strand_likelihood_position_model=13.3713	new_cov=0/34	polymorphism_quality=7.3	quality=7.3	quality_position_model=Inf	ref_cov=153/87	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=153/121
RA	502	.	NC_007779	3212355	0	G	C	bias_e_value=8.05616e-07	bias_p_value=1.73387e-13	fisher_strand_p_value=5.23748e-15	frequency=1.190834e-01	genotype_quality=682.0	ks_quality_p_value=0.976356	log10_base_likelihood=-26.0422	log10_qual_likelihood_position_model=23.8852	log10_strand_likelihood_position_model=14.2809	new_cov=27/0	polymorphism_quality=20.8	quality=20.8	quality_position_model=Inf	ref_cov=43/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=70/134
RA	503	.	NC_007779	3216584	0	G	C	bias_e_value=4127710	bias_p_value=0.888381	fisher_strand_p_value=0.630878	frequency=1.158142e-02	genotype_quality=1157.8	ks_quality_p_value=0.89782	log10_base_likelihood=-7.39763	log10_qual_likelihood_position_model=2.78839	log10_strand_likelihood_position_model=0.51831	new_cov=1/3	polymorphism_quality=1.9	quality=1.9	quality_position_model=6.17564e-06	ref_cov=125/153	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=126/156
RA	504	.	NC_007779	3216602	0	C	A	bias_e_value=242880	bias_p_value=0.0522736	fisher_strand_p_value=0.262676	frequency=1.166153e-02	genotype_quality=1067.3	ks_quality_p_value=0.0349745	log10_base_likelihood=-7.34316	log10_qual_likelihood_position_model=3.08711	log10_strand_likelihood_position_model=0.731675	new_cov=0/3	polymorphism_quality=1.8	quality=1.8	quality_position_model=2.43593e-05	ref_cov=110/144	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=110/147
RA	505	.	NC_007779	3216644	0	A	G	bias_e_value=1053690	bias_p_value=0.226779	fisher_strand_p_value=0.264194	frequency=1.124191e-02	genotype_quality=1070.5	ks_quality_p_value=0.224387	log10_base_likelihood=-6.09075	log10_qual_likelihood_position_model=2.7961	log10_strand_likelihood_position_model=0.724219	new_cov=0/3	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.00025221	ref_cov=113/150	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=113/153
RA	506	.	NC_007779	3216647	0	C	A	bias_e_value=2527460	bias_p_value=0.543968	fisher_strand_p_value=0.259307	frequency=1.116943e-02	genotype_quality=1142.3	ks_quality_p_value=0.825344	log10_base_likelihood=-6.58495	log10_qual_likelihood_position_model=2.69874	log10_strand_likelihood_position_model=0.751273	new_cov=0/3	polymorphism_quality=1.1	quality=1.1	quality_position_model=6.29481e-05	ref_cov=117/148	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=117/151
RA	507	.	NC_007779	3220025	0	C	A	bias_e_value=80.9787	bias_p_value=1.74285e-05	fisher_strand_p_value=1.19037e-06	frequency=3.557014e-02	genotype_quality=937.2	ks_quality_p_value=1	log10_base_likelihood=-6.30755	log10_qual_likelihood_position_model=16.9264	log10_strand_likelihood_position_model=5.92432	new_cov=17/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=113/150	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/150
RA	508	.	NC_007779	3223274	0	G	T	bias_e_value=53.8076	bias_p_value=1.15807e-05	fisher_strand_p_value=7.67973e-07	frequency=4.174042e-02	genotype_quality=892.4	ks_quality_p_value=1	log10_base_likelihood=-8.8699	log10_qual_likelihood_position_model=16.3989	log10_strand_likelihood_position_model=6.11465	new_cov=0/18	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=138/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/125
RA	509	.	NC_007779	3231285	0	C	A	bias_e_value=1.28564	bias_p_value=2.76701e-07	fisher_strand_p_value=1.45685e-08	frequency=5.638695e-02	genotype_quality=813.0	ks_quality_p_value=0.997159	log10_base_likelihood=-6.64992	log10_qual_likelihood_position_model=16.7193	log10_strand_likelihood_position_model=7.83659	new_cov=0/15	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=144/54	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/69
RA	510	.	NC_007779	3231302	0	C	G	bias_e_value=0.000383136	bias_p_value=8.24599e-11	fisher_strand_p_value=3.00957e-12	frequency=1.119056e-01	genotype_quality=730.9	ks_quality_p_value=0.9951	log10_base_likelihood=-27.3136	log10_qual_likelihood_position_model=24.3234	log10_strand_likelihood_position_model=11.5215	new_cov=0/28	polymorphism_quality=22.1	quality=22.1	quality_position_model=Inf	ref_cov=131/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/97
RA	511	.	NC_007779	3231832	1	.	G	bias_e_value=175688	bias_p_value=0.0378122	fisher_strand_p_value=0.00791765	frequency=2.475262e-02	genotype_quality=986.0	ks_quality_p_value=0.785454	log10_base_likelihood=-22.3007	log10_qual_likelihood_position_model=3.34828	log10_strand_likelihood_position_model=2.1014	new_cov=5/0	polymorphism_quality=17.0	quality=17.0	quality_position_model=5.47448e-19	ref_cov=73/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=78/124
RA	512	.	NC_007779	3238315	1	.	T	bias_e_value=2449310	bias_p_value=0.527149	fisher_strand_p_value=0.497887	frequency=1.183414e-02	genotype_quality=763.1	ks_quality_p_value=0.408298	log10_base_likelihood=-7.99287	log10_qual_likelihood_position_model=2.89689	log10_strand_likelihood_position_model=0.569194	new_cov=2/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.16094e-06	ref_cov=86/81	reject=POLYMORPHISM_STRAND	tot_cov=88/81
RA	513	.	NC_007779	3238317	1	.	C	bias_e_value=2645670	bias_p_value=0.569411	fisher_strand_p_value=0.239208	frequency=1.242065e-02	genotype_quality=704.9	ks_quality_p_value=0.965453	log10_base_likelihood=-7.20284	log10_qual_likelihood_position_model=3.41095	log10_strand_likelihood_position_model=0.621224	new_cov=2/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=5.76827e-05	ref_cov=77/82	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=79/82
RA	514	.	NC_007779	3238322	0	T	C	bias_e_value=421.737	bias_p_value=9.07677e-05	fisher_strand_p_value=7.05735e-06	frequency=6.774998e-02	genotype_quality=442.7	ks_quality_p_value=1	log10_base_likelihood=-8.85703	log10_qual_likelihood_position_model=12.8959	log10_strand_likelihood_position_model=5.15136	new_cov=12/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=47/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=59/90
RA	515	.	NC_007779	3238324	0	A	C	bias_e_value=55294.1	bias_p_value=0.0119006	fisher_strand_p_value=0.00160003	frequency=4.046822e-02	genotype_quality=441.5	ks_quality_p_value=1	log10_base_likelihood=-5.71886	log10_qual_likelihood_position_model=9.70102	log10_strand_likelihood_position_model=2.81959	new_cov=8/1	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=49/96	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=58/98
RA	516	.	NC_007779	3239641	0	T	G	bias_e_value=0.0274393	bias_p_value=5.90558e-09	fisher_strand_p_value=2.55801e-10	frequency=4.328918e-02	genotype_quality=701.8	ks_quality_p_value=1	log10_base_likelihood=-7.26833	log10_qual_likelihood_position_model=18.4623	log10_strand_likelihood_position_model=9.5921	new_cov=23/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=69/130	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=93/130
RA	517	.	NC_007779	3259711	0	A	C	bias_e_value=7.0507e-16	bias_p_value=1.51748e-22	fisher_strand_p_value=2.74648e-24	frequency=1.376214e-01	genotype_quality=639.9	ks_quality_p_value=1	log10_base_likelihood=-14.5908	log10_qual_likelihood_position_model=42.3916	log10_strand_likelihood_position_model=23.5612	new_cov=0/52	polymorphism_quality=9.2	quality=9.2	quality_position_model=Inf	ref_cov=135/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=135/102
RA	518	.	NC_007779	3266843	0	C	G	bias_e_value=0.00019531	bias_p_value=4.20354e-11	fisher_strand_p_value=1.49238e-12	frequency=1.306591e-01	genotype_quality=475.6	ks_quality_p_value=0.997652	log10_base_likelihood=-20.7694	log10_qual_likelihood_position_model=19.8951	log10_strand_likelihood_position_model=11.8261	new_cov=0/19	polymorphism_quality=15.5	quality=15.5	quality_position_model=Inf	ref_cov=97/21	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/40
RA	519	.	NC_007779	3280326	0	A	C	bias_e_value=6.05539e-19	bias_p_value=1.30326e-25	fisher_strand_p_value=2.08743e-27	frequency=1.515450e-01	genotype_quality=599.5	ks_quality_p_value=1	log10_base_likelihood=-22.3972	log10_qual_likelihood_position_model=37.4763	log10_strand_likelihood_position_model=26.6804	new_cov=0/52	polymorphism_quality=17.1	quality=17.1	quality_position_model=Inf	ref_cov=138/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=138/89
RA	520	.	NC_007779	3285688	1	.	G	bias_e_value=851985	bias_p_value=0.183367	fisher_strand_p_value=0.0519394	frequency=1.562500e-02	genotype_quality=1268.9	ks_quality_p_value=0.859066	log10_base_likelihood=-17.0658	log10_qual_likelihood_position_model=2.44617	log10_strand_likelihood_position_model=1.2845	new_cov=4/0	polymorphism_quality=11.7	quality=11.7	quality_position_model=2.0122e-15	ref_cov=119/133	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/133
RA	521	.	NC_007779	3287872	1	.	G	bias_e_value=1048620	bias_p_value=0.225688	fisher_strand_p_value=0.0664122	frequency=1.937962e-02	genotype_quality=1257.7	ks_quality_p_value=0.886824	log10_base_likelihood=-21.7813	log10_qual_likelihood_position_model=5.85801	log10_strand_likelihood_position_model=1.31064	new_cov=5/0	polymorphism_quality=16.5	quality=16.5	quality_position_model=1.01591e-16	ref_cov=137/116	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/116
RA	522	.	NC_007779	3295552	0	A	G	bias_e_value=1.20805	bias_p_value=2.60001e-07	fisher_strand_p_value=1.36034e-08	frequency=5.134153e-02	genotype_quality=796.1	ks_quality_p_value=1	log10_base_likelihood=-6.3451	log10_qual_likelihood_position_model=17.657	log10_strand_likelihood_position_model=7.86635	new_cov=15/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=57/152	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=72/152
RA	523	.	NC_007779	3300073	0	T	G	bias_e_value=6.09059e-11	bias_p_value=1.31084e-17	fisher_strand_p_value=3.0031e-19	frequency=1.652203e-01	genotype_quality=547.3	ks_quality_p_value=1	log10_base_likelihood=-29.9933	log10_qual_likelihood_position_model=42.0954	log10_strand_likelihood_position_model=18.5224	new_cov=50/0	polymorphism_quality=24.8	quality=24.8	quality_position_model=Inf	ref_cov=58/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/110
RA	524	.	NC_007779	3310088	0	G	C	bias_e_value=5.57553	bias_p_value=1.19998e-06	fisher_strand_p_value=6.85896e-08	frequency=6.321383e-02	genotype_quality=490.3	ks_quality_p_value=1	log10_base_likelihood=-8.75359	log10_qual_likelihood_position_model=11.5989	log10_strand_likelihood_position_model=7.16374	new_cov=0/9	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=104/15	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=104/24
RA	525	.	NC_007779	3333612	0	T	G	bias_e_value=2.33687e-05	bias_p_value=5.0295e-12	fisher_strand_p_value=1.65275e-13	frequency=7.665014e-02	genotype_quality=602.5	ks_quality_p_value=1	log10_base_likelihood=-23.6922	log10_qual_likelihood_position_model=15.4786	log10_strand_likelihood_position_model=12.7818	new_cov=14/0	polymorphism_quality=18.4	quality=18.4	quality_position_model=Inf	ref_cov=13/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=27/145
RA	526	.	NC_007779	3350033	0	C	.	bias_e_value=4187430	bias_p_value=0.901234	fisher_strand_p_value=1	frequency=8.125305e-03	genotype_quality=1043.0	ks_quality_p_value=0.589869	log10_base_likelihood=-5.57346	log10_qual_likelihood_position_model=0.902269	log10_strand_likelihood_position_model=0.308663	new_cov=1/1	polymorphism_quality=0.0	quality=0.0	quality_position_model=3.20836e-06	ref_cov=140/104	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/105
RA	527	.	NC_007779	3350708	0	A	C	bias_e_value=2.37479e-10	bias_p_value=5.11111e-17	fisher_strand_p_value=1.20955e-18	frequency=1.376286e-01	genotype_quality=633.9	ks_quality_p_value=1	log10_base_likelihood=-20.5839	log10_qual_likelihood_position_model=34.4531	log10_strand_likelihood_position_model=18.0434	new_cov=0/51	polymorphism_quality=15.3	quality=15.3	quality_position_model=Inf	ref_cov=120/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/122
RA	528	.	NC_007779	3385700	1	.	T	bias_e_value=3419800	bias_p_value=0.736021	fisher_strand_p_value=0.623326	frequency=1.159382e-02	genotype_quality=1669.8	ks_quality_p_value=0.590609	log10_base_likelihood=-16.9982	log10_qual_likelihood_position_model=2.02934	log10_strand_likelihood_position_model=0.579805	new_cov=1/3	polymorphism_quality=11.7	quality=11.7	quality_position_model=1.7128e-16	ref_cov=167/174	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=168/177
RA	529	.	NC_007779	3389914	0	A	C	bias_e_value=6.08357e-11	bias_p_value=1.30933e-17	fisher_strand_p_value=2.99956e-19	frequency=1.301279e-01	genotype_quality=636.4	ks_quality_p_value=1	log10_base_likelihood=-18.8148	log10_qual_likelihood_position_model=34.7895	log10_strand_likelihood_position_model=18.5229	new_cov=0/50	polymorphism_quality=13.5	quality=13.5	quality_position_model=Inf	ref_cov=121/66	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/116
RA	530	.	NC_007779	3392267	0	C	A	bias_e_value=0.000415827	bias_p_value=8.94958e-11	fisher_strand_p_value=3.26042e-12	frequency=6.883669e-02	genotype_quality=985.9	ks_quality_p_value=1	log10_base_likelihood=-17.5574	log10_qual_likelihood_position_model=20.16	log10_strand_likelihood_position_model=11.4867	new_cov=26/0	polymorphism_quality=12.2	quality=12.2	quality_position_model=Inf	ref_cov=86/175	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/175
RA	531	.	NC_007779	3397405	0	A	C	bias_e_value=3.51792e-28	bias_p_value=7.5714e-35	fisher_strand_p_value=9.01391e-37	frequency=1.875610e-01	genotype_quality=644.5	ks_quality_p_value=1	log10_base_likelihood=-36.5623	log10_qual_likelihood_position_model=48.5063	log10_strand_likelihood_position_model=36.0451	new_cov=0/66	polymorphism_quality=31.4	quality=31.4	quality_position_model=Inf	ref_cov=158/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=158/99
RA	532	.	NC_007779	3397813	0	C	G	frequency=1	genotype_quality=1052.2	new_cov=105/137	quality=1052.2	ref_cov=0/0	tot_cov=105/137
RA	533	.	NC_007779	3404070	0	T	G	bias_e_value=1.68999e-10	bias_p_value=3.63726e-17	fisher_strand_p_value=8.53723e-19	frequency=1.635985e-01	genotype_quality=495.1	ks_quality_p_value=1	log10_base_likelihood=-22.8419	log10_qual_likelihood_position_model=30.4869	log10_strand_likelihood_position_model=18.0687	new_cov=42/0	polymorphism_quality=17.6	quality=17.6	quality_position_model=Inf	ref_cov=41/103	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=84/103
RA	534	.	NC_007779	3406254	0	C	.	bias_e_value=1024380	bias_p_value=0.220472	fisher_strand_p_value=0.235792	frequency=8.806229e-03	genotype_quality=971.2	ks_quality_p_value=0.242011	log10_base_likelihood=-5.81166	log10_qual_likelihood_position_model=1.5957	log10_strand_likelihood_position_model=0.627472	new_cov=2/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=2.08457e-05	ref_cov=108/116	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=111/116
RA	535	.	NC_007779	3406255	0	G	.	bias_e_value=1114340	bias_p_value=0.239832	fisher_strand_p_value=0.236155	frequency=8.616447e-03	genotype_quality=990.9	ks_quality_p_value=0.270862	log10_base_likelihood=-5.74979	log10_qual_likelihood_position_model=1.51638	log10_strand_likelihood_position_model=0.626803	new_cov=2/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=1.99483e-05	ref_cov=111/119	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=113/119
RA	536	.	NC_007779	3406256	0	G	.	bias_e_value=1098210	bias_p_value=0.236361	fisher_strand_p_value=0.236155	frequency=8.616447e-03	genotype_quality=988.5	ks_quality_p_value=0.265534	log10_base_likelihood=-5.74979	log10_qual_likelihood_position_model=1.64132	log10_strand_likelihood_position_model=0.626803	new_cov=2/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=2.70252e-05	ref_cov=111/119	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=113/119
RA	537	.	NC_007779	3412753	0	C	T	bias_e_value=0.0492623	bias_p_value=1.06024e-08	fisher_strand_p_value=4.71751e-10	frequency=5.560637e-02	genotype_quality=812.8	ks_quality_p_value=1	log10_base_likelihood=-9.21138	log10_qual_likelihood_position_model=21.4378	log10_strand_likelihood_position_model=9.32629	new_cov=0/14	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=161/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=161/51
RA	538	.	NC_007779	3412761	0	T	A	bias_e_value=0.0522256	bias_p_value=1.12402e-08	fisher_strand_p_value=5.01493e-10	frequency=4.981375e-02	genotype_quality=782.6	ks_quality_p_value=1	log10_base_likelihood=-7.23027	log10_qual_likelihood_position_model=16.3357	log10_strand_likelihood_position_model=9.29974	new_cov=0/12	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=165/27	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=165/39
