#=GENOME_DIFF	1.0
#=AUTHOR	breseq 0.25c 
#=CREATED	02:46:02 03 Mar 2015
#=REFSEQ	/data/savita/refseq/NC_007779.gbk
#=READSEQ	2_D6_ACAGTG_L003_R1_001.fastq
SNP	1	66	NC_007779	66457	A	frequency=1
SNP	2	70	NC_007779	97880	T	frequency=1
SNP	3	79	NC_007779	167632	A	frequency=1
SNP	4	110	NC_007779	274547	G	frequency=1
DEL	5	504,522	NC_007779	274733	97240	frequency=1
SNP	6	123	NC_007779	547694	G	frequency=1
INS	7	124	NC_007779	547831	G	frequency=1	insert_position=1
SNP	8	126	NC_007779	556858	T	frequency=1
SNP	9	128	NC_007779	569996	C	frequency=1
DEL	10	505,527	NC_007779	654214	1199	frequency=1
SNP	11	146	NC_007779	749354	A	frequency=1
SNP	12	147	NC_007779	758440	A	frequency=1
SNP	13	159	NC_007779	887234	A	frequency=1
SNP	14	164	NC_007779	987574	T	frequency=1
SNP	15	173	NC_007779	1093686	C	frequency=1
SNP	16	174	NC_007779	1097580	T	frequency=2.206135e-01
SNP	17	186	NC_007779	1170573	T	frequency=1
DEL	18	507,534	NC_007779	1301041	1336	frequency=1
SNP	19	197	NC_007779	1318876	A	frequency=1
DEL	20	508,537	NC_007779	1413639	23060	frequency=1
SNP	21	216	NC_007779	1483588	A	frequency=1
DEL	22	218	NC_007779	1496775	1	frequency=1
SNP	23	227	NC_007779	1615814	A	frequency=1
DEL	24	233	NC_007779	1669599	1	frequency=1
DEL	25	539	NC_007779	1724327	3	frequency=1.206875e-01
SNP	26	250	NC_007779	1844073	A	frequency=1
SNP	27	263	NC_007779	1918872	A	frequency=1
SNP	28	267	NC_007779	1973476	A	frequency=1
SNP	29	272	NC_007779	2005401	T	frequency=1
SNP	30	283	NC_007779	2170094	A	frequency=1
SNP	31	285	NC_007779	2178210	C	frequency=2.347088e-02
DEL	32	510,545	NC_007779	2320795	1336	frequency=1
SNP	33	301	NC_007779	2406075	T	frequency=1
SNP	34	304	NC_007779	2416102	A	frequency=1
SNP	35	314	NC_007779	2538628	T	frequency=1
INS	36	550	NC_007779	2865274	GCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACG	frequency=6.948428e-01
SNP	37	335	NC_007779	2866111	G	frequency=1
SNP	38	340	NC_007779	2941345	C	frequency=1.576614e-02
SNP	39	343	NC_007779	3003330	A	frequency=1
SNP	40	349	NC_007779	3049815	T	frequency=1
SNP	41	376	NC_007779	3397813	G	frequency=1
DEL	42	513,558	NC_007779	3742936	1336	frequency=1
DEL	43	514,560	NC_007779	3746911	1199	frequency=1
DEL	44	415	NC_007779	3750122	1	frequency=9.704800e-01
SNP	45	416	NC_007779	3750123	T	frequency=2.939224e-02
DEL	46	515,563	NC_007779	3750591	1199	frequency=1
SNP	47	437	NC_007779	3898657	G	frequency=1
DEL	48	516,565	NC_007779	3958123	34	frequency=1
SNP	49	460	NC_007779	4090749	T	frequency=1
SNP	50	470	NC_007779	4165991	C	frequency=1
DEL	51	517,568	NC_007779	4310363	1199	frequency=1
DEL	52	484,485	NC_007779	4371271	2	frequency=1
SNP	53	494	NC_007779	4546535	A	frequency=1
RA	54	.	NC_007779	301	1	.	T	bias_e_value=2960590	bias_p_value=0.637188	fisher_strand_p_value=1	frequency=1.858711e-02	genotype_quality=1254.8	ks_quality_p_value=0.280596	log10_base_likelihood=-22.0092	log10_qual_likelihood_position_model=3.34742	log10_strand_likelihood_position_model=0.465558	new_cov=2/3	polymorphism_quality=16.7	quality=16.7	quality_position_model=2.38151e-20	ref_cov=117/147	reject=INDEL_HOMOPOLYMER	tot_cov=119/150
RA	55	.	NC_007779	5595	0	G	T	bias_e_value=60.0041	bias_p_value=1.29143e-05	fisher_strand_p_value=8.63097e-07	frequency=3.106976e-02	genotype_quality=993.6	ks_quality_p_value=1	log10_base_likelihood=-7.64866	log10_qual_likelihood_position_model=14.5775	log10_strand_likelihood_position_model=6.06394	new_cov=0/18	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=161/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=161/146
RA	56	.	NC_007779	11143	0	G	T	bias_e_value=339.66	bias_p_value=7.31029e-05	fisher_strand_p_value=5.5821e-06	frequency=4.284096e-02	genotype_quality=940.1	ks_quality_p_value=1	log10_base_likelihood=-8.85461	log10_qual_likelihood_position_model=14.6803	log10_strand_likelihood_position_model=5.48602	new_cov=1/21	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=145/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/150
RA	57	.	NC_007779	29496	0	T	A	bias_e_value=103.681	bias_p_value=2.23146e-05	fisher_strand_p_value=1.55223e-06	frequency=6.438065e-02	genotype_quality=674.7	ks_quality_p_value=1	log10_base_likelihood=-10.757	log10_qual_likelihood_position_model=23.2348	log10_strand_likelihood_position_model=5.80904	new_cov=0/16	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=122/85	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=122/101
RA	58	.	NC_007779	34111	1	.	T	bias_e_value=3993390	bias_p_value=0.859471	fisher_strand_p_value=1	frequency=6.896019e-03	genotype_quality=1436.0	ks_quality_p_value=0.519129	log10_base_likelihood=-8.2143	log10_qual_likelihood_position_model=1.35556	log10_strand_likelihood_position_model=0.307872	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.72078e-08	ref_cov=164/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=165/125
RA	59	.	NC_007779	34112	0	T	.	bias_e_value=3255070	bias_p_value=0.700568	fisher_strand_p_value=1	frequency=1.019382e-02	genotype_quality=1173.0	ks_quality_p_value=0.334272	log10_base_likelihood=-7.71641	log10_qual_likelihood_position_model=2.54132	log10_strand_likelihood_position_model=0.376848	new_cov=2/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=1.12591e-06	ref_cov=165/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=167/127
RA	60	.	NC_007779	35004	0	G	T	bias_e_value=180.312	bias_p_value=3.88074e-05	fisher_strand_p_value=2.81619e-06	frequency=4.145050e-02	genotype_quality=701.8	ks_quality_p_value=1	log10_base_likelihood=-5.85277	log10_qual_likelihood_position_model=11.722	log10_strand_likelihood_position_model=5.55034	new_cov=0/17	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=113/92	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/109
RA	61	.	NC_007779	36544	0	G	T	bias_e_value=195.217	bias_p_value=4.20153e-05	fisher_strand_p_value=3.56456e-06	frequency=3.856945e-02	genotype_quality=745.4	ks_quality_p_value=0.860708	log10_base_likelihood=-5.8556	log10_qual_likelihood_position_model=22.6762	log10_strand_likelihood_position_model=5.47708	new_cov=0/21	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=106/118	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/139
RA	62	.	NC_007779	39910	0	G	T	bias_e_value=103377	bias_p_value=0.0222491	fisher_strand_p_value=0.00331636	frequency=4.470730e-02	genotype_quality=655.6	ks_quality_p_value=1	log10_base_likelihood=-9.63262	log10_qual_likelihood_position_model=12.428	log10_strand_likelihood_position_model=2.59788	new_cov=0/15	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=71/137	reject=POLYMORPHISM_STRAND	tot_cov=71/152
RA	63	.	NC_007779	47305	0	G	T	bias_e_value=4.03533e-08	bias_p_value=8.68497e-15	fisher_strand_p_value=2.34807e-16	frequency=9.961891e-02	genotype_quality=917.2	ks_quality_p_value=1	log10_base_likelihood=-26.0325	log10_qual_likelihood_position_model=26.7451	log10_strand_likelihood_position_model=15.6293	new_cov=0/38	polymorphism_quality=20.8	quality=20.8	quality_position_model=Inf	ref_cov=170/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=171/127
RA	64	.	NC_007779	50358	0	G	T	bias_e_value=27.5906	bias_p_value=5.93814e-06	fisher_strand_p_value=3.77023e-07	frequency=4.958916e-02	genotype_quality=738.9	ks_quality_p_value=0.997235	log10_base_likelihood=-6.63085	log10_qual_likelihood_position_model=12.4777	log10_strand_likelihood_position_model=6.42363	new_cov=0/19	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=127/98	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/117