RA	539	.	NC_007779	3421203	0	T	C	bias_e_value=1.31711e-07	bias_p_value=2.83474e-14	fisher_strand_p_value=7.9246e-16	frequency=7.552338e-02	genotype_quality=729.8	ks_quality_p_value=1	log10_base_likelihood=-7.8001	log10_qual_likelihood_position_model=28.2234	log10_strand_likelihood_position_model=15.101	new_cov=0/24	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=156/36	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=156/60
RA	540	.	NC_007779	3423128	1	.	G	bias_e_value=1948390	bias_p_value=0.41934	fisher_strand_p_value=0.180482	frequency=8.695602e-03	genotype_quality=845.3	ks_quality_p_value=0.787252	log10_base_likelihood=-7.92954	log10_qual_likelihood_position_model=1.10372	log10_strand_likelihood_position_model=0.743566	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=5.24206e-08	ref_cov=96/132	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/132
RA	541	.	NC_007779	3440270	0	C	A	bias_e_value=16.4393	bias_p_value=3.53813e-06	fisher_strand_p_value=2.16454e-07	frequency=5.550337e-02	genotype_quality=930.3	ks_quality_p_value=1	log10_base_likelihood=-7.99468	log10_qual_likelihood_position_model=20.2602	log10_strand_likelihood_position_model=6.97159	new_cov=26/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=146/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/136
RA	542	.	NC_007779	3440600	0	A	C	bias_e_value=2.89154e-11	bias_p_value=6.22328e-18	fisher_strand_p_value=1.40127e-19	frequency=7.982063e-02	genotype_quality=695.0	ks_quality_p_value=1	log10_base_likelihood=-7.46464	log10_qual_likelihood_position_model=31.9763	log10_strand_likelihood_position_model=18.8535	new_cov=0/43	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=139/59	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/102
RA	543	.	NC_007779	3447060	0	T	A	bias_e_value=3294.94	bias_p_value=0.000709148	fisher_strand_p_value=6.68151e-05	frequency=5.816793e-02	genotype_quality=908.3	ks_quality_p_value=1	log10_base_likelihood=-12.2095	log10_qual_likelihood_position_model=26.0096	log10_strand_likelihood_position_model=4.41823	new_cov=0/18	polymorphism_quality=6.8	quality=6.8	quality_position_model=Inf	ref_cov=115/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/160
RA	544	.	NC_007779	3450056	0	C	A	bias_e_value=432113	bias_p_value=0.0930009	fisher_strand_p_value=0.342633	frequency=6.335640e-01	genotype_quality=320.1	ks_quality_p_value=0.0544961	log10_base_likelihood=-443.056	log10_qual_likelihood_position_model=14.7673	log10_strand_likelihood_position_model=1.23286	new_cov=94/99	polymorphism_quality=inf	quality=inf	quality_position_model=0	ref_cov=48/64	tot_cov=143/163
RA	545	.	NC_007779	3475527	0	T	G	bias_e_value=4.79676e-19	bias_p_value=1.03237e-25	fisher_strand_p_value=1.6473e-27	frequency=2.047706e-01	genotype_quality=551.0	ks_quality_p_value=1	log10_base_likelihood=-40.6184	log10_qual_likelihood_position_model=40.1691	log10_strand_likelihood_position_model=26.7832	new_cov=61/0	polymorphism_quality=35.5	quality=35.5	quality_position_model=Inf	ref_cov=44/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/126
RA	546	.	NC_007779	3475533	0	C	T	bias_e_value=7.00439e-16	bias_p_value=1.50751e-22	fisher_strand_p_value=2.72811e-24	frequency=2.190537e-01	genotype_quality=593.1	ks_quality_p_value=1	log10_base_likelihood=-73.5209	log10_qual_likelihood_position_model=50.3272	log10_strand_likelihood_position_model=23.5641	new_cov=55/0	polymorphism_quality=68.5	quality=68.5	quality_position_model=Inf	ref_cov=55/136	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=110/136
RA	547	.	NC_007779	3484372	0	A	C	bias_e_value=1.02126e-11	bias_p_value=2.19798e-18	fisher_strand_p_value=4.83326e-20	frequency=9.745073e-02	genotype_quality=704.1	ks_quality_p_value=1	log10_base_likelihood=-10.5162	log10_qual_likelihood_position_model=34.8588	log10_strand_likelihood_position_model=19.3158	new_cov=0/48	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=142/70	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=142/118
RA	548	.	NC_007779	3486216	0	T	G	bias_e_value=7.14559e-06	bias_p_value=1.5379e-12	fisher_strand_p_value=4.85824e-14	frequency=5.045366e-02	genotype_quality=925.2	ks_quality_p_value=1	log10_base_likelihood=-6.89908	log10_qual_likelihood_position_model=41.8774	log10_strand_likelihood_position_model=13.3135	new_cov=36/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=102/161	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/161
RA	549	.	NC_007779	3499066	0	A	C	bias_e_value=0.0630738	bias_p_value=1.3575e-08	fisher_strand_p_value=6.11049e-10	frequency=5.757809e-02	genotype_quality=648.2	ks_quality_p_value=1	log10_base_likelihood=-10.3856	log10_qual_likelihood_position_model=17.3808	log10_strand_likelihood_position_model=9.21392	new_cov=0/13	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=143/28	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=143/41
RA	550	.	NC_007779	3519465	1	.	A	bias_e_value=2557670	bias_p_value=0.55047	fisher_strand_p_value=0.362361	frequency=1.369858e-02	genotype_quality=1433.7	ks_quality_p_value=0.602333	log10_base_likelihood=-17.5913	log10_qual_likelihood_position_model=2.26388	log10_strand_likelihood_position_model=0.620482	new_cov=3/1	polymorphism_quality=12.3	quality=12.3	quality_position_model=8.15093e-17	ref_cov=140/148	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/149
RA	551	.	NC_007779	3520391	0	C	G	bias_e_value=5.50411e-09	bias_p_value=1.18461e-15	fisher_strand_p_value=3.03484e-17	frequency=8.716583e-02	genotype_quality=687.1	ks_quality_p_value=1	log10_base_likelihood=-25.3288	log10_qual_likelihood_position_model=19.624	log10_strand_likelihood_position_model=16.5179	new_cov=16/0	polymorphism_quality=20.1	quality=20.1	quality_position_model=Inf	ref_cov=8/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=24/154
RA	552	.	NC_007779	3521017	1	.	G	bias_e_value=3916450	bias_p_value=0.842912	fisher_strand_p_value=0.498127	frequency=7.458687e-03	genotype_quality=1298.3	ks_quality_p_value=0.993234	log10_base_likelihood=-6.04073	log10_qual_likelihood_position_model=4.55362	log10_strand_likelihood_position_model=0.60369	new_cov=2/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.0194034	ref_cov=132/134	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=134/134
RA	553	.	NC_007779	3521520	0	C	A	bias_e_value=21354.7	bias_p_value=0.00459604	fisher_strand_p_value=0.000539084	frequency=2.701855e-02	genotype_quality=1012.5	ks_quality_p_value=1	log10_base_likelihood=-6.34203	log10_qual_likelihood_position_model=13.2175	log10_strand_likelihood_position_model=3.33211	new_cov=12/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=141/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=153/133
RA	554	.	NC_007779	3543547	0	A	C	bias_e_value=2.32248e-22	bias_p_value=4.99852e-29	fisher_strand_p_value=7.09812e-31	frequency=2.680306e-01	genotype_quality=547.7	ks_quality_p_value=1	log10_base_likelihood=-63.6269	log10_qual_likelihood_position_model=57.3955	log10_strand_likelihood_position_model=30.1592	new_cov=0/86	polymorphism_quality=58.6	quality=58.6	quality_position_model=Inf	ref_cov=123/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/146
RA	555	.	NC_007779	3561760	1	.	T	bias_e_value=4646330	bias_p_value=0.999999	fisher_strand_p_value=1	frequency=6.825447e-03	genotype_quality=1465.0	ks_quality_p_value=0.998313	log10_base_likelihood=-7.64494	log10_qual_likelihood_position_model=2.96846	log10_strand_likelihood_position_model=0.308133	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=3.16374e-06	ref_cov=166/125	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=167/126
RA	556	.	NC_007779	3576401	0	A	.	bias_e_value=2703690	bias_p_value=0.581898	fisher_strand_p_value=0.262534	frequency=1.127052e-02	genotype_quality=1105.5	ks_quality_p_value=0.912542	log10_base_likelihood=-8.27458	log10_qual_likelihood_position_model=1.45604	log10_strand_likelihood_position_model=0.73282	new_cov=0/3	polymorphism_quality=2.8	quality=2.8	quality_position_model=5.19893e-08	ref_cov=114/149	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/152
RA	557	.	NC_007779	3580297	0	G	T	bias_e_value=1.61825	bias_p_value=3.48286e-07	fisher_strand_p_value=1.85216e-08	frequency=4.785824e-02	genotype_quality=1067.4	ks_quality_p_value=1	log10_base_likelihood=-10.7039	log10_qual_likelihood_position_model=20.5524	log10_strand_likelihood_position_model=7.73232	new_cov=0/23	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=161/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=161/151
RA	558	.	NC_007779	3603950	0	A	C	bias_e_value=2.46482e-14	bias_p_value=5.30487e-21	fisher_strand_p_value=1.02748e-22	frequency=1.224403e-01	genotype_quality=664.2	ks_quality_p_value=1	log10_base_likelihood=-14.2885	log10_qual_likelihood_position_model=47.0422	log10_strand_likelihood_position_model=21.9882	new_cov=0/47	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=140/50	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=141/98
RA	559	.	NC_007779	3609441	0	T	G	bias_e_value=2.13781e-12	bias_p_value=4.60107e-19	fisher_strand_p_value=9.774e-21	frequency=6.858397e-02	genotype_quality=864.6	ks_quality_p_value=1	log10_base_likelihood=-9.69848	log10_qual_likelihood_position_model=34.7295	log10_strand_likelihood_position_model=20.0099	new_cov=44/0	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=69/167	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/167
RA	560	.	NC_007779	3609448	0	A	T	bias_e_value=555.501	bias_p_value=0.000119557	fisher_strand_p_value=9.51701e-06	frequency=3.379154e-02	genotype_quality=942.8	ks_quality_p_value=1	log10_base_likelihood=-9.17626	log10_qual_likelihood_position_model=15.6052	log10_strand_likelihood_position_model=5.0215	new_cov=10/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=74/173	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=84/173
RA	561	.	NC_007779	3616365	0	T	G	bias_e_value=0.00535052	bias_p_value=1.15156e-09	fisher_strand_p_value=4.64474e-11	frequency=5.718327e-02	genotype_quality=893.4	ks_quality_p_value=1	log10_base_likelihood=-10.1398	log10_qual_likelihood_position_model=34.8371	log10_strand_likelihood_position_model=10.3418	new_cov=34/0	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=122/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=156/141
RA	562	.	NC_007779	3620063	0	A	T	bias_e_value=4603310	bias_p_value=0.99074	fisher_strand_p_value=1	frequency=1.021290e-02	genotype_quality=1168.5	ks_quality_p_value=0.867036	log10_base_likelihood=-6.07807	log10_qual_likelihood_position_model=3.06447	log10_strand_likelihood_position_model=0.400977	new_cov=2/1	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.000227228	ref_cov=151/135	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=153/136
RA	563	.	NC_007779	3632227	0	A	C	bias_e_value=1938.45	bias_p_value=0.0004172	fisher_strand_p_value=3.72578e-05	frequency=2.670765e-02	genotype_quality=579.6	ks_quality_p_value=1	log10_base_likelihood=-7.62215	log10_qual_likelihood_position_model=5.58412	log10_strand_likelihood_position_model=4.42878	new_cov=0/4	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=135/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/13
RA	564	.	NC_007779	3676780	0	A	C	bias_e_value=7.8923e-07	bias_p_value=1.69861e-13	fisher_strand_p_value=5.00651e-15	frequency=1.222100e-01	genotype_quality=836.5	ks_quality_p_value=1	log10_base_likelihood=-26.0878	log10_qual_likelihood_position_model=37.5218	log10_strand_likelihood_position_model=14.3902	new_cov=0/46	polymorphism_quality=20.9	quality=20.9	quality_position_model=Inf	ref_cov=143/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/159
RA	565	.	NC_007779	3677212	0	C	G	bias_e_value=6.37382	bias_p_value=1.3718e-06	fisher_strand_p_value=7.90517e-08	frequency=3.021431e-02	genotype_quality=739.2	ks_quality_p_value=1	log10_base_likelihood=-6.29985	log10_qual_likelihood_position_model=10.7874	log10_strand_likelihood_position_model=7.10209	new_cov=0/7	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=167/14	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=167/21
RA	566	.	NC_007779	3686205	0	A	.	bias_e_value=2935070	bias_p_value=0.631696	fisher_strand_p_value=0.70284	frequency=2.418613e-02	genotype_quality=997.1	ks_quality_p_value=0.39312	log10_base_likelihood=-18.5739	log10_qual_likelihood_position_model=2.4081	log10_strand_likelihood_position_model=0.528052	new_cov=3/3	polymorphism_quality=13.3	quality=13.3	quality_position_model=9.27762e-18	ref_cov=139/103	reject=INDEL_HOMOPOLYMER	tot_cov=142/106
RA	567	.	NC_007779	3688858	0	A	C	bias_e_value=4.45743e-22	bias_p_value=9.59344e-29	fisher_strand_p_value=1.37523e-30	frequency=2.264051e-01	genotype_quality=466.8	ks_quality_p_value=1	log10_base_likelihood=-49.9947	log10_qual_likelihood_position_model=41.0649	log10_strand_likelihood_position_model=29.8616	new_cov=0/51	polymorphism_quality=44.9	quality=44.9	quality_position_model=Inf	ref_cov=122/20	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=122/71
RA	568	.	NC_007779	3688858	1	.	C	bias_e_value=1444990	bias_p_value=0.310997	fisher_strand_p_value=0.135305	frequency=1.086807e-02	genotype_quality=875.4	ks_quality_p_value=0.678359	log10_base_likelihood=-7.092	log10_qual_likelihood_position_model=3.44809	log10_strand_likelihood_position_model=0.868685	new_cov=0/2	polymorphism_quality=1.6	quality=1.6	quality_position_model=0.000152148	ref_cov=116/66	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/68
RA	569	.	NC_007779	3689274	0	G	A	bias_e_value=1523300	bias_p_value=0.32785	fisher_strand_p_value=0.24667	frequency=2.395058e-02	genotype_quality=1191.8	ks_quality_p_value=0.40117	log10_base_likelihood=-14.7038	log10_qual_likelihood_position_model=3.97029	log10_strand_likelihood_position_model=0.970036	new_cov=2/5	polymorphism_quality=9.4	quality=9.4	quality_position_model=8.72275e-12	ref_cov=161/123	tot_cov=164/128
RA	570	.	NC_007779	3701118	0	G	T	bias_e_value=0.00108949	bias_p_value=2.34483e-10	fisher_strand_p_value=8.86553e-12	frequency=9.656334e-02	genotype_quality=869.9	ks_quality_p_value=1	log10_base_likelihood=-22.1911	log10_qual_likelihood_position_model=24.9084	log10_strand_likelihood_position_model=11.0523	new_cov=0/33	polymorphism_quality=16.9	quality=16.9	quality_position_model=Inf	ref_cov=140/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/140
RA	571	.	NC_007779	3723242	0	C	.	bias_e_value=1680190	bias_p_value=0.361616	fisher_strand_p_value=0.514427	frequency=7.189751e-03	genotype_quality=1167.7	ks_quality_p_value=0.221658	log10_base_likelihood=-5.56592	log10_qual_likelihood_position_model=1.43937	log10_strand_likelihood_position_model=0.459493	new_cov=0/2	polymorphism_quality=0.0	quality=0.0	quality_position_model=1.72259e-05	ref_cov=114/162	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/164
RA	572	.	NC_007779	3727557	0	A	G	bias_e_value=2.27653e-07	bias_p_value=4.89962e-14	fisher_strand_p_value=1.39161e-15	frequency=7.754517e-02	genotype_quality=698.7	ks_quality_p_value=1	log10_base_likelihood=-13.5552	log10_qual_likelihood_position_model=22.2301	log10_strand_likelihood_position_model=14.8565	new_cov=19/0	polymorphism_quality=8.2	quality=8.2	quality_position_model=Inf	ref_cov=23/164	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=42/164
RA	573	.	NC_007779	3728155	0	T	C	bias_e_value=0.26556	bias_p_value=5.71548e-08	fisher_strand_p_value=2.76003e-09	frequency=6.079817e-02	genotype_quality=456.9	ks_quality_p_value=1	log10_base_likelihood=-9.64259	log10_qual_likelihood_position_model=11.4243	log10_strand_likelihood_position_model=8.55909	new_cov=9/0	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=10/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=19/117
RA	574	.	NC_007779	3728157	0	A	C	bias_e_value=4.94981	bias_p_value=1.06532e-06	fisher_strand_p_value=6.0456e-08	frequency=4.963684e-02	genotype_quality=432.6	ks_quality_p_value=1	log10_base_likelihood=-7.72024	log10_qual_likelihood_position_model=10.3945	log10_strand_likelihood_position_model=7.21856	new_cov=8/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=12/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=20/115
RA	575	.	NC_007779	3731041	1	.	T	bias_e_value=944431	bias_p_value=0.203264	fisher_strand_p_value=1	frequency=7.633209e-03	genotype_quality=1295.6	ks_quality_p_value=0.0511652	log10_base_likelihood=-8.42118	log10_qual_likelihood_position_model=2.16842	log10_strand_likelihood_position_model=0.300611	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=7.14516e-08	ref_cov=137/123	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=138/124