RA	65	.	NC_007779	60570	0	C	A	bias_e_value=10208.8	bias_p_value=0.00219718	fisher_strand_p_value=0.000234825	frequency=2.668953e-02	genotype_quality=980.9	ks_quality_p_value=1	log10_base_likelihood=-6.07932	log10_qual_likelihood_position_model=12.683	log10_strand_likelihood_position_model=3.71244	new_cov=13/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=135/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/132
RA	66	.	NC_007779	66457	0	C	A	frequency=1	genotype_quality=1025.7	new_cov=137/123	quality=1025.7	ref_cov=0/0	tot_cov=137/123
RA	67	.	NC_007779	70602	0	G	T	bias_e_value=0.00144385	bias_p_value=3.10751e-10	fisher_strand_p_value=1.18806e-11	frequency=7.915115e-02	genotype_quality=779.1	ks_quality_p_value=1	log10_base_likelihood=-9.69379	log10_qual_likelihood_position_model=27.6447	log10_strand_likelihood_position_model=11.1123	new_cov=1/35	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=130/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/121
RA	68	.	NC_007779	75074	0	T	G	bias_e_value=2.74542e-20	bias_p_value=5.90879e-27	fisher_strand_p_value=9.01053e-29	frequency=2.093592e-01	genotype_quality=531.0	ks_quality_p_value=1	log10_base_likelihood=-38.3698	log10_qual_likelihood_position_model=40.6712	log10_strand_likelihood_position_model=28.0477	new_cov=51/2	polymorphism_quality=33.2	quality=33.2	quality_position_model=Inf	ref_cov=19/126	reject=FISHER_STRAND_P_VALUE	tot_cov=70/128
RA	69	.	NC_007779	75079	0	C	T	bias_e_value=1.79546	bias_p_value=3.86425e-07	fisher_strand_p_value=2.06705e-08	frequency=5.063295e-02	genotype_quality=604.8	ks_quality_p_value=1	log10_base_likelihood=-7.38566	log10_qual_likelihood_position_model=13.0471	log10_strand_likelihood_position_model=7.68465	new_cov=10/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=22/133	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=32/133
RA	70	.	NC_007779	97880	0	C	T	frequency=1	genotype_quality=1082.1	new_cov=129/140	quality=1082.1	ref_cov=1/0	tot_cov=130/140
RA	71	.	NC_007779	107544	1	.	T	bias_e_value=3896200	bias_p_value=0.838553	fisher_strand_p_value=0.4993	frequency=7.326126e-03	genotype_quality=1347.1	ks_quality_p_value=0.978606	log10_base_likelihood=-7.74754	log10_qual_likelihood_position_model=3.18949	log10_strand_likelihood_position_model=0.563107	new_cov=0/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=7.78712e-06	ref_cov=130/141	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/143
RA	72	.	NC_007779	107545	0	T	.	bias_e_value=3504800	bias_p_value=0.754315	fisher_strand_p_value=0.606844	frequency=1.070595e-02	genotype_quality=1108.1	ks_quality_p_value=0.637593	log10_base_likelihood=-7.98124	log10_qual_likelihood_position_model=1.90125	log10_strand_likelihood_position_model=0.446229	new_cov=2/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.52605e-07	ref_cov=131/145	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/146
RA	73	.	NC_007779	119384	0	T	G	bias_e_value=4.09626e-08	bias_p_value=8.81611e-15	fisher_strand_p_value=2.38451e-16	frequency=9.276581e-02	genotype_quality=723.7	ks_quality_p_value=1	log10_base_likelihood=-8.23912	log10_qual_likelihood_position_model=27.6096	log10_strand_likelihood_position_model=15.6226	new_cov=42/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=77/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=120/132
RA	74	.	NC_007779	134366	0	G	T	bias_e_value=6.76088	bias_p_value=1.4551e-06	fisher_strand_p_value=8.41556e-08	frequency=4.463387e-02	genotype_quality=927.8	ks_quality_p_value=1	log10_base_likelihood=-6.40413	log10_qual_likelihood_position_model=16.3445	log10_strand_likelihood_position_model=7.07492	new_cov=0/22	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=144/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=144/142