RA	576	.	NC_007779	3732310	0	G	T	bias_e_value=0.00339263	bias_p_value=7.30174e-10	fisher_strand_p_value=2.8898e-11	frequency=9.881878e-02	genotype_quality=838.7	ks_quality_p_value=1	log10_base_likelihood=-22.194	log10_qual_likelihood_position_model=20.8573	log10_strand_likelihood_position_model=10.6621	new_cov=0/33	polymorphism_quality=16.9	quality=16.9	quality_position_model=Inf	ref_cov=133/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/137
RA	577	.	NC_007779	3734364	1	.	A	bias_e_value=2542430	bias_p_value=0.547191	fisher_strand_p_value=0.231229	frequency=6.644249e-03	genotype_quality=1505.3	ks_quality_p_value=0.934634	log10_base_likelihood=-8.17361	log10_qual_likelihood_position_model=1.1771	log10_strand_likelihood_position_model=0.635957	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=2.70439e-08	ref_cov=143/156	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=145/156
RA	578	.	NC_007779	3739544	0	G	T	bias_e_value=4.77511	bias_p_value=1.02772e-06	fisher_strand_p_value=5.81964e-08	frequency=3.522873e-02	genotype_quality=1122.2	ks_quality_p_value=1	log10_base_likelihood=-7.60398	log10_qual_likelihood_position_model=16.5592	log10_strand_likelihood_position_model=7.2351	new_cov=0/19	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=185/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=185/141
RA	579	.	NC_007779	3746911	0	G	A	deleted=1	frequency=1	genotype_quality=1.3	new_cov=0/1	quality=1.3	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	580	.	NC_007779	3750122	0	C	.	bias_e_value=202931	bias_p_value=0.0436756	fisher_strand_p_value=0.304541	frequency=9.716311e-01	genotype_quality=1376.9	ks_quality_p_value=0.0242782	log10_base_likelihood=-36.751	log10_qual_likelihood_position_model=7.28496	log10_strand_likelihood_position_model=0.797556	new_cov=124/150	polymorphism_quality=31.6	quality=31.6	quality_position_model=6.4223e-31	ref_cov=2/6	tot_cov=126/156
RA	581	.	NC_007779	3750123	0	C	T	bias_e_value=3369980	bias_p_value=0.725299	fisher_strand_p_value=0.464928	frequency=2.486897e-02	genotype_quality=1150.6	ks_quality_p_value=0.769076	log10_base_likelihood=-14.87	log10_qual_likelihood_position_model=5.50027	log10_strand_likelihood_position_model=0.665371	new_cov=2/5	polymorphism_quality=9.5	quality=9.5	quality_position_model=1.05596e-10	ref_cov=124/150	tot_cov=126/156
RA	582	.	NC_007779	3762475	0	T	G	bias_e_value=1.83024e-10	bias_p_value=3.9391e-17	fisher_strand_p_value=9.26344e-19	frequency=1.196294e-01	genotype_quality=810.3	ks_quality_p_value=1	log10_base_likelihood=-23.5352	log10_qual_likelihood_position_model=32.7529	log10_strand_likelihood_position_model=18.0332	new_cov=41/0	polymorphism_quality=18.3	quality=18.3	quality_position_model=Inf	ref_cov=73/163	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/163
RA	583	.	NC_007779	3763528	0	A	C	bias_e_value=2.98525	bias_p_value=6.42495e-07	fisher_strand_p_value=3.53856e-08	frequency=3.440571e-02	genotype_quality=573.0	ks_quality_p_value=1	log10_base_likelihood=-5.60093	log10_qual_likelihood_position_model=11.2086	log10_strand_likelihood_position_model=7.45117	new_cov=0/7	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=136/9	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=136/16
RA	584	.	NC_007779	3788380	0	G	T	bias_e_value=4.25965	bias_p_value=9.16778e-07	fisher_strand_p_value=5.15609e-08	frequency=6.250429e-02	genotype_quality=927.1	ks_quality_p_value=1	log10_base_likelihood=-11.6032	log10_qual_likelihood_position_model=17.5234	log10_strand_likelihood_position_model=7.30124	new_cov=0/25	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=134/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/152
RA	585	.	NC_007779	3789663	0	T	.	bias_e_value=3818550	bias_p_value=0.821841	fisher_strand_p_value=0.605008	frequency=1.110172e-02	genotype_quality=1080.6	ks_quality_p_value=0.770275	log10_base_likelihood=-7.94331	log10_qual_likelihood_position_model=1.59491	log10_strand_likelihood_position_model=0.448828	new_cov=1/2	polymorphism_quality=2.5	quality=2.5	quality_position_model=8.09822e-08	ref_cov=141/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/128
RA	586	.	NC_007779	3794523	0	T	G	bias_e_value=815602	bias_p_value=0.175537	fisher_strand_p_value=0.526034	frequency=7.880211e-03	genotype_quality=954.6	ks_quality_p_value=0.0800786	log10_base_likelihood=-5.74817	log10_qual_likelihood_position_model=2.14899	log10_strand_likelihood_position_model=0.41893	new_cov=0/2	polymorphism_quality=0.2	quality=0.2	quality_position_model=5.63479e-05	ref_cov=97/155	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=97/157
RA	587	.	NC_007779	3811807	0	G	T	bias_e_value=4600330	bias_p_value=0.9901	fisher_strand_p_value=1	frequency=1.052761e-02	genotype_quality=1230.2	ks_quality_p_value=0.862629	log10_base_likelihood=-5.61669	log10_qual_likelihood_position_model=3.4646	log10_strand_likelihood_position_model=0.40185	new_cov=2/1	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.0019696	ref_cov=148/133	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=150/135
RA	588	.	NC_007779	3812429	0	G	T	bias_e_value=92.0671	bias_p_value=1.9815e-05	fisher_strand_p_value=1.36623e-06	frequency=5.160666e-02	genotype_quality=933.6	ks_quality_p_value=1	log10_base_likelihood=-10.9549	log10_qual_likelihood_position_model=18.3212	log10_strand_likelihood_position_model=5.93602	new_cov=0/22	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=126/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/159
RA	589	.	NC_007779	3813810	0	T	G	bias_e_value=1.17656e-09	bias_p_value=2.53224e-16	fisher_strand_p_value=6.23451e-18	frequency=6.481600e-02	genotype_quality=679.6	ks_quality_p_value=1	log10_base_likelihood=-8.08559	log10_qual_likelihood_position_model=25.2106	log10_strand_likelihood_position_model=17.2052	new_cov=25/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=27/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=53/152
RA	590	.	NC_007779	3820146	0	T	G	bias_e_value=0.000350902	bias_p_value=7.55223e-11	fisher_strand_p_value=2.73381e-12	frequency=9.675407e-02	genotype_quality=737.6	ks_quality_p_value=1	log10_base_likelihood=-17.2461	log10_qual_likelihood_position_model=25.1273	log10_strand_likelihood_position_model=11.5632	new_cov=33/0	polymorphism_quality=11.9	quality=11.9	quality_position_model=Inf	ref_cov=90/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/132
RA	591	.	NC_007779	3828029	0	G	T	bias_e_value=6.11777e-06	bias_p_value=1.31669e-12	fisher_strand_p_value=4.20985e-14	frequency=1.139135e-01	genotype_quality=882.5	ks_quality_p_value=0.983043	log10_base_likelihood=-33.4247	log10_qual_likelihood_position_model=37.9868	log10_strand_likelihood_position_model=13.3757	new_cov=35/0	polymorphism_quality=28.3	quality=28.3	quality_position_model=Inf	ref_cov=89/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/150
RA	592	.	NC_007779	3845596	0	G	T	bias_e_value=0.237544	bias_p_value=5.11251e-08	fisher_strand_p_value=2.45497e-09	frequency=6.462002e-02	genotype_quality=967.8	ks_quality_p_value=1	log10_base_likelihood=-12.2429	log10_qual_likelihood_position_model=23.6896	log10_strand_likelihood_position_model=8.80381	new_cov=0/30	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=143/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=143/163
RA	593	.	NC_007779	3846240	0	G	C	bias_e_value=2.67644e-08	bias_p_value=5.76032e-15	fisher_strand_p_value=1.57131e-16	frequency=9.915400e-02	genotype_quality=621.9	ks_quality_p_value=0.97994	log10_base_likelihood=-23.9722	log10_qual_likelihood_position_model=16.9431	log10_strand_likelihood_position_model=15.8037	new_cov=0/20	polymorphism_quality=18.7	quality=18.7	quality_position_model=Inf	ref_cov=149/19	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=149/39
RA	594	.	NC_007779	3853538	0	G	T	bias_e_value=421.188	bias_p_value=9.06495e-05	fisher_strand_p_value=7.05144e-06	frequency=5.328178e-02	genotype_quality=847.3	ks_quality_p_value=0.999425	log10_base_likelihood=-12.037	log10_qual_likelihood_position_model=14.1089	log10_strand_likelihood_position_model=5.19602	new_cov=0/20	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=119/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/156
RA	595	.	NC_007779	3855255	0	C	A	bias_e_value=14.5319	bias_p_value=3.12761e-06	fisher_strand_p_value=1.93096e-07	frequency=3.973961e-02	genotype_quality=698.6	ks_quality_p_value=0.983003	log10_base_likelihood=-16.704	log10_qual_likelihood_position_model=9.26482	log10_strand_likelihood_position_model=6.71423	new_cov=0/7	polymorphism_quality=11.4	quality=11.4	quality_position_model=0.0304328	ref_cov=153/15	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=153/22
RA	596	.	NC_007779	3855276	1	.	T	bias_e_value=4206270	bias_p_value=0.905289	fisher_strand_p_value=1	frequency=6.328583e-03	genotype_quality=1581.2	ks_quality_p_value=0.597647	log10_base_likelihood=-8.01006	log10_qual_likelihood_position_model=1.33336	log10_strand_likelihood_position_model=0.301065	new_cov=1/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=2.60913e-08	ref_cov=166/148	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=167/149
RA	597	.	NC_007779	3859254	1	.	T	bias_e_value=359592	bias_p_value=0.0773926	fisher_strand_p_value=0.0196288	frequency=1.438808e-02	genotype_quality=1361.4	ks_quality_p_value=0.756878	log10_base_likelihood=-17.9695	log10_qual_likelihood_position_model=2.32395	log10_strand_likelihood_position_model=1.70711	new_cov=4/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=4.90942e-16	ref_cov=101/173	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=105/173
RA	598	.	NC_007779	3859254	2	.	T	bias_e_value=1225440	bias_p_value=0.263744	fisher_strand_p_value=0.141807	frequency=7.194519e-03	genotype_quality=1385.3	ks_quality_p_value=0.513926	log10_base_likelihood=-8.19879	log10_qual_likelihood_position_model=2.13989	log10_strand_likelihood_position_model=0.848302	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=4.19319e-07	ref_cov=103/173	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=105/173
RA	599	.	NC_007779	3859258	1	.	T	bias_e_value=87834.7	bias_p_value=0.0189041	fisher_strand_p_value=0.00274162	frequency=2.032375e-02	genotype_quality=1145.9	ks_quality_p_value=0.999326	log10_base_likelihood=-17.8529	log10_qual_likelihood_position_model=6.68164	log10_strand_likelihood_position_model=2.56199	new_cov=5/0	polymorphism_quality=12.5	quality=12.5	quality_position_model=1.32134e-10	ref_cov=72/169	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=77/169
RA	600	.	NC_007779	3859258	2	.	C	bias_e_value=82464.9	bias_p_value=0.0177484	fisher_strand_p_value=0.00274162	frequency=2.032471e-02	genotype_quality=1157.1	ks_quality_p_value=0.928314	log10_base_likelihood=-21.4155	log10_qual_likelihood_position_model=5.79931	log10_strand_likelihood_position_model=2.56199	new_cov=5/0	polymorphism_quality=16.1	quality=16.1	quality_position_model=3.8822e-15	ref_cov=72/169	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=77/169
RA	601	.	NC_007779	3859258	3	.	C	bias_e_value=529746	bias_p_value=0.114014	fisher_strand_p_value=0.0298452	frequency=1.219559e-02	genotype_quality=1173.0	ks_quality_p_value=0.808653	log10_base_likelihood=-14.0524	log10_qual_likelihood_position_model=4.19622	log10_strand_likelihood_position_model=1.52513	new_cov=3/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=2.547e-10	ref_cov=74/169	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=77/169
RA	602	.	NC_007779	3859263	0	T	C	bias_e_value=2.31181e-05	bias_p_value=4.97557e-12	fisher_strand_p_value=1.63442e-13	frequency=8.395004e-02	genotype_quality=737.6	ks_quality_p_value=1	log10_base_likelihood=-26.5044	log10_qual_likelihood_position_model=22.6311	log10_strand_likelihood_position_model=12.7911	new_cov=22/1	polymorphism_quality=21.3	quality=21.3	quality_position_model=Inf	ref_cov=42/177	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=64/178
RA	603	.	NC_007779	3859265	0	A	C	bias_e_value=1.67485	bias_p_value=3.60468e-07	fisher_strand_p_value=1.92065e-08	frequency=7.173729e-02	genotype_quality=673.1	ks_quality_p_value=1	log10_base_likelihood=-29.1208	log10_qual_likelihood_position_model=14.6994	log10_strand_likelihood_position_model=7.74554	new_cov=19/5	polymorphism_quality=23.9	quality=23.9	quality_position_model=1.27893e-08	ref_cov=46/174	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=65/179
RA	604	.	NC_007779	3859270	0	G	C	bias_e_value=0.182009	bias_p_value=3.91726e-08	fisher_strand_p_value=1.8561e-09	frequency=4.953098e-02	genotype_quality=880.3	ks_quality_p_value=1	log10_base_likelihood=-16.9025	log10_qual_likelihood_position_model=14.6502	log10_strand_likelihood_position_model=8.7314	new_cov=13/0	polymorphism_quality=11.6	quality=11.6	quality_position_model=Inf	ref_cov=40/173	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=53/174
RA	605	.	NC_007779	3859381	0	T	G	bias_e_value=402.297	bias_p_value=8.65838e-05	fisher_strand_p_value=6.70537e-06	frequency=4.230690e-02	genotype_quality=472.0	ks_quality_p_value=1	log10_base_likelihood=-6.22699	log10_qual_likelihood_position_model=11.7034	log10_strand_likelihood_position_model=5.18398	new_cov=2/7	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=124/12	reject=EVALUE,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=128/19
RA	606	.	NC_007779	3859383	0	A	G	bias_e_value=0.292511	bias_p_value=6.29553e-08	fisher_strand_p_value=3.05513e-09	frequency=4.495525e-02	genotype_quality=508.7	ks_quality_p_value=1	log10_base_likelihood=-6.3847	log10_qual_likelihood_position_model=10.8464	log10_strand_likelihood_position_model=8.51497	new_cov=0/8	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=130/8	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=130/16
RA	607	.	NC_007779	3873375	0	T	.	bias_e_value=4156670	bias_p_value=0.894613	fisher_strand_p_value=0.577622	frequency=1.142597e-02	genotype_quality=1067.5	ks_quality_p_value=0.999912	log10_base_likelihood=-7.36442	log10_qual_likelihood_position_model=4.02461	log10_strand_likelihood_position_model=0.502162	new_cov=2/1	polymorphism_quality=1.9	quality=1.9	quality_position_model=0.000130483	ref_cov=110/149	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/150
RA	608	.	NC_007779	3891907	0	T	.	bias_e_value=1410320	bias_p_value=0.303533	fisher_strand_p_value=0.370957	frequency=1.991272e-02	genotype_quality=1014.4	ks_quality_p_value=0.239064	log10_base_likelihood=-14.9357	log10_qual_likelihood_position_model=3.05059	log10_strand_likelihood_position_model=0.773658	new_cov=1/4	polymorphism_quality=9.6	quality=9.6	quality_position_model=3.67837e-13	ref_cov=121/125	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/129
RA	609	.	NC_007779	3895373	0	T	G	bias_e_value=0.000131621	bias_p_value=2.83279e-11	fisher_strand_p_value=9.8903e-13	frequency=9.725857e-02	genotype_quality=562.2	ks_quality_p_value=1	log10_base_likelihood=-15.9547	log10_qual_likelihood_position_model=25.3379	log10_strand_likelihood_position_model=12.0048	new_cov=27/0	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=55/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/122
RA	610	.	NC_007779	3898657	0	C	G	frequency=1	genotype_quality=1286.0	new_cov=144/153	quality=1286.0	ref_cov=0/0	tot_cov=144/153
RA	611	.	NC_007779	3898897	0	G	T	bias_e_value=813.546	bias_p_value=0.000175094	fisher_strand_p_value=1.44225e-05	frequency=3.686619e-02	genotype_quality=634.4	ks_quality_p_value=0.999428	log10_base_likelihood=-9.27484	log10_qual_likelihood_position_model=9.00398	log10_strand_likelihood_position_model=4.84096	new_cov=7/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=28/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=35/125
RA	612	.	NC_007779	3900676	1	.	G	bias_e_value=105326	bias_p_value=0.0226685	fisher_strand_p_value=0.00383673	frequency=2.316570e-02	genotype_quality=1273.2	ks_quality_p_value=0.88356	log10_base_likelihood=-26.7492	log10_qual_likelihood_position_model=2.98387	log10_strand_likelihood_position_model=2.41604	new_cov=6/0	polymorphism_quality=21.5	quality=21.5	quality_position_model=1.54815e-23	ref_cov=98/155	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/155
RA	613	.	NC_007779	3900680	0	T	G	bias_e_value=5.01117e-10	bias_p_value=1.07852e-16	fisher_strand_p_value=2.59939e-18	frequency=9.162283e-02	genotype_quality=684.2	ks_quality_p_value=1	log10_base_likelihood=-22.0254	log10_qual_likelihood_position_model=25.6129	log10_strand_likelihood_position_model=17.5851	new_cov=21/0	polymorphism_quality=16.8	quality=16.8	quality_position_model=Inf	ref_cov=17/160	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=38/160
RA	614	.	NC_007779	3910746	0	C	A	bias_e_value=944.593	bias_p_value=0.000203299	fisher_strand_p_value=1.69635e-05	frequency=4.704952e-02	genotype_quality=974.9	ks_quality_p_value=1	log10_base_likelihood=-9.77071	log10_qual_likelihood_position_model=19.0318	log10_strand_likelihood_position_model=5.07948	new_cov=20/0	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=152/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=174/129