RA	75	.	NC_007779	150535	0	G	A	bias_e_value=716972	bias_p_value=0.154309	fisher_strand_p_value=0.0355906	frequency=2.227211e-02	genotype_quality=941.6	ks_quality_p_value=1	log10_base_likelihood=-7.21261	log10_qual_likelihood_position_model=6.64838	log10_strand_likelihood_position_model=1.54094	new_cov=6/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=123/102	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=129/102
RA	76	.	NC_007779	150546	0	A	C	bias_e_value=713246	bias_p_value=0.153507	fisher_strand_p_value=0.0353925	frequency=2.202797e-02	genotype_quality=782.6	ks_quality_p_value=0.998812	log10_base_likelihood=-5.95376	log10_qual_likelihood_position_model=8.4342	log10_strand_likelihood_position_model=1.54221	new_cov=6/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=108/90	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=114/90
RA	77	.	NC_007779	158557	0	G	T	bias_e_value=262.801	bias_p_value=5.65609e-05	fisher_strand_p_value=4.22934e-06	frequency=5.982924e-02	genotype_quality=688.2	ks_quality_p_value=1	log10_base_likelihood=-6.40824	log10_qual_likelihood_position_model=18.2327	log10_strand_likelihood_position_model=5.69048	new_cov=1/21	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=110/90	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/111
RA	78	.	NC_007779	164579	1	.	C	bias_e_value=830479	bias_p_value=0.178739	fisher_strand_p_value=0.0443922	frequency=1.526260e-02	genotype_quality=548.7	ks_quality_p_value=0.971766	log10_base_likelihood=-6.22498	log10_qual_likelihood_position_model=3.62915	log10_strand_likelihood_position_model=1.35269	new_cov=0/2	polymorphism_quality=0.7	quality=0.7	quality_position_model=0.00732571	ref_cov=103/26	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=103/28
RA	79	.	NC_007779	167632	0	C	A	frequency=1	genotype_quality=959.4	new_cov=111/127	quality=959.4	ref_cov=0/0	tot_cov=111/127
RA	80	.	NC_007779	170275	0	C	A	bias_e_value=21.6334	bias_p_value=4.65601e-06	fisher_strand_p_value=2.90035e-07	frequency=5.045557e-02	genotype_quality=696.9	ks_quality_p_value=1	log10_base_likelihood=-6.19929	log10_qual_likelihood_position_model=14.6073	log10_strand_likelihood_position_model=6.56824	new_cov=22/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=96/106	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/106
RA	81	.	NC_007779	175694	0	T	G	bias_e_value=3.11869e-07	bias_p_value=6.71216e-14	fisher_strand_p_value=1.92412e-15	frequency=6.137562e-02	genotype_quality=714.6	ks_quality_p_value=1	log10_base_likelihood=-5.9594	log10_qual_likelihood_position_model=29.8877	log10_strand_likelihood_position_model=14.7158	new_cov=36/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=70/137	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/137
RA	82	.	NC_007779	193496	0	A	T	bias_e_value=8401.42	bias_p_value=0.00180818	fisher_strand_p_value=0.000188853	frequency=3.040600e-02	genotype_quality=768.7	ks_quality_p_value=1	log10_base_likelihood=-6.15532	log10_qual_likelihood_position_model=12.3458	log10_strand_likelihood_position_model=3.72388	new_cov=8/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=70/143	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=78/143
RA	83	.	NC_007779	194247	0	G	T	bias_e_value=1.22036	bias_p_value=2.62649e-07	fisher_strand_p_value=1.37497e-08	frequency=5.941248e-02	genotype_quality=751.8	ks_quality_p_value=1	log10_base_likelihood=-10.6537	log10_qual_likelihood_position_model=18.5831	log10_strand_likelihood_position_model=7.86171	new_cov=0/19	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=135/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/95