RA	615	.	NC_007779	3912296	1	.	G	bias_e_value=2513800	bias_p_value=0.541029	fisher_strand_p_value=0.499188	frequency=8.771896e-03	genotype_quality=1101.8	ks_quality_p_value=0.424924	log10_base_likelihood=-8.21739	log10_qual_likelihood_position_model=2.68054	log10_strand_likelihood_position_model=0.559232	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=7.32397e-07	ref_cov=108/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/120
RA	616	.	NC_007779	3912297	0	G	.	bias_e_value=3170710	bias_p_value=0.682412	fisher_strand_p_value=0.380241	frequency=2.065563e-02	genotype_quality=999.0	ks_quality_p_value=0.83649	log10_base_likelihood=-15.6905	log10_qual_likelihood_position_model=1.90807	log10_strand_likelihood_position_model=0.698278	new_cov=1/4	polymorphism_quality=10.4	quality=10.4	quality_position_model=3.61949e-15	ref_cov=109/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=110/132
RA	617	.	NC_007779	3930443	0	T	G	bias_e_value=1.05173e-10	bias_p_value=2.26357e-17	fisher_strand_p_value=5.25308e-19	frequency=1.103210e-01	genotype_quality=510.1	ks_quality_p_value=1	log10_base_likelihood=-10.8824	log10_qual_likelihood_position_model=29.9166	log10_strand_likelihood_position_model=18.2796	new_cov=29/0	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=22/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=51/117
RA	618	.	NC_007779	3936942	0	A	C	bias_e_value=3.12534	bias_p_value=6.72646e-07	fisher_strand_p_value=3.71455e-08	frequency=4.257488e-02	genotype_quality=690.3	ks_quality_p_value=1	log10_base_likelihood=-5.74704	log10_qual_likelihood_position_model=17.5108	log10_strand_likelihood_position_model=7.44407	new_cov=0/25	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=108/97	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/124
RA	619	.	NC_007779	3952095	1	.	G	bias_e_value=20389.4	bias_p_value=0.00438827	fisher_strand_p_value=0.000664701	frequency=3.465366e-02	genotype_quality=960.8	ks_quality_p_value=0.769626	log10_base_likelihood=-32.2684	log10_qual_likelihood_position_model=3.16937	log10_strand_likelihood_position_model=3.17737	new_cov=7/0	polymorphism_quality=27.1	quality=27.1	quality_position_model=3.76745e-28	ref_cov=66/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=73/129
RA	620	.	NC_007779	3952099	0	T	G	bias_e_value=109.529	bias_p_value=2.35732e-05	fisher_strand_p_value=1.64654e-06	frequency=2.960205e-02	genotype_quality=559.0	ks_quality_p_value=1	log10_base_likelihood=-7.68393	log10_qual_likelihood_position_model=7.72791	log10_strand_likelihood_position_model=5.78343	new_cov=5/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=7/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=12/132
RA	621	.	NC_007779	3975445	1	.	A	bias_e_value=1150460	bias_p_value=0.247606	fisher_strand_p_value=1	frequency=7.220268e-03	genotype_quality=1379.8	ks_quality_p_value=0.0668154	log10_base_likelihood=-8.31045	log10_qual_likelihood_position_model=1.49422	log10_strand_likelihood_position_model=0.299737	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.86714e-08	ref_cov=141/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/135
RA	622	.	NC_007779	3977705	0	A	C	bias_e_value=0.000886691	bias_p_value=1.90837e-10	fisher_strand_p_value=7.1574e-12	frequency=5.036926e-02	genotype_quality=855.7	ks_quality_p_value=1	log10_base_likelihood=-6.35333	log10_qual_likelihood_position_model=24.6662	log10_strand_likelihood_position_model=11.2178	new_cov=0/35	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=138/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=138/144
RA	623	.	NC_007779	3985138	0	T	G	bias_e_value=1.32069e-05	bias_p_value=2.84243e-12	fisher_strand_p_value=9.16293e-14	frequency=5.834341e-02	genotype_quality=860.6	ks_quality_p_value=1	log10_base_likelihood=-8.9614	log10_qual_likelihood_position_model=30.0709	log10_strand_likelihood_position_model=13.038	new_cov=37/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=100/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/148
RA	624	.	NC_007779	4000222	0	C	G	bias_e_value=13677.3	bias_p_value=0.00294368	fisher_strand_p_value=0.000339642	frequency=2.766800e-02	genotype_quality=948.3	ks_quality_p_value=0.959963	log10_base_likelihood=-7.38058	log10_qual_likelihood_position_model=12.7616	log10_strand_likelihood_position_model=3.46898	new_cov=0/11	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=144/129	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=144/140
RA	625	.	NC_007779	4010407	0	C	A	bias_e_value=12.883	bias_p_value=2.77272e-06	fisher_strand_p_value=1.75579e-07	frequency=5.738258e-02	genotype_quality=660.9	ks_quality_p_value=0.951005	log10_base_likelihood=-9.20949	log10_qual_likelihood_position_model=18.9625	log10_strand_likelihood_position_model=6.75553	new_cov=0/14	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=127/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/69
RA	626	.	NC_007779	4012194	1	.	T	bias_e_value=3936980	bias_p_value=0.847331	fisher_strand_p_value=0.501865	frequency=9.755135e-03	genotype_quality=1017.0	ks_quality_p_value=0.998463	log10_base_likelihood=-6.916	log10_qual_likelihood_position_model=4.32035	log10_strand_likelihood_position_model=0.526843	new_cov=2/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=0.00088012	ref_cov=110/93	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=112/93
RA	627	.	NC_007779	4023068	0	T	G	bias_e_value=46.0346	bias_p_value=9.90772e-06	fisher_strand_p_value=6.49834e-07	frequency=4.833698e-02	genotype_quality=477.1	ks_quality_p_value=1	log10_base_likelihood=-9.31392	log10_qual_likelihood_position_model=10.6895	log10_strand_likelihood_position_model=6.1872	new_cov=9/0	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=21/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=30/100
RA	628	.	NC_007779	4029622	1	.	G	bias_e_value=2003130	bias_p_value=0.431121	fisher_strand_p_value=0.212857	frequency=8.810043e-03	genotype_quality=1132.4	ks_quality_p_value=0.696189	log10_base_likelihood=-8.0992	log10_qual_likelihood_position_model=0.79685	log10_strand_likelihood_position_model=0.671912	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.42456e-08	ref_cov=103/122	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=105/122
RA	629	.	NC_007779	4029633	0	T	G	bias_e_value=6.58179e-05	bias_p_value=1.41656e-11	fisher_strand_p_value=4.82481e-13	frequency=7.474279e-02	genotype_quality=581.0	ks_quality_p_value=1	log10_base_likelihood=-9.91596	log10_qual_likelihood_position_model=21.2316	log10_strand_likelihood_position_model=12.3165	new_cov=17/0	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=21/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=38/127
RA	630	.	NC_007779	4031691	1	.	T	bias_e_value=1002020	bias_p_value=0.215659	fisher_strand_p_value=0.0606936	frequency=1.156044e-02	genotype_quality=849.7	ks_quality_p_value=0.912649	log10_base_likelihood=-8.38315	log10_qual_likelihood_position_model=1.54212	log10_strand_likelihood_position_model=1.21686	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.56135e-07	ref_cov=41/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=43/130
RA	631	.	NC_007779	4035478	0	A	C	bias_e_value=0.624885	bias_p_value=1.3449e-07	fisher_strand_p_value=6.78973e-09	frequency=5.008078e-02	genotype_quality=546.4	ks_quality_p_value=1	log10_base_likelihood=-10.2387	log10_qual_likelihood_position_model=11.5304	log10_strand_likelihood_position_model=8.16815	new_cov=0/9	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=126/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/22
RA	632	.	NC_007779	4036507	0	G	T	bias_e_value=4015.24	bias_p_value=0.000864174	fisher_strand_p_value=8.91375e-05	frequency=3.061295e-02	genotype_quality=1006.5	ks_quality_p_value=0.932638	log10_base_likelihood=-6.65924	log10_qual_likelihood_position_model=19.2502	log10_strand_likelihood_position_model=4.31677	new_cov=0/16	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=139/153	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/169
RA	633	.	NC_007779	4043703	0	C	A	bias_e_value=0.118599	bias_p_value=2.55253e-08	fisher_strand_p_value=1.18424e-09	frequency=8.706570e-02	genotype_quality=821.4	ks_quality_p_value=1	log10_base_likelihood=-15.2258	log10_qual_likelihood_position_model=20.1298	log10_strand_likelihood_position_model=8.98299	new_cov=31/0	polymorphism_quality=9.9	quality=9.9	quality_position_model=Inf	ref_cov=112/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/121
RA	634	.	NC_007779	4046441	0	C	.	bias_e_value=3749350	bias_p_value=0.806948	fisher_strand_p_value=0.500768	frequency=7.138252e-03	genotype_quality=1200.2	ks_quality_p_value=0.892691	log10_base_likelihood=-5.59026	log10_qual_likelihood_position_model=1.14613	log10_strand_likelihood_position_model=0.543485	new_cov=2/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=9.78145e-06	ref_cov=148/130	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=150/130
RA	635	.	NC_007779	4052978	0	G	T	bias_e_value=9.5583	bias_p_value=2.05717e-06	fisher_strand_p_value=1.21562e-07	frequency=4.293442e-02	genotype_quality=833.4	ks_quality_p_value=1	log10_base_likelihood=-7.09392	log10_qual_likelihood_position_model=14.6617	log10_strand_likelihood_position_model=6.9152	new_cov=0/17	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=144/84	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/102
RA	636	.	NC_007779	4055100	0	G	T	bias_e_value=0.000170786	bias_p_value=3.67572e-11	fisher_strand_p_value=1.30049e-12	frequency=9.669971e-02	genotype_quality=821.8	ks_quality_p_value=0.996199	log10_base_likelihood=-40.7557	log10_qual_likelihood_position_model=27.1593	log10_strand_likelihood_position_model=11.8914	new_cov=24/1	polymorphism_quality=35.6	quality=35.6	quality_position_model=0.00221075	ref_cov=53/164	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=77/165
RA	637	.	NC_007779	4055329	0	T	G	bias_e_value=1.43742e-16	bias_p_value=3.09366e-23	fisher_strand_p_value=5.4398e-25	frequency=9.942293e-02	genotype_quality=728.7	ks_quality_p_value=1	log10_base_likelihood=-23.727	log10_qual_likelihood_position_model=31.4705	log10_strand_likelihood_position_model=24.2644	new_cov=29/0	polymorphism_quality=18.5	quality=18.5	quality_position_model=Inf	ref_cov=17/180	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=46/180
RA	638	.	NC_007779	4059484	1	.	T	bias_e_value=1882600	bias_p_value=0.40518	fisher_strand_p_value=0.207191	frequency=7.017136e-03	genotype_quality=1409.4	ks_quality_p_value=0.6512	log10_base_likelihood=-8.21543	log10_qual_likelihood_position_model=1.50504	log10_strand_likelihood_position_model=0.68363	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=5.98222e-08	ref_cov=155/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=155/130
RA	639	.	NC_007779	4059485	0	T	.	bias_e_value=2691890	bias_p_value=0.579357	fisher_strand_p_value=0.259304	frequency=2.364063e-02	genotype_quality=1201.0	ks_quality_p_value=0.917066	log10_base_likelihood=-21.2228	log10_qual_likelihood_position_model=3.77994	log10_strand_likelihood_position_model=0.873272	new_cov=2/5	polymorphism_quality=15.9	quality=15.9	quality_position_model=1.05523e-18	ref_cov=155/134	reject=INDEL_HOMOPOLYMER	tot_cov=157/139
RA	640	.	NC_007779	4062114	0	T	G	bias_e_value=1.03787e-17	bias_p_value=2.23375e-24	fisher_strand_p_value=3.75135e-26	frequency=1.292653e-01	genotype_quality=602.8	ks_quality_p_value=1	log10_base_likelihood=-19.817	log10_qual_likelihood_position_model=36.7684	log10_strand_likelihood_position_model=25.4258	new_cov=42/0	polymorphism_quality=14.5	quality=14.5	quality_position_model=Inf	ref_cov=27/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=69/141
RA	641	.	NC_007779	4064463	0	G	T	bias_e_value=1.96766	bias_p_value=4.23487e-07	fisher_strand_p_value=2.27708e-08	frequency=8.945847e-02	genotype_quality=723.8	ks_quality_p_value=1	log10_base_likelihood=-13.3129	log10_qual_likelihood_position_model=20.7242	log10_strand_likelihood_position_model=7.69118	new_cov=0/29	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=104/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/138
RA	642	.	NC_007779	4065564	0	C	G	bias_e_value=10.0852	bias_p_value=2.17058e-06	fisher_strand_p_value=1.28809e-07	frequency=6.914616e-02	genotype_quality=722.4	ks_quality_p_value=0.999127	log10_base_likelihood=-11.0729	log10_qual_likelihood_position_model=14.0124	log10_strand_likelihood_position_model=6.89005	new_cov=17/0	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=69/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=86/120
RA	643	.	NC_007779	4074542	0	C	A	bias_e_value=69.5424	bias_p_value=1.49672e-05	fisher_strand_p_value=1.0178e-06	frequency=6.125307e-02	genotype_quality=713.3	ks_quality_p_value=0.993297	log10_base_likelihood=-12.8748	log10_qual_likelihood_position_model=18.0443	log10_strand_likelihood_position_model=6.00393	new_cov=1/14	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=137/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/70
RA	644	.	NC_007779	4076934	0	A	C	bias_e_value=1.95506e-13	bias_p_value=4.20774e-20	fisher_strand_p_value=8.49756e-22	frequency=1.521120e-01	genotype_quality=675.6	ks_quality_p_value=1	log10_base_likelihood=-21.9289	log10_qual_likelihood_position_model=34.6348	log10_strand_likelihood_position_model=21.0707	new_cov=0/50	polymorphism_quality=16.7	quality=16.7	quality_position_model=Inf	ref_cov=144/64	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=144/114
RA	645	.	NC_007779	4078140	0	C	G	bias_e_value=0.00183672	bias_p_value=3.95304e-10	fisher_strand_p_value=1.52593e-11	frequency=6.663275e-02	genotype_quality=755.2	ks_quality_p_value=1	log10_base_likelihood=-10.9487	log10_qual_likelihood_position_model=18.851	log10_strand_likelihood_position_model=10.8165	new_cov=17/0	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=37/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=54/152
RA	646	.	NC_007779	4079847	0	T	A	bias_e_value=3113190	bias_p_value=0.670031	fisher_strand_p_value=1	frequency=9.511948e-03	genotype_quality=1276.5	ks_quality_p_value=0.307418	log10_base_likelihood=-7.37613	log10_qual_likelihood_position_model=1.4848	log10_strand_likelihood_position_model=0.370567	new_cov=2/1	polymorphism_quality=1.9	quality=1.9	quality_position_model=1.99837e-07	ref_cov=181/131	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=183/132
RA	647	.	NC_007779	4084209	0	A	G	bias_e_value=0.0143115	bias_p_value=3.08018e-09	fisher_strand_p_value=1.29601e-10	frequency=5.510807e-02	genotype_quality=801.2	ks_quality_p_value=1	log10_base_likelihood=-6.5552	log10_qual_likelihood_position_model=17.0991	log10_strand_likelihood_position_model=9.88739	new_cov=23/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=80/155	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/155
RA	648	.	NC_007779	4090749	0	A	T	frequency=1	genotype_quality=1163.0	new_cov=130/151	quality=1163.0	ref_cov=0/0	tot_cov=130/151
RA	649	.	NC_007779	4098730	0	G	T	bias_e_value=0.862573	bias_p_value=1.85646e-07	fisher_strand_p_value=9.53585e-09	frequency=4.516792e-02	genotype_quality=921.6	ks_quality_p_value=1	log10_base_likelihood=-5.91411	log10_qual_likelihood_position_model=19.8061	log10_strand_likelihood_position_model=8.02064	new_cov=0/23	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=150/110	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=150/134
RA	650	.	NC_007779	4115396	0	G	T	bias_e_value=4305.37	bias_p_value=0.000926618	fisher_strand_p_value=8.98073e-05	frequency=2.858734e-02	genotype_quality=623.5	ks_quality_p_value=1	log10_base_likelihood=-6.70951	log10_qual_likelihood_position_model=8.16997	log10_strand_likelihood_position_model=4.04669	new_cov=0/5	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=125/20	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/25
RA	651	.	NC_007779	4115400	0	T	C	bias_e_value=0.0424491	bias_p_value=9.13604e-09	fisher_strand_p_value=4.03708e-10	frequency=7.535124e-02	genotype_quality=623.5	ks_quality_p_value=1	log10_base_likelihood=-11.7217	log10_qual_likelihood_position_model=17.4302	log10_strand_likelihood_position_model=9.39393	new_cov=0/18	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=126/45	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/64
RA	652	.	NC_007779	4115400	1	.	C	bias_e_value=44096.5	bias_p_value=0.0094906	fisher_strand_p_value=0.00141566	frequency=3.332710e-02	genotype_quality=828.7	ks_quality_p_value=0.870825	log10_base_likelihood=-20.558	log10_qual_likelihood_position_model=7.31552	log10_strand_likelihood_position_model=2.84904	new_cov=0/6	polymorphism_quality=15.3	quality=15.3	quality_position_model=1.98445e-12	ref_cov=118/56	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=118/62