RA	84	.	NC_007779	207536	0	G	T	bias_e_value=0.125513	bias_p_value=2.70134e-08	fisher_strand_p_value=1.25674e-09	frequency=1.024566e-01	genotype_quality=583.2	ks_quality_p_value=1	log10_base_likelihood=-13.8748	log10_qual_likelihood_position_model=18.7801	log10_strand_likelihood_position_model=9.08313	new_cov=0/35	polymorphism_quality=8.5	quality=8.5	quality_position_model=Inf	ref_cov=91/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=91/130
RA	85	.	NC_007779	227971	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	86	.	NC_007779	227972	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	87	.	NC_007779	227973	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	88	.	NC_007779	227974	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	89	.	NC_007779	227975	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	90	.	NC_007779	227976	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	91	.	NC_007779	227977	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	92	.	NC_007779	227978	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	93	.	NC_007779	227979	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	94	.	NC_007779	227980	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	95	.	NC_007779	227981	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	96	.	NC_007779	227982	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	97	.	NC_007779	227984	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	98	.	NC_007779	227986	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	99	.	NC_007779	227987	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	100	.	NC_007779	227988	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	101	.	NC_007779	227989	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	102	.	NC_007779	227990	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	103	.	NC_007779	227991	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	104	.	NC_007779	227992	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	105	.	NC_007779	227993	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	106	.	NC_007779	227994	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	107	.	NC_007779	227995	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	108	.	NC_007779	227996	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	109	.	NC_007779	227997	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	110	.	NC_007779	274547	0	A	G	frequency=1	genotype_quality=1165.9	new_cov=136/133	quality=1165.9	ref_cov=0/0	tot_cov=136/133
RA	111	.	NC_007779	326295	0	G	T	deleted=1	frequency=1	genotype_quality=3.7	new_cov=1/0	quality=3.7	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	112	.	NC_007779	379236	1	.	G	bias_e_value=1354810	bias_p_value=0.291586	fisher_strand_p_value=0.123545	frequency=1.086998e-02	genotype_quality=885.5	ks_quality_p_value=0.678359	log10_base_likelihood=-8.55054	log10_qual_likelihood_position_model=1.58775	log10_strand_likelihood_position_model=0.908176	new_cov=0/2	polymorphism_quality=3.1	quality=3.1	quality_position_model=5.59842e-08	ref_cov=119/63	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/65
RA	113	.	NC_007779	379237	0	G	.	bias_e_value=30678.5	bias_p_value=0.00660274	fisher_strand_p_value=0.0934495	frequency=4.499245e-02	genotype_quality=799.2	ks_quality_p_value=0.00870805	log10_base_likelihood=-30.2923	log10_qual_likelihood_position_model=7.52114	log10_strand_likelihood_position_model=1.19453	new_cov=8/1	polymorphism_quality=25.1	quality=25.1	quality_position_model=9.12468e-24	ref_cov=114/77	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/78
RA	114	.	NC_007779	387919	0	A	G	bias_e_value=17.6573	bias_p_value=3.80027e-06	fisher_strand_p_value=2.33579e-07	frequency=6.269217e-02	genotype_quality=385.6	ks_quality_p_value=1	log10_base_likelihood=-11.9237	log10_qual_likelihood_position_model=8.76412	log10_strand_likelihood_position_model=6.63463	new_cov=1/7	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=105/6	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/13