RA	653	.	NC_007779	4128670	0	T	.	bias_e_value=3941860	bias_p_value=0.848382	fisher_strand_p_value=1	frequency=1.491833e-02	genotype_quality=1066.6	ks_quality_p_value=0.502618	log10_base_likelihood=-11.5015	log10_qual_likelihood_position_model=2.70218	log10_strand_likelihood_position_model=0.425101	new_cov=2/2	polymorphism_quality=6.1	quality=6.1	quality_position_model=2.30036e-10	ref_cov=125/139	reject=INDEL_HOMOPOLYMER	tot_cov=127/141
RA	654	.	NC_007779	4135339	0	T	C	bias_e_value=4.35877	bias_p_value=9.3811e-07	fisher_strand_p_value=5.2833e-08	frequency=4.969597e-02	genotype_quality=809.5	ks_quality_p_value=1	log10_base_likelihood=-7.28609	log10_qual_likelihood_position_model=16.3618	log10_strand_likelihood_position_model=7.27709	new_cov=0/18	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=148/87	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/105
RA	655	.	NC_007779	4135555	0	A	G	bias_e_value=4.49452	bias_p_value=9.67326e-07	fisher_strand_p_value=5.47357e-08	frequency=4.449272e-02	genotype_quality=476.7	ks_quality_p_value=0.997125	log10_base_likelihood=-8.02007	log10_qual_likelihood_position_model=8.08261	log10_strand_likelihood_position_model=7.26173	new_cov=0/7	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=127/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/16
RA	656	.	NC_007779	4135559	1	.	A	bias_e_value=120232	bias_p_value=0.0258768	fisher_strand_p_value=0.00404348	frequency=2.157784e-02	genotype_quality=640.4	ks_quality_p_value=0.979892	log10_base_likelihood=-9.45837	log10_qual_likelihood_position_model=4.56228	log10_strand_likelihood_position_model=2.39324	new_cov=0/3	polymorphism_quality=4.0	quality=4.0	quality_position_model=0.000298153	ref_cov=116/20	reject=POLYMORPHISM_STRAND	tot_cov=116/23
RA	657	.	NC_007779	4147012	0	A	C	bias_e_value=0.0074764	bias_p_value=1.6091e-09	fisher_strand_p_value=6.58279e-11	frequency=7.001305e-02	genotype_quality=849.8	ks_quality_p_value=1	log10_base_likelihood=-11.2914	log10_qual_likelihood_position_model=29.2495	log10_strand_likelihood_position_model=10.1816	new_cov=0/26	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=148/88	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/114
RA	658	.	NC_007779	4148399	0	A	C	bias_e_value=1.90601e-17	bias_p_value=4.10218e-24	fisher_strand_p_value=6.96149e-26	frequency=1.810741e-01	genotype_quality=582.0	ks_quality_p_value=1	log10_base_likelihood=-32.1794	log10_qual_likelihood_position_model=41.6175	log10_strand_likelihood_position_model=25.1573	new_cov=0/54	polymorphism_quality=27.0	quality=27.0	quality_position_model=Inf	ref_cov=127/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/96
RA	659	.	NC_007779	4148399	1	.	C	bias_e_value=1291020	bias_p_value=0.277859	fisher_strand_p_value=0.0783441	frequency=1.387501e-02	genotype_quality=1005.7	ks_quality_p_value=1	log10_base_likelihood=-8.16652	log10_qual_likelihood_position_model=3.63482	log10_strand_likelihood_position_model=1.10599	new_cov=0/3	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.09678e-05	ref_cov=123/90	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/93
RA	660	.	NC_007779	4148715	0	G	T	bias_e_value=938041	bias_p_value=0.201888	fisher_strand_p_value=0.0513425	frequency=4.387856e-02	genotype_quality=473.2	ks_quality_p_value=0.987549	log10_base_likelihood=-5.77453	log10_qual_likelihood_position_model=7.31094	log10_strand_likelihood_position_model=1.48892	new_cov=8/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=89/50	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=97/50
RA	661	.	NC_007779	4157323	0	C	A	bias_e_value=736.559	bias_p_value=0.000158525	fisher_strand_p_value=1.50876e-05	frequency=4.662371e-02	genotype_quality=801.2	ks_quality_p_value=0.857323	log10_base_likelihood=-5.59259	log10_qual_likelihood_position_model=23.5362	log10_strand_likelihood_position_model=5.06087	new_cov=20/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=125/107	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/107
RA	662	.	NC_007779	4159514	0	T	G	bias_e_value=3.34817e-11	bias_p_value=7.20605e-18	fisher_strand_p_value=1.62805e-19	frequency=1.003962e-01	genotype_quality=682.0	ks_quality_p_value=1	log10_base_likelihood=-12.5747	log10_qual_likelihood_position_model=33.9417	log10_strand_likelihood_position_model=18.7883	new_cov=43/0	polymorphism_quality=7.2	quality=7.2	quality_position_model=Inf	ref_cov=60/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/140
RA	663	.	NC_007779	4165991	0	A	C	frequency=1	genotype_quality=1229.4	new_cov=145/138	quality=1229.4	ref_cov=0/0	tot_cov=145/138
RA	664	.	NC_007779	4174730	0	T	.	bias_e_value=3330710	bias_p_value=0.716847	fisher_strand_p_value=0.622355	frequency=1.632023e-02	genotype_quality=987.3	ks_quality_p_value=0.561476	log10_base_likelihood=-11.7538	log10_qual_likelihood_position_model=2.46338	log10_strand_likelihood_position_model=0.580985	new_cov=3/1	polymorphism_quality=6.4	quality=6.4	quality_position_model=1.04338e-10	ref_cov=122/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/120
RA	665	.	NC_007779	4194164	0	T	G	bias_e_value=796.614	bias_p_value=0.00017145	fisher_strand_p_value=1.41213e-05	frequency=3.760147e-02	genotype_quality=502.1	ks_quality_p_value=0.997617	log10_base_likelihood=-9.88795	log10_qual_likelihood_position_model=5.63307	log10_strand_likelihood_position_model=4.85012	new_cov=5/0	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=11/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=16/116
RA	666	.	NC_007779	4197139	0	T	G	bias_e_value=2.36769e-05	bias_p_value=5.09583e-12	fisher_strand_p_value=1.67529e-13	frequency=7.824945e-02	genotype_quality=625.6	ks_quality_p_value=1	log10_base_likelihood=-21.2225	log10_qual_likelihood_position_model=17.7441	log10_strand_likelihood_position_model=12.7759	new_cov=16/0	polymorphism_quality=15.9	quality=15.9	quality_position_model=Inf	ref_cov=19/143	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=35/143
RA	667	.	NC_007779	4200679	0	C	G	bias_e_value=4539.77	bias_p_value=0.000977065	fisher_strand_p_value=9.57804e-05	frequency=2.670670e-02	genotype_quality=727.6	ks_quality_p_value=0.994343	log10_base_likelihood=-6.17256	log10_qual_likelihood_position_model=8.8812	log10_strand_likelihood_position_model=4.01872	new_cov=0/6	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=145/36	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=145/42
RA	668	.	NC_007779	4207565	0	C	A	bias_e_value=1042.73	bias_p_value=0.000224421	fisher_strand_p_value=1.88961e-05	frequency=4.156780e-02	genotype_quality=875.5	ks_quality_p_value=1	log10_base_likelihood=-9.10781	log10_qual_likelihood_position_model=14.8425	log10_strand_likelihood_position_model=4.99772	new_cov=16/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=117/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/132
RA	669	.	NC_007779	4213848	0	A	G	frequency=1	genotype_quality=-0.2	new_cov=1/0	quality=-0.2	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	670	.	NC_007779	4220019	0	A	C	bias_e_value=2.32562e-12	bias_p_value=5.00528e-19	fisher_strand_p_value=1.06521e-20	frequency=1.399131e-01	genotype_quality=674.2	ks_quality_p_value=1	log10_base_likelihood=-19.8816	log10_qual_likelihood_position_model=48.2006	log10_strand_likelihood_position_model=19.9726	new_cov=0/53	polymorphism_quality=14.6	quality=14.6	quality_position_model=Inf	ref_cov=133/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/124
RA	671	.	NC_007779	4226513	0	C	A	bias_e_value=9.65849	bias_p_value=2.07873e-06	fisher_strand_p_value=1.22917e-07	frequency=6.474543e-02	genotype_quality=909.8	ks_quality_p_value=1	log10_base_likelihood=-12.2917	log10_qual_likelihood_position_model=18.8704	log10_strand_likelihood_position_model=6.92304	new_cov=22/1	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=102/149	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/150
RA	672	.	NC_007779	4227183	0	T	G	bias_e_value=1.08569e-15	bias_p_value=2.33666e-22	fisher_strand_p_value=4.26303e-24	frequency=1.309419e-01	genotype_quality=729.2	ks_quality_p_value=1	log10_base_likelihood=-17.8062	log10_qual_likelihood_position_model=43.9959	log10_strand_likelihood_position_model=23.3731	new_cov=54/1	polymorphism_quality=12.5	quality=12.5	quality_position_model=Inf	ref_cov=55/152	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/153
RA	673	.	NC_007779	4244592	0	G	C	bias_e_value=1.49218	bias_p_value=3.21153e-07	fisher_strand_p_value=1.70553e-08	frequency=4.636383e-02	genotype_quality=506.3	ks_quality_p_value=0.99683	log10_base_likelihood=-9.18095	log10_qual_likelihood_position_model=6.96003	log10_strand_likelihood_position_model=7.76814	new_cov=0/6	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=117/3	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/9
RA	674	.	NC_007779	4304641	0	T	G	bias_e_value=0.0126316	bias_p_value=2.71863e-09	fisher_strand_p_value=1.13765e-10	frequency=5.101824e-02	genotype_quality=617.9	ks_quality_p_value=1	log10_base_likelihood=-7.16289	log10_qual_likelihood_position_model=17.3793	log10_strand_likelihood_position_model=9.94399	new_cov=19/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=43/123	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=63/123
RA	675	.	NC_007779	4309615	0	C	G	bias_e_value=1.5476	bias_p_value=3.33079e-07	fisher_strand_p_value=1.76686e-08	frequency=5.612564e-02	genotype_quality=703.3	ks_quality_p_value=1	log10_base_likelihood=-7.71554	log10_qual_likelihood_position_model=14.0211	log10_strand_likelihood_position_model=7.7528	new_cov=13/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=40/138	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=53/138
RA	676	.	NC_007779	4310442	0	A	C	deleted=1	frequency=1	genotype_quality=0.9	new_cov=0/1	quality=0.9	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	677	.	NC_007779	4312218	0	T	G	bias_e_value=8.67722e-05	bias_p_value=1.86754e-11	fisher_strand_p_value=6.42349e-13	frequency=5.622625e-02	genotype_quality=844.7	ks_quality_p_value=1	log10_base_likelihood=-6.43829	log10_qual_likelihood_position_model=29.8754	log10_strand_likelihood_position_model=12.1922	new_cov=29/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=78/151	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/151
RA	678	.	NC_007779	4318999	1	.	C	bias_e_value=178418	bias_p_value=0.0383998	fisher_strand_p_value=0.00633484	frequency=1.175976e-02	genotype_quality=831.9	ks_quality_p_value=1	log10_base_likelihood=-5.87418	log10_qual_likelihood_position_model=3.25422	log10_strand_likelihood_position_model=2.19826	new_cov=0/2	polymorphism_quality=0.3	quality=0.3	quality_position_model=0.0775089	ref_cov=156/12	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=156/14
RA	679	.	NC_007779	4321435	0	G	C	bias_e_value=19.6256	bias_p_value=4.2239e-06	fisher_strand_p_value=2.6195e-07	frequency=3.441048e-02	genotype_quality=587.0	ks_quality_p_value=0.998004	log10_base_likelihood=-10.4984	log10_qual_likelihood_position_model=5.67869	log10_strand_likelihood_position_model=6.58178	new_cov=5/0	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=4/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=9/136
RA	680	.	NC_007779	4337469	0	A	C	bias_e_value=3.56615e-14	bias_p_value=7.6752e-21	fisher_strand_p_value=1.49751e-22	frequency=1.691022e-01	genotype_quality=569.6	ks_quality_p_value=1	log10_base_likelihood=-31.046	log10_qual_likelihood_position_model=40.7992	log10_strand_likelihood_position_model=21.8246	new_cov=0/44	polymorphism_quality=25.9	quality=25.9	quality_position_model=Inf	ref_cov=123/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/81
RA	681	.	NC_007779	4346532	0	G	T	bias_e_value=354.795	bias_p_value=7.63603e-05	fisher_strand_p_value=5.85193e-06	frequency=4.892254e-02	genotype_quality=747.8	ks_quality_p_value=1	log10_base_likelihood=-6.95995	log10_qual_likelihood_position_model=17.16	log10_strand_likelihood_position_model=5.2327	new_cov=0/15	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=112/83	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/98
RA	682	.	NC_007779	4348529	0	T	G	bias_e_value=3.29256e-12	bias_p_value=7.08636e-19	fisher_strand_p_value=1.51959e-20	frequency=8.115005e-02	genotype_quality=721.8	ks_quality_p_value=1	log10_base_likelihood=-7.52016	log10_qual_likelihood_position_model=35.6638	log10_strand_likelihood_position_model=19.8183	new_cov=33/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=36/155	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=69/155
RA	683	.	NC_007779	4361119	0	T	G	bias_e_value=3308900	bias_p_value=0.712154	fisher_strand_p_value=0.345001	frequency=2.294445e-02	genotype_quality=901.4	ks_quality_p_value=1	log10_base_likelihood=-5.93259	log10_qual_likelihood_position_model=10.6902	log10_strand_likelihood_position_model=0.831816	new_cov=3/7	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=131/145	reject=EVALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/152
RA	684	.	NC_007779	4363312	0	A	.	bias_e_value=1133060	bias_p_value=0.243862	fisher_strand_p_value=1	frequency=1.934814e-02	genotype_quality=1253.4	ks_quality_p_value=0.0654369	log10_base_likelihood=-18.2495	log10_qual_likelihood_position_model=3.29298	log10_strand_likelihood_position_model=0.505371	new_cov=3/3	polymorphism_quality=12.9	quality=12.9	quality_position_model=1.4815e-16	ref_cov=161/143	reject=INDEL_HOMOPOLYMER	tot_cov=164/146
RA	685	.	NC_007779	4371271	0	A	.	frequency=1	genotype_quality=1009.9	new_cov=106/92	quality=1009.9	ref_cov=0/0	tot_cov=106/92
RA	686	.	NC_007779	4371272	0	A	.	frequency=1	genotype_quality=1009.9	new_cov=106/92	quality=1009.9	ref_cov=0/0	tot_cov=106/92
RA	687	.	NC_007779	4371467	0	G	.	bias_e_value=2152030	bias_p_value=0.463167	fisher_strand_p_value=0.410339	frequency=1.922607e-02	genotype_quality=1351.8	ks_quality_p_value=0.403282	log10_base_likelihood=-19.291	log10_qual_likelihood_position_model=2.19101	log10_strand_likelihood_position_model=0.756548	new_cov=4/2	polymorphism_quality=14.0	quality=14.0	quality_position_model=1.78814e-18	ref_cov=133/173	tot_cov=137/175
RA	688	.	NC_007779	4414724	1	.	T	bias_e_value=4646320	bias_p_value=0.999998	fisher_strand_p_value=1	frequency=1.838207e-02	genotype_quality=1323.2	ks_quality_p_value=0.997799	log10_base_likelihood=-21.5315	log10_qual_likelihood_position_model=4.83217	log10_strand_likelihood_position_model=0.472955	new_cov=1/4	polymorphism_quality=16.3	quality=16.3	quality_position_model=2.34959e-18	ref_cov=88/179	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=89/183
RA	689	.	NC_007779	4414725	0	T	.	bias_e_value=2415090	bias_p_value=0.519783	fisher_strand_p_value=0.553368	frequency=1.090050e-02	genotype_quality=1103.1	ks_quality_p_value=0.359065	log10_base_likelihood=-8.05516	log10_qual_likelihood_position_model=2.10421	log10_strand_likelihood_position_model=0.511743	new_cov=0/3	polymorphism_quality=2.6	quality=2.6	quality_position_model=2.42803e-07	ref_cov=89/183	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=89/186
RA	690	.	NC_007779	4419586	0	T	G	bias_e_value=2.50369e-19	bias_p_value=5.38853e-26	fisher_strand_p_value=8.50847e-28	frequency=2.069216e-01	genotype_quality=713.9	ks_quality_p_value=1	log10_base_likelihood=-53.8098	log10_qual_likelihood_position_model=49.31	log10_strand_likelihood_position_model=27.0701	new_cov=67/0	polymorphism_quality=48.7	quality=48.7	quality_position_model=Inf	ref_cov=67/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/151
RA	691	.	NC_007779	4423038	0	C	G	bias_e_value=0.0519232	bias_p_value=1.11751e-08	fisher_strand_p_value=4.98454e-10	frequency=6.023598e-02	genotype_quality=685.5	ks_quality_p_value=1	log10_base_likelihood=-10.6426	log10_qual_likelihood_position_model=14.0892	log10_strand_likelihood_position_model=9.30237	new_cov=14/0	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=32/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=46/142
RA	692	.	NC_007779	4429120	0	G	T	bias_e_value=3.27317	bias_p_value=7.04463e-07	fisher_strand_p_value=6.43763e-08	frequency=4.857397e-02	genotype_quality=900.4	ks_quality_p_value=0.605936	log10_base_likelihood=-7.27291	log10_qual_likelihood_position_model=25.3106	log10_strand_likelihood_position_model=7.19127	new_cov=0/22	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=144/117	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/139
RA	693	.	NC_007779	4455463	0	T	G	bias_e_value=4.84453e-13	bias_p_value=1.04266e-19	fisher_strand_p_value=2.15102e-21	frequency=1.524525e-01	genotype_quality=519.0	ks_quality_p_value=0.997569	log10_base_likelihood=-28.4636	log10_qual_likelihood_position_model=27.605	log10_strand_likelihood_position_model=20.6674	new_cov=35/0	polymorphism_quality=23.3	quality=23.3	quality_position_model=Inf	ref_cov=27/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=63/126
RA	694	.	NC_007779	4477098	1	.	A	bias_e_value=4605560	bias_p_value=0.991225	fisher_strand_p_value=1	frequency=1.413441e-02	genotype_quality=1378.5	ks_quality_p_value=0.870482	log10_base_likelihood=-16.9268	log10_qual_likelihood_position_model=4.00911	log10_strand_likelihood_position_model=0.43486	new_cov=2/2	polymorphism_quality=11.6	quality=11.6	quality_position_model=1.47864e-14	ref_cov=156/123	reject=INDEL_HOMOPOLYMER	tot_cov=158/125
RA	695	.	NC_007779	4486358	0	G	T	bias_e_value=849.416	bias_p_value=0.000182814	fisher_strand_p_value=1.53565e-05	frequency=4.879618e-02	genotype_quality=689.9	ks_quality_p_value=0.98384	log10_base_likelihood=-8.83572	log10_qual_likelihood_position_model=16.4767	log10_strand_likelihood_position_model=4.81371	new_cov=12/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=70/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/116
RA	696	.	NC_007779	4516697	0	T	G	bias_e_value=105.432	bias_p_value=2.26914e-05	fisher_strand_p_value=1.58042e-06	frequency=5.217934e-02	genotype_quality=760.3	ks_quality_p_value=1	log10_base_likelihood=-7.00722	log10_qual_likelihood_position_model=18.3044	log10_strand_likelihood_position_model=5.86126	new_cov=21/1	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=103/129	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/130
RA	697	.	NC_007779	4540870	0	T	G	bias_e_value=2.93868e-30	bias_p_value=6.32474e-37	fisher_strand_p_value=7.1194e-39	frequency=2.320514e-01	genotype_quality=569.3	ks_quality_p_value=1	log10_base_likelihood=-52.9791	log10_qual_likelihood_position_model=49.1369	log10_strand_likelihood_position_model=38.1476	new_cov=71/0	polymorphism_quality=47.9	quality=47.9	quality_position_model=Inf	ref_cov=29/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/148
RA	698	.	NC_007779	4540877	0	A	T	bias_e_value=7.76389e-13	bias_p_value=1.67097e-19	fisher_strand_p_value=3.47329e-21	frequency=1.511445e-01	genotype_quality=711.7	ks_quality_p_value=1	log10_base_likelihood=-38.7577	log10_qual_likelihood_position_model=29.8243	log10_strand_likelihood_position_model=20.4593	new_cov=35/0	polymorphism_quality=33.6	quality=33.6	quality_position_model=Inf	ref_cov=36/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=71/150
RA	699	.	NC_007779	4542789	0	A	C	bias_e_value=3.58254e-08	bias_p_value=7.71047e-15	fisher_strand_p_value=2.07773e-16	frequency=1.087756e-01	genotype_quality=763.6	ks_quality_p_value=1	log10_base_likelihood=-9.45086	log10_qual_likelihood_position_model=33.8207	log10_strand_likelihood_position_model=15.6824	new_cov=0/41	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=137/77	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/120
RA	700	.	NC_007779	4546535	0	T	A	frequency=1	genotype_quality=851.9	new_cov=124/80	quality=851.9	ref_cov=0/0	tot_cov=124/80
RA	701	.	NC_007779	4553745	0	C	A	bias_e_value=13387.2	bias_p_value=0.00288125	fisher_strand_p_value=0.000318279	frequency=2.855492e-02	genotype_quality=931.6	ks_quality_p_value=1	log10_base_likelihood=-5.95593	log10_qual_likelihood_position_model=16.1396	log10_strand_likelihood_position_model=3.53126	new_cov=13/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=130/119	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/119
RA	702	.	NC_007779	4554525	1	.	T	bias_e_value=1696760	bias_p_value=0.365183	fisher_strand_p_value=0.149985	frequency=7.692337e-03	genotype_quality=1234.1	ks_quality_p_value=0.771245	log10_base_likelihood=-8.30463	log10_qual_likelihood_position_model=2.25773	log10_strand_likelihood_position_model=0.823952	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=4.07114e-07	ref_cov=99/159	reject=POLYMORPHISM_STRAND	tot_cov=101/159
RA	703	.	NC_007779	4554534	0	A	C	bias_e_value=111666	bias_p_value=0.0240332	fisher_strand_p_value=0.00363141	frequency=3.096676e-02	genotype_quality=620.8	ks_quality_p_value=1	log10_base_likelihood=-7.46217	log10_qual_likelihood_position_model=10.6569	log10_strand_likelihood_position_model=2.50392	new_cov=8/4	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=50/153	reject=EVALUE,SURROUNDING_HOMOPOLYMER	tot_cov=58/160
RA	704	.	NC_007779	4555389	0	C	A	bias_e_value=7802.12	bias_p_value=0.0016792	fisher_strand_p_value=0.000178258	frequency=3.221607e-02	genotype_quality=795.7	ks_quality_p_value=0.975453	log10_base_likelihood=-6.19513	log10_qual_likelihood_position_model=14.5252	log10_strand_likelihood_position_model=3.94065	new_cov=13/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=106/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/114
RA	705	.	NC_007779	4561440	1	.	T	bias_e_value=3826660	bias_p_value=0.823587	fisher_strand_p_value=0.526623	frequency=1.098919e-02	genotype_quality=897.3	ks_quality_p_value=0.889284	log10_base_likelihood=-8.32228	log10_qual_likelihood_position_model=1.731	log10_strand_likelihood_position_model=0.415453	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=4.19575e-08	ref_cov=111/69	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=113/69
RA	706	.	NC_007779	4573184	0	T	G	bias_e_value=2.02662e-16	bias_p_value=4.36176e-23	fisher_strand_p_value=7.71703e-25	frequency=1.445613e-01	genotype_quality=725.0	ks_quality_p_value=1	log10_base_likelihood=-22.9986	log10_qual_likelihood_position_model=41.8001	log10_strand_likelihood_position_model=24.1125	new_cov=66/0	polymorphism_quality=17.7	quality=17.7	quality_position_model=Inf	ref_cov=81/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/148
RA	707	.	NC_007779	4578176	0	A	G	bias_e_value=0.00161491	bias_p_value=3.47567e-10	fisher_strand_p_value=1.33614e-11	frequency=7.295513e-02	genotype_quality=659.9	ks_quality_p_value=0.998966	log10_base_likelihood=-13.156	log10_qual_likelihood_position_model=18.0567	log10_strand_likelihood_position_model=10.8741	new_cov=17/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=Inf	ref_cov=33/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=51/140
RA	708	.	NC_007779	4583431	0	T	.	bias_e_value=3912130	bias_p_value=0.841982	fisher_strand_p_value=0.608556	frequency=1.228428e-02	genotype_quality=983.8	ks_quality_p_value=0.810835	log10_base_likelihood=-8.09814	log10_qual_likelihood_position_model=2.72199	log10_strand_likelihood_position_model=0.443243	new_cov=2/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=8.15218e-07	ref_cov=115/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/127
RA	709	.	NC_007779	4584556	0	C	A	bias_e_value=7486.65	bias_p_value=0.0016113	fisher_strand_p_value=0.00016628	frequency=3.154373e-02	genotype_quality=890.9	ks_quality_p_value=0.998673	log10_base_likelihood=-9.47133	log10_qual_likelihood_position_model=13.5091	log10_strand_likelihood_position_model=3.77916	new_cov=11/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=111/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/141
RA	710	.	NC_007779	4610781	0	A	C	bias_e_value=0.000817165	bias_p_value=1.75873e-10	fisher_strand_p_value=6.57526e-12	frequency=6.162262e-02	genotype_quality=904.4	ks_quality_p_value=1	log10_base_likelihood=-11.4994	log10_qual_likelihood_position_model=26.8875	log10_strand_likelihood_position_model=11.1821	new_cov=0/26	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=166/85	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=167/111
RA	711	.	NC_007779	4610781	1	.	C	bias_e_value=1499410	bias_p_value=0.322707	fisher_strand_p_value=0.163865	frequency=7.379532e-03	genotype_quality=1227.8	ks_quality_p_value=0.590388	log10_base_likelihood=-7.22106	log10_qual_likelihood_position_model=4.26227	log10_strand_likelihood_position_model=0.785514	new_cov=0/2	polymorphism_quality=1.7	quality=1.7	quality_position_model=0.000677319	ref_cov=161/108	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=161/110
RA	712	.	NC_007779	4635770	0	G	T	bias_e_value=141.558	bias_p_value=3.04667e-05	fisher_strand_p_value=2.16986e-06	frequency=5.315638e-02	genotype_quality=800.4	ks_quality_p_value=1	log10_base_likelihood=-12.2853	log10_qual_likelihood_position_model=11.7534	log10_strand_likelihood_position_model=5.9649	new_cov=0/21	polymorphism_quality=6.9	quality=6.9	quality_position_model=Inf	ref_cov=130/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/152
RA	713	.	NC_007779	4636467	1	.	G	bias_e_value=2282580	bias_p_value=0.491265	fisher_strand_p_value=0.185201	frequency=8.297920e-03	genotype_quality=1209.8	ks_quality_p_value=0.98013	log10_base_likelihood=-7.59556	log10_qual_likelihood_position_model=2.50696	log10_strand_likelihood_position_model=0.732358	new_cov=2/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=3.25725e-06	ref_cov=102/137	reject=POLYMORPHISM_STRAND	tot_cov=104/137
RA	714	.	NC_007779	4636470	0	C	G	bias_e_value=1.2135e-13	bias_p_value=2.61174e-20	fisher_strand_p_value=5.22308e-22	frequency=1.621251e-01	genotype_quality=723.2	ks_quality_p_value=1	log10_base_likelihood=-49.4397	log10_qual_likelihood_position_model=30.8636	log10_strand_likelihood_position_model=21.2821	new_cov=38/0	polymorphism_quality=44.4	quality=44.4	quality_position_model=Inf	ref_cov=37/145	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=75/145
RA	715	.	NC_007779	4636473	0	A	G	bias_e_value=0.0244395	bias_p_value=5.25996e-09	fisher_strand_p_value=2.26648e-10	frequency=5.633974e-02	genotype_quality=685.1	ks_quality_p_value=1	log10_base_likelihood=-7.28878	log10_qual_likelihood_position_model=18.3502	log10_strand_likelihood_position_model=9.64465	new_cov=13/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=26/148	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=39/148
RA	716	.	NC_007779	4639643	1	.	G	bias_e_value=1301080	bias_p_value=0.280024	fisher_strand_p_value=0.102458	frequency=9.901047e-03	genotype_quality=1009.3	ks_quality_p_value=0.772962	log10_base_likelihood=-8.35544	log10_qual_likelihood_position_model=1.15218	log10_strand_likelihood_position_model=0.989454	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=3.83339e-08	ref_cov=63/137	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=65/137
RA	717	.	NC_007779	4642414	1	.	A	bias_e_value=4598030	bias_p_value=0.989604	fisher_strand_p_value=1	frequency=1.102924e-02	genotype_quality=1326.7	ks_quality_p_value=0.859312	log10_base_likelihood=-12.3863	log10_qual_likelihood_position_model=2.50393	log10_strand_likelihood_position_model=0.40633	new_cov=1/2	polymorphism_quality=7.0	quality=7.0	quality_position_model=1.71517e-11	ref_cov=129/140	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/142
RA	718	.	NC_007779	4644244	1	.	T	bias_e_value=4638000	bias_p_value=0.998207	fisher_strand_p_value=1	frequency=7.462502e-03	genotype_quality=1309.1	ks_quality_p_value=0.940725	log10_base_likelihood=-7.44331	log10_qual_likelihood_position_model=2.80543	log10_strand_likelihood_position_model=0.300012	new_cov=1/1	polymorphism_quality=1.9	quality=1.9	quality_position_model=3.40464e-06	ref_cov=138/128	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/129
MC	719	.	NC_007779	274733	371972	0	0	left_inside_cov=0	left_outside_cov=257	right_inside_cov=1	right_outside_cov=259
MC	720	.	NC_007779	654214	655412	1197	0	left_inside_cov=0	left_outside_cov=298	right_inside_cov=0	right_outside_cov=301
MC	721	.	NC_007779	1288311	1288518	64	59	left_inside_cov=205	left_outside_cov=209	right_inside_cov=204	right_outside_cov=207
MC	722	.	NC_007779	1301041	1302376	1327	0	left_inside_cov=0	left_outside_cov=262	right_inside_cov=0	right_outside_cov=264
MC	723	.	NC_007779	1413639	1436698	0	0	left_inside_cov=0	left_outside_cov=368	right_inside_cov=1	right_outside_cov=365
MC	724	.	NC_007779	2176983	2178208	1198	0	left_inside_cov=0	left_outside_cov=303	right_inside_cov=0	right_outside_cov=396
MC	725	.	NC_007779	2320795	2322130	1330	0	left_inside_cov=0	left_outside_cov=296	right_inside_cov=2	right_outside_cov=302
MC	726	.	NC_007779	3128818	3147473	1184	0	left_inside_cov=204	left_outside_cov=207	right_inside_cov=0	right_outside_cov=245
MC	727	.	NC_007779	3261134	3262337	1198	0	left_inside_cov=0	left_outside_cov=280	right_inside_cov=0	right_outside_cov=310
MC	728	.	NC_007779	3742936	3744271	1328	0	left_inside_cov=0	left_outside_cov=355	right_inside_cov=3	right_outside_cov=353
MC	729	.	NC_007779	3746911	3748109	1198	0	left_inside_cov=2	left_outside_cov=317	right_inside_cov=0	right_outside_cov=317
MC	730	.	NC_007779	3958123	3958156	0	0	left_inside_cov=0	left_outside_cov=279	right_inside_cov=0	right_outside_cov=284
MC	731	.	NC_007779	4310363	4311561	1198	0	left_inside_cov=1	left_outside_cov=273	right_inside_cov=0	right_outside_cov=270
JC	732	.	NC_007779	1	1	NC_007779	4646332	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=122	coverage_plus=147	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1__1__NC_007779__4646332__-1__0____101__101__0__0	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=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=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=269	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=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=269
JC	733	.	NC_007779	273179	1	NC_007779	657877	1	0	alignment_overlap=0	coverage_minus=108	coverage_plus=90	flanking_left=101	flanking_right=101	frequency=7.704280e-01	junction_possible_overlap_registers=90	key=NC_007779__273179__1__NC_007779__657877__1__0____101__101__1__0	max_left=95	max_left_minus=95	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=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=0.76	new_junction_frequency=7.704280e-01	new_junction_read_count=198	pos_hash_score=118	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=0.23	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=59	side_2_redundant=0	total_non_overlap_reads=198
JC	734	.	NC_007779	273211	1	NC_007779	273281	1	0	alignment_overlap=6	coverage_minus=4	coverage_plus=0	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=84	key=NC_007779__273211__1__NC_007779__273275__1__6____101__101__1__1	max_left=29	max_left_minus=29	max_left_plus=0	max_min_left=29	max_min_left_minus=29	max_min_left_plus=0	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=168	max_right=81	max_right_minus=81	max_right_plus=0	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=NA	new_junction_read_count=4	pos_hash_score=4	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=6	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=4
JC	735	.	NC_007779	274373	-1	NC_007779	657880	-1	0	alignment_overlap=0	coverage_minus=80	coverage_plus=74	flanking_left=101	flanking_right=101	frequency=7.255814e-01	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__657880__-1__0____101__101__1__0	max_left=86	max_left_minus=83	max_left_plus=86	max_min_left=49	max_min_left_minus=49	max_min_left_plus=46	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=94	max_right_minus=94	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.60	new_junction_frequency=7.255814e-01	new_junction_read_count=156	pos_hash_score=97	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=0.23	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=59	side_2_redundant=0	total_non_overlap_reads=154
JC	736	.	NC_007779	274373	-1	NC_007779	679371	1	0	alignment_overlap=0	coverage_minus=0	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=4.385965e-02	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__679371__1__0____101__101__1__0	max_left=79	max_left_minus=0	max_left_plus=79	max_min_left=29	max_min_left_minus=0	max_min_left_plus=29	max_min_right=32	max_min_right_minus=0	max_min_right_plus=32	max_pos_hash_score=180	max_right=72	max_right_minus=0	max_right_plus=72	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.04	new_junction_frequency=4.385965e-02	new_junction_read_count=10	pos_hash_score=3	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=0.84	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=218	side_2_redundant=0	total_non_overlap_reads=3
JC	737	.	NC_007779	274732	-1	NC_007779	371973	1	0	alignment_overlap=8	coverage_minus=96	coverage_plus=106	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=80	key=NC_007779__274732__-1__NC_007779__371965__1__8____101__101__0__0	max_left=87	max_left_minus=86	max_left_plus=87	max_min_left=46	max_min_left_minus=46	max_min_left_plus=46	max_min_right=46	max_min_right_minus=46	max_min_right_plus=43	max_pos_hash_score=160	max_right=87	max_right_minus=87	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.88	new_junction_frequency=1.000000e+00	new_junction_read_count=202	pos_hash_score=109	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=2	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=80	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=202
JC	738	.	NC_007779	289856	1	NC_007779	2176982	-1	-33	alignment_overlap=-33	coverage_minus=90	coverage_plus=87	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=57	key=NC_007779__289856__1__NC_007779__2176982__-1__-33__CTATTGCAATACCGCATTGTGAGGCGATTCATG__101__101__1__0	max_left=62	max_left_minus=62	max_left_plus=62	max_min_left=33	max_min_left_minus=33	max_min_left_plus=33	max_min_right=34	max_min_right_minus=34	max_min_right_plus=34	max_pos_hash_score=114	max_right=62	max_right_minus=60	max_right_plus=62	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.08	new_junction_frequency=1.000000e+00	new_junction_read_count=177	pos_hash_score=86	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=177	unique_read_sequence=CTATTGCAATACCGCATTGTGAGGCGATTCATG
JC	739	.	NC_007779	380484	1	NC_007779	381407	-1	0	alignment_overlap=0	coverage_minus=165	coverage_plus=121	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=90	key=NC_007779__380484__1__NC_007779__381407__-1__0____101__101__1__1	max_left=95	max_left_minus=95	max_left_plus=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=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=1.11	new_junction_frequency=NA	new_junction_read_count=288	pos_hash_score=136	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=286
JC	740	.	NC_007779	381401	1	NC_007779	381812	-1	0	alignment_overlap=2	coverage_minus=124	coverage_plus=132	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=93	max_left_plus=93	max_min_left=49	max_min_left_minus=47	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=NA	new_junction_read_count=256	pos_hash_score=125	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=256
JC	741	.	NC_007779	608570	-1	NC_007779	1305025	1	0	alignment_overlap=3	coverage_minus=94	coverage_plus=111	flanking_left=101	flanking_right=101	frequency=7.554089e-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=48	max_min_right=49	max_min_right_minus=49	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=0.82	new_junction_frequency=7.554089e-01	new_junction_read_count=206	pos_hash_score=120	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=0.27	side_2_overlap=3	side_2_possible_overlap_registers=90	side_2_read_count=69	side_2_redundant=0	total_non_overlap_reads=205
JC	742	.	NC_007779	654213	-1	NC_007779	655413	1	0	alignment_overlap=5	coverage_minus=142	coverage_plus=112	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=85	key=NC_007779__654213__-1__NC_007779__655408__1__5____101__101__0__0	max_left=90	max_left_minus=90	max_left_plus=90	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=48	max_min_right_minus=47	max_min_right_plus=48	max_pos_hash_score=170	max_right=90	max_right_minus=90	max_right_plus=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=1.000000e+00	new_junction_read_count=257	pos_hash_score=126	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=254
JC	743	.	NC_007779	1209367	1	NC_007779	1211196	1	0	alignment_overlap=16	coverage_minus=12	coverage_plus=15	flanking_left=101	flanking_right=101	frequency=1.409349e-01	junction_possible_overlap_registers=74	key=NC_007779__1209367__1__NC_007779__1211180__1__16____101__101__0__0	max_left=74	max_left_minus=64	max_left_plus=74	max_min_left=37	max_min_left_minus=37	max_min_left_plus=35	max_min_right=42	max_min_right_minus=42	max_min_right_plus=42	max_pos_hash_score=148	max_right=79	max_right_minus=75	max_right_plus=79	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.13	new_junction_frequency=1.409349e-01	new_junction_read_count=27	pos_hash_score=26	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=196	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.79	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=168	side_2_redundant=0	total_non_overlap_reads=27
JC	744	.	NC_007779	1209382	-1	NC_007779	1211179	-1	0	alignment_overlap=16	coverage_minus=21	coverage_plus=12	flanking_left=101	flanking_right=101	frequency=1.691344e-01	junction_possible_overlap_registers=74	key=NC_007779__1209382__-1__NC_007779__1211195__-1__16____101__101__0__0	max_left=79	max_left_minus=79	max_left_plus=78	max_min_left=42	max_min_left_minus=40	max_min_left_plus=42	max_min_right=42	max_min_right_minus=42	max_min_right_plus=42	max_pos_hash_score=148	max_right=79	max_right_minus=79	max_right_plus=78	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.15	new_junction_frequency=1.691344e-01	new_junction_read_count=33	pos_hash_score=31	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.73	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=190	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.79	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=168	side_2_redundant=0	total_non_overlap_reads=33
JC	745	.	NC_007779	1221489	1	NC_007779	1301041	1	0	alignment_overlap=2	coverage_minus=103	coverage_plus=125	flanking_left=101	flanking_right=101	frequency=9.873527e-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=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=86	max_right_minus=85	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.90	new_junction_frequency=9.873527e-01	new_junction_read_count=229	pos_hash_score=123	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.01	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=3	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=228
JC	746	.	NC_007779	1221495	-1	NC_007779	1302369	-1	0	alignment_overlap=0	coverage_minus=131	coverage_plus=83	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1221495__-1__NC_007779__1302369__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=48	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=0.83	new_junction_frequency=1.000000e+00	new_junction_read_count=216	pos_hash_score=125	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=214
JC	747	.	NC_007779	1301040	-1	NC_007779	1302377	1	0	alignment_overlap=7	coverage_minus=109	coverage_plus=100	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=46	max_min_right_plus=47	max_pos_hash_score=166	max_right=88	max_right_minus=88	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.88	new_junction_frequency=1.000000e+00	new_junction_read_count=210	pos_hash_score=116	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=209
JC	748	.	NC_007779	1305037	-1	NC_007779	2519723	1	0	alignment_overlap=4	coverage_minus=95	coverage_plus=94	flanking_left=101	flanking_right=101	frequency=7.451630e-01	junction_possible_overlap_registers=86	key=NC_007779__1305037__-1__NC_007779__2519719__1__4____101__101__0__1	max_left=90	max_left_minus=90	max_left_plus=90	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=47	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=89	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.77	new_junction_frequency=7.451630e-01	new_junction_read_count=190	pos_hash_score=109	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.26	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=68	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=189
JC	749	.	NC_007779	1397758	1	NC_007779	1672777	1	0	alignment_overlap=0	coverage_minus=107	coverage_plus=132	flanking_left=101	flanking_right=101	frequency=9.958506e-01	junction_possible_overlap_registers=90	key=NC_007779__1397758__1__NC_007779__1672777__1__0____101__101__1__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=50	max_min_left_minus=50	max_min_left_plus=48	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=0.93	new_junction_frequency=9.958506e-01	new_junction_read_count=240	pos_hash_score=122	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=239
JC	750	.	NC_007779	1413638	-1	NC_007779	1436699	1	0	alignment_overlap=26	coverage_minus=127	coverage_plus=116	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=68	max_min_left=37	max_min_left_minus=37	max_min_left_plus=37	max_min_right=37	max_min_right_minus=37	max_min_right_plus=37	max_pos_hash_score=128	max_right=69	max_right_minus=69	max_right_plus=69	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.32	new_junction_frequency=1.000000e+00	new_junction_read_count=243	pos_hash_score=113	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=26	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=64	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=243
JC	751	.	NC_007779	1672780	-1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=111	coverage_plus=137	flanking_left=101	flanking_right=101	frequency=9.960159e-01	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=95	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=84	max_right_minus=84	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.96	new_junction_frequency=9.960159e-01	new_junction_read_count=250	pos_hash_score=124	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=248
JC	752	.	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=9.424779e-01	junction_possible_overlap_registers=90	key=NC_007779__1907280__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=93	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=87	max_right_minus=87	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.82	new_junction_frequency=9.424779e-01	new_junction_read_count=213	pos_hash_score=119	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.05	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=13	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	753	.	NC_007779	1907288	-1	NC_007779	2411458	1	0	alignment_overlap=0	coverage_minus=109	coverage_plus=127	flanking_left=101	flanking_right=101	frequency=9.715447e-01	junction_possible_overlap_registers=90	key=NC_007779__1907288__-1__NC_007779__2411458__1__0____101__101__0__1	max_left=92	max_left_minus=92	max_left_plus=89	max_min_left=50	max_min_left_minus=49	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=0.92	new_junction_frequency=9.715447e-01	new_junction_read_count=239	pos_hash_score=121	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=7	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=236
JC	754	.	NC_007779	1980091	1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=130	coverage_plus=54	flanking_left=101	flanking_right=101	frequency=9.946237e-01	junction_possible_overlap_registers=90	key=NC_007779__1980091__1__NC_007779__1980209__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=46	max_min_right=49	max_min_right_minus=49	max_min_right_plus=48	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=0.71	new_junction_frequency=9.946237e-01	new_junction_read_count=185	pos_hash_score=102	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=184
JC	755	.	NC_007779	1980095	-1	NC_007779	2176984	1	0	alignment_overlap=1	coverage_minus=155	coverage_plus=105	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=93	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=49	max_pos_hash_score=178	max_right=92	max_right_minus=92	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.02	new_junction_frequency=1.000000e+00	new_junction_read_count=261	pos_hash_score=126	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=260
JC	756	.	NC_007779	2178209	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=139	coverage_plus=140	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2178209__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.08	new_junction_frequency=1.000000e+00	new_junction_read_count=279	pos_hash_score=141	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=279
JC	757	.	NC_007779	2320794	-1	NC_007779	2322131	1	0	alignment_overlap=6	coverage_minus=135	coverage_plus=100	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__2320794__-1__NC_007779__2322125__1__6____101__101__0__0	max_left=89	max_left_minus=89	max_left_plus=89	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=47	max_min_right_minus=46	max_min_right_plus=47	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=1.000000e+00	new_junction_read_count=236	pos_hash_score=118	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=235
JC	758	.	NC_007779	2320794	1	NC_007779	2589834	-1	0	alignment_overlap=0	coverage_minus=71	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=84	max_left_minus=84	max_left_plus=84	max_min_left=49	max_min_left_minus=47	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.83	new_junction_frequency=1.000000e+00	new_junction_read_count=214	pos_hash_score=105	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=214
JC	759	.	NC_007779	2322124	-1	NC_007779	2589830	1	0	alignment_overlap=0	coverage_minus=134	coverage_plus=148	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=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.10	new_junction_frequency=1.000000e+00	new_junction_read_count=285	pos_hash_score=141	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=282
JC	760	.	NC_007779	2411458	1	NC_007779	2643578	-1	0	alignment_overlap=0	coverage_minus=3	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=2.564103e-02	junction_possible_overlap_registers=90	key=NC_007779__2411458__1__NC_007779__2643578__-1__0____101__101__1__0	max_left=71	max_left_minus=68	max_left_plus=71	max_min_left=41	max_min_left_minus=0	max_min_left_plus=41	max_min_right=49	max_min_right_minus=49	max_min_right_plus=30	max_pos_hash_score=180	max_right=64	max_right_minus=49	max_right_plus=64	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=2.564103e-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=0.88	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=228	side_2_redundant=0	total_non_overlap_reads=6
JC	761	.	NC_007779	2411458	1	NC_007779	2985055	-1	0	alignment_overlap=0	coverage_minus=124	coverage_plus=145	flanking_left=101	flanking_right=101	frequency=9.645390e-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=94	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=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=9.645390e-01	new_junction_read_count=272	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=0.04	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=10	side_2_redundant=0	total_non_overlap_reads=269
JC	762	.	NC_007779	2411459	1	NC_007779	2941347	-1	0	alignment_overlap=1	coverage_minus=19	coverage_plus=10	flanking_left=101	flanking_right=101	frequency=1.097007e-01	junction_possible_overlap_registers=89	key=NC_007779__2411458__1__NC_007779__2941347__-1__1____101__101__1__0	max_left=89	max_left_minus=89	max_left_plus=79	max_min_left=43	max_min_left_minus=43	max_min_left_plus=40	max_min_right=50	max_min_right_minus=50	max_min_right_plus=46	max_pos_hash_score=178	max_right=92	max_right_minus=90	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.11	new_junction_frequency=1.097007e-01	new_junction_read_count=29	pos_hash_score=26	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=0.92	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=238	side_2_redundant=0	total_non_overlap_reads=29
JC	763	.	NC_007779	2412225	-1	NC_007779	2643570	1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=1	flanking_left=101	flanking_right=101	frequency=1.315789e-02	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2643570__1__0____101__101__1__0	max_left=75	max_left_minus=75	max_left_plus=61	max_min_left=36	max_min_left_minus=36	max_min_left_plus=0	max_min_right=40	max_min_right_minus=26	max_min_right_plus=40	max_pos_hash_score=180	max_right=65	max_right_minus=65	max_right_plus=40	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.01	new_junction_frequency=1.315789e-02	new_junction_read_count=3	pos_hash_score=3	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=0.87	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=225	side_2_redundant=0	total_non_overlap_reads=3
JC	764	.	NC_007779	2412225	-1	NC_007779	2941338	1	0	alignment_overlap=0	coverage_minus=20	coverage_plus=13	flanking_left=101	flanking_right=101	frequency=1.195652e-01	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2941338__1__0____101__101__1__0	max_left=83	max_left_minus=78	max_left_plus=83	max_min_left=50	max_min_left_minus=50	max_min_left_plus=42	max_min_right=50	max_min_right_minus=44	max_min_right_plus=50	max_pos_hash_score=180	max_right=88	max_right_minus=80	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.13	new_junction_frequency=1.195652e-01	new_junction_read_count=33	pos_hash_score=29	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=0.94	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=243	side_2_redundant=0	total_non_overlap_reads=33
JC	765	.	NC_007779	2412225	-1	NC_007779	2985047	1	0	alignment_overlap=0	coverage_minus=96	coverage_plus=124	flanking_left=101	flanking_right=101	frequency=9.525862e-01	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2985047__1__0____101__101__1__0	max_left=87	max_left_minus=86	max_left_plus=87	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=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=9.525862e-01	new_junction_read_count=221	pos_hash_score=114	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=11	side_2_redundant=0	total_non_overlap_reads=220
JC	766	.	NC_007779	2865229	1	NC_007779	2865274	-1	0	alignment_overlap=4	coverage_minus=36	coverage_plus=29	flanking_left=101	flanking_right=101	frequency=2.669921e-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=89	max_min_left=43	max_min_left_minus=41	max_min_left_plus=43	max_min_right=42	max_min_right_minus=38	max_min_right_plus=42	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=0.32	new_junction_frequency=2.669921e-01	new_junction_read_count=79	pos_hash_score=50	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.89	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=230	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.86	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=214	side_2_redundant=0	total_non_overlap_reads=65
JC	767	.	NC_007779	2865229	1	NC_007779	2865278	-1	-42	alignment_overlap=-42	coverage_minus=11	coverage_plus=19	flanking_left=101	flanking_right=101	frequency=1.978892e-01	junction_possible_overlap_registers=48	key=NC_007779__2865229__1__NC_007779__2865278__-1__-42__CGTTTGCGCGAAATCCTGCAAACGCAGGGGCTGAATATCGAA__101__101__0__0	max_left=43	max_left_minus=41	max_left_plus=43	max_min_left=29	max_min_left_minus=29	max_min_left_plus=25	max_min_right=29	max_min_right_minus=27	max_min_right_plus=29	max_pos_hash_score=96	max_right=43	max_right_minus=43	max_right_plus=41	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.22	new_junction_frequency=1.978892e-01	new_junction_read_count=30	pos_hash_score=23	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.89	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=230	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.87	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=226	side_2_redundant=0	total_non_overlap_reads=30	unique_read_sequence=CGTTTGCGCGAAATCCTGCAAACGCAGGGGCTGAATATCGAA
JC	768	.	NC_007779	3147474	1	NC_007779	3262328	-1	0	alignment_overlap=0	coverage_minus=106	coverage_plus=119	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=88	max_right_minus=87	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.87	new_junction_frequency=1.000000e+00	new_junction_read_count=226	pos_hash_score=128	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=225
JC	769	.	NC_007779	3186081	-1	NC_007779	3512753	1	0	alignment_overlap=1	coverage_minus=124	coverage_plus=104	flanking_left=101	flanking_right=101	frequency=8.747922e-01	junction_possible_overlap_registers=89	key=NC_007779__3186082__-1__NC_007779__3512753__1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=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=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.89	new_junction_frequency=8.747922e-01	new_junction_read_count=228	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=gene	side_2_continuation=0	side_2_coverage=0.13	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=33	side_2_redundant=0	total_non_overlap_reads=228
JC	770	.	NC_007779	3261133	-1	NC_007779	3748109	-1	-6	alignment_overlap=-6	coverage_minus=137	coverage_plus=109	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__3261133__-1__NC_007779__3748109__-1__-6__CTTTGC__101__101__0__1	max_left=89	max_left_minus=89	max_left_plus=89	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.02	new_junction_frequency=1.000000e+00	new_junction_read_count=247	pos_hash_score=123	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=246	unique_read_sequence=CTTTGC
JC	771	.	NC_007779	3261134	1	NC_007779	3265774	1	0	alignment_overlap=0	coverage_minus=110	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=83	max_left_minus=83	max_left_plus=83	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=1.000000e+00	new_junction_read_count=221	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=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=221
JC	772	.	NC_007779	3261135	1	NC_007779	3262338	1	0	alignment_overlap=1	coverage_minus=123	coverage_plus=131	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=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=93	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.00	new_junction_frequency=1.000000e+00	new_junction_read_count=255	pos_hash_score=130	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=254
JC	773	.	NC_007779	3265777	-1	NC_007779	3365411	1	0	alignment_overlap=0	coverage_minus=160	coverage_plus=116	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=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=49	max_pos_hash_score=180	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=276	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=276
JC	774	.	NC_007779	3512759	-1	NC_007779	3744262	-1	0	alignment_overlap=1	coverage_minus=99	coverage_plus=130	flanking_left=101	flanking_right=101	frequency=8.790555e-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=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=178	max_right=84	max_right_minus=84	max_right_plus=83	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.90	new_junction_frequency=8.790555e-01	new_junction_read_count=230	pos_hash_score=120	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.12	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=32	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=229
JC	775	.	NC_007779	3742935	-1	NC_007779	3744272	1	0	alignment_overlap=8	coverage_minus=142	coverage_plus=130	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=86	max_left_plus=87	max_min_left=46	max_min_left_minus=46	max_min_left_plus=46	max_min_right=45	max_min_right_minus=45	max_min_right_plus=45	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=1.15	new_junction_frequency=1.000000e+00	new_junction_read_count=272	pos_hash_score=127	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=272
JC	776	.	NC_007779	3744263	-1	NC_007779	3903274	1	0	alignment_overlap=0	coverage_minus=131	coverage_plus=104	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3744263__-1__NC_007779__3903274__1__0____101__101__1__0	max_left=88	max_left_minus=87	max_left_plus=88	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.91	new_junction_frequency=1.000000e+00	new_junction_read_count=235	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=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=235
JC	777	.	NC_007779	3746910	-1	NC_007779	3748110	1	0	alignment_overlap=4	coverage_minus=147	coverage_plus=125	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=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.10	new_junction_frequency=1.000000e+00	new_junction_read_count=273	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=272
JC	778	.	NC_007779	3746911	1	NC_007779	3748646	-1	0	alignment_overlap=0	coverage_minus=120	coverage_plus=128	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3746911__1__NC_007779__3748646__-1__0____101__101__1__0	max_left=92	max_left_minus=91	max_left_plus=92	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=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.12	new_junction_frequency=1.000000e+00	new_junction_read_count=290	pos_hash_score=126	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=248
JC	779	.	NC_007779	3748105	-1	NC_007779	3748643	1	0	alignment_overlap=0	coverage_minus=148	coverage_plus=129	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3748105__-1__NC_007779__3748643__1__0____101__101__1__0	max_left=95	max_left_minus=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=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=277	pos_hash_score=145	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=277
JC	780	.	NC_007779	3750590	-1	NC_007779	3751790	1	0	alignment_overlap=4	coverage_minus=116	coverage_plus=134	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3750590__-1__NC_007779__3751786__1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=47	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=250	pos_hash_score=123	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	781	.	NC_007779	3903279	-1	NC_007779	4504190	-1	0	alignment_overlap=1	coverage_minus=151	coverage_plus=122	flanking_left=101	flanking_right=101	frequency=9.893273e-01	junction_possible_overlap_registers=89	key=NC_007779__3903279__-1__NC_007779__4504191__-1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=48	max_min_left_plus=49	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=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=9.893273e-01	new_junction_read_count=275	pos_hash_score=141	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.01	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=3	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=273
JC	782	.	NC_007779	3958122	-1	NC_007779	3958157	1	0	alignment_overlap=2	coverage_minus=130	coverage_plus=102	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=48	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=0.92	new_junction_frequency=1.000000e+00	new_junction_read_count=233	pos_hash_score=125	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=232
JC	783	.	NC_007779	3987186	1	NC_007779	4009203	-1	0	alignment_overlap=1	coverage_minus=149	coverage_plus=116	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__3987185__1__NC_007779__4009203__-1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=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=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.03	new_junction_frequency=1.000000e+00	new_junction_read_count=265	pos_hash_score=135	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=265
JC	784	.	NC_007779	3988379	-1	NC_007779	4009199	1	0	alignment_overlap=0	coverage_minus=151	coverage_plus=131	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=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=1.09	new_junction_frequency=1.000000e+00	new_junction_read_count=283	pos_hash_score=143	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=282
JC	785	.	NC_007779	4310362	-1	NC_007779	4311562	1	0	alignment_overlap=4	coverage_minus=119	coverage_plus=116	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=48	max_min_left_minus=47	max_min_left_plus=48	max_min_right=48	max_min_right_minus=47	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.95	new_junction_frequency=1.000000e+00	new_junction_read_count=235	pos_hash_score=121	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=235
JC	786	.	NC_007779	4310363	1	NC_007779	4353540	1	0	alignment_overlap=0	coverage_minus=126	coverage_plus=123	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4310363__1__NC_007779__4353540__1__0____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=92	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=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=1.000000e+00	new_junction_read_count=255	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=249
JC	787	.	NC_007779	4311557	-1	NC_007779	4353543	-1	0	alignment_overlap=0	coverage_minus=117	coverage_plus=147	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4311557__-1__NC_007779__4353543__-1__0____101__101__1__0	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	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=273	pos_hash_score=135	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=264
JC	788	.	NC_007779	4355060	1	NC_007779	4502861	1	0	alignment_overlap=0	coverage_minus=129	coverage_plus=150	flanking_left=101	flanking_right=101	frequency=9.964413e-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=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=93	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.08	new_junction_frequency=9.964413e-01	new_junction_read_count=280	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=279
JC	789	.	NC_007779	4355066	-1	NC_007779	4504189	-1	0	alignment_overlap=2	coverage_minus=106	coverage_plus=121	flanking_left=101	flanking_right=101	frequency=9.831353e-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=92	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=0.90	new_junction_frequency=9.831353e-01	new_junction_read_count=228	pos_hash_score=130	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=227
UN	790	.	NC_007779	15485	16634
UN	791	.	NC_007779	19894	20466
UN	792	.	NC_007779	223637	223642
UN	793	.	NC_007779	223840	224673
UN	794	.	NC_007779	224989	225488
UN	795	.	NC_007779	225836	225923
UN	796	.	NC_007779	226120	226203
UN	797	.	NC_007779	226399	226505
UN	798	.	NC_007779	226701	226870
UN	799	.	NC_007779	227085	228591
UN	800	.	NC_007779	228785	228911
UN	801	.	NC_007779	269859	270420
UN	802	.	NC_007779	270706	270713
UN	803	.	NC_007779	273277	274275
UN	804	.	NC_007779	274733	365377
UN	805	.	NC_007779	365463	365463
UN	806	.	NC_007779	365474	365510
UN	807	.	NC_007779	365724	371972
UN	808	.	NC_007779	380574	381723
UN	809	.	NC_007779	391029	392101
UN	810	.	NC_007779	525193	525848
UN	811	.	NC_007779	566089	567161
UN	812	.	NC_007779	573905	574918
UN	813	.	NC_007779	580439	580490
UN	814	.	NC_007779	607328	608476
UN	815	.	NC_007779	654214	655412
UN	816	.	NC_007779	688364	689375
UN	817	.	NC_007779	730322	730466
UN	818	.	NC_007779	730828	730860
UN	819	.	NC_007779	732510	732614
UN	820	.	NC_007779	733124	733151
UN	821	.	NC_007779	734995	735022
UN	822	.	NC_007779	1050345	1050399
UN	823	.	NC_007779	1050560	1050736
UN	824	.	NC_007779	1094763	1095829
UN	825	.	NC_007779	1105718	1106860
UN	826	.	NC_007779	1270768	1270799
UN	827	.	NC_007779	1271838	1271869
UN	828	.	NC_007779	1288372	1288460
UN	829	.	NC_007779	1301041	1302376
UN	830	.	NC_007779	1397851	1398859
UN	831	.	NC_007779	1413639	1436698
UN	832	.	NC_007779	1469721	1470864
UN	833	.	NC_007779	1471108	1472133
UN	834	.	NC_007779	1530138	1530792
UN	835	.	NC_007779	1533980	1534024
UN	836	.	NC_007779	1572478	1572486
UN	837	.	NC_007779	1572677	1572963
UN	838	.	NC_007779	1573217	1573420
UN	839	.	NC_007779	1634761	1634840
UN	840	.	NC_007779	1635034	1635246
UN	841	.	NC_007779	1635439	1635539
UN	842	.	NC_007779	1635909	1636255
UN	843	.	NC_007779	1636451	1636638
UN	844	.	NC_007779	1637648	1637699
UN	845	.	NC_007779	1652656	1653165
UN	846	.	NC_007779	1980303	1981310
UN	847	.	NC_007779	2068409	2068504
UN	848	.	NC_007779	2068700	2068747
UN	849	.	NC_007779	2068959	2069339
UN	850	.	NC_007779	2071174	2072316
UN	851	.	NC_007779	2103980	2104986
UN	852	.	NC_007779	2172403	2173469
UN	853	.	NC_007779	2176983	2178208
UN	854	.	NC_007779	2292347	2293349
UN	855	.	NC_007779	2308005	2308023
UN	856	.	NC_007779	2308231	2308249
UN	857	.	NC_007779	2320795	2322130
UN	858	.	NC_007779	2411554	2412127
UN	859	.	NC_007779	2519817	2520966
UN	860	.	NC_007779	2724816	2727806
UN	861	.	NC_007779	2728091	2728121
UN	862	.	NC_007779	2728321	2729507
UN	863	.	NC_007779	2729833	2729930
UN	864	.	NC_007779	2995113	2996257
UN	865	.	NC_007779	3128894	3135621
UN	866	.	NC_007779	3135686	3147473
UN	867	.	NC_007779	3184842	3185986
UN	868	.	NC_007779	3261134	3262337
UN	869	.	NC_007779	3365504	3366513
UN	870	.	NC_007779	3423614	3424411
UN	871	.	NC_007779	3424606	3426562
UN	872	.	NC_007779	3426758	3426848
UN	873	.	NC_007779	3427045	3428592
UN	874	.	NC_007779	3459669	3460042
UN	875	.	NC_007779	3460237	3460348
UN	876	.	NC_007779	3465131	3468011
UN	877	.	NC_007779	3468300	3468330
UN	878	.	NC_007779	3468559	3470290
UN	879	.	NC_007779	3596172	3597191
UN	880	.	NC_007779	3597391	3597855
UN	881	.	NC_007779	3598088	3598748
UN	882	.	NC_007779	3598944	3599186
UN	883	.	NC_007779	3599296	3599491
UN	884	.	NC_007779	3599687	3600850
UN	885	.	NC_007779	3600854	3600854
UN	886	.	NC_007779	3601046	3601421
UN	887	.	NC_007779	3689826	3689895
UN	888	.	NC_007779	3690159	3690355
UN	889	.	NC_007779	3690552	3690668
UN	890	.	NC_007779	3690874	3691015
UN	891	.	NC_007779	3691208	3692523
UN	892	.	NC_007779	3692789	3693186
UN	893	.	NC_007779	3693384	3694550
UN	894	.	NC_007779	3694746	3694931
UN	895	.	NC_007779	3742936	3744271
UN	896	.	NC_007779	3746911	3748109
UN	897	.	NC_007779	3750591	3751789
UN	898	.	NC_007779	3874863	3874904
UN	899	.	NC_007779	3875223	3876240
UN	900	.	NC_007779	3876439	3878053
UN	901	.	NC_007779	3958123	3958156
UN	902	.	NC_007779	3973174	3973376
UN	903	.	NC_007779	3973631	3973917
UN	904	.	NC_007779	3974108	3974114
UN	905	.	NC_007779	3987277	3988288
UN	906	.	NC_007779	4015543	4015587
UN	907	.	NC_007779	4017854	4017897
UN	908	.	NC_007779	4018214	4019232
UN	909	.	NC_007779	4019429	4021044
UN	910	.	NC_007779	4056314	4056890
UN	911	.	NC_007779	4169475	4169587
UN	912	.	NC_007779	4169782	4170155
UN	913	.	NC_007779	4211520	4211763
UN	914	.	NC_007779	4211960	4213508
UN	915	.	NC_007779	4213667	4215790
UN	916	.	NC_007779	4215987	4216658
UN	917	.	NC_007779	4299523	4299553
UN	918	.	NC_007779	4299747	4299779
UN	919	.	NC_007779	4310363	4311561
UN	920	.	NC_007779	4502953	4504095
UN	921	.	NC_007779	4512230	4513265