RA	115	.	NC_007779	433425	0	C	A	bias_e_value=299.391	bias_p_value=6.4436e-05	fisher_strand_p_value=4.86952e-06	frequency=4.398918e-02	genotype_quality=793.1	ks_quality_p_value=1	log10_base_likelihood=-6.12461	log10_qual_likelihood_position_model=16.09	log10_strand_likelihood_position_model=5.42848	new_cov=20/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=121/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=141/114
RA	116	.	NC_007779	440767	0	G	T	bias_e_value=8.93571e-07	bias_p_value=1.92318e-13	fisher_strand_p_value=5.68985e-15	frequency=1.111794e-01	genotype_quality=760.9	ks_quality_p_value=1	log10_base_likelihood=-21.5359	log10_qual_likelihood_position_model=26.8294	log10_strand_likelihood_position_model=14.2449	new_cov=0/39	polymorphism_quality=16.3	quality=16.3	quality_position_model=Inf	ref_cov=132/81	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/120
RA	117	.	NC_007779	497102	1	.	A	bias_e_value=2212900	bias_p_value=0.476268	fisher_strand_p_value=0.172868	frequency=8.506775e-03	genotype_quality=1120.2	ks_quality_p_value=0.999927	log10_base_likelihood=-5.92768	log10_qual_likelihood_position_model=3.96213	log10_strand_likelihood_position_model=0.762286	new_cov=0/2	polymorphism_quality=0.4	quality=0.4	quality_position_model=0.00814226	ref_cov=137/96	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=137/98
RA	118	.	NC_007779	513848	0	A	C	bias_e_value=4.35126e-09	bias_p_value=9.36494e-16	fisher_strand_p_value=2.38445e-17	frequency=1.029081e-01	genotype_quality=574.5	ks_quality_p_value=1	log10_base_likelihood=-9.88624	log10_qual_likelihood_position_model=24.7066	log10_strand_likelihood_position_model=16.6226	new_cov=0/33	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=118/38	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/71
RA	119	.	NC_007779	522430	1	.	T	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=2.358437e-02	genotype_quality=1015.7	ks_quality_p_value=0.999772	log10_base_likelihood=-21.9549	log10_qual_likelihood_position_model=4.0436	log10_strand_likelihood_position_model=0.473848	new_cov=3/2	polymorphism_quality=16.7	quality=16.7	quality_position_model=1.39526e-19	ref_cov=111/96	reject=INDEL_HOMOPOLYMER	tot_cov=114/98
RA	120	.	NC_007779	524490	0	T	G	bias_e_value=0.0632973	bias_p_value=1.36231e-08	fisher_strand_p_value=6.13317e-10	frequency=6.266689e-02	genotype_quality=719.3	ks_quality_p_value=1	log10_base_likelihood=-10.0515	log10_qual_likelihood_position_model=22.8816	log10_strand_likelihood_position_model=9.21232	new_cov=19/0	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=57/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=76/137
RA	121	.	NC_007779	528272	0	T	.	bias_e_value=1089030	bias_p_value=0.234384	fisher_strand_p_value=0.247558	frequency=1.375294e-02	genotype_quality=886.2	ks_quality_p_value=0.250425	log10_base_likelihood=-8.33696	log10_qual_likelihood_position_model=1.57849	log10_strand_likelihood_position_model=0.861751	new_cov=3/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=8.15344e-08	ref_cov=110/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=113/105
RA	122	.	NC_007779	546397	0	A	.	bias_e_value=4619000	bias_p_value=0.994117	fisher_strand_p_value=1	frequency=1.166344e-02	genotype_quality=1018.6	ks_quality_p_value=0.893512	log10_base_likelihood=-7.99817	log10_qual_likelihood_position_model=1.98566	log10_strand_likelihood_position_model=0.378643	new_cov=2/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=1.52569e-07	ref_cov=143/111	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=145/112
RA	123	.	NC_007779	547694	0	A	G	frequency=1	genotype_quality=1138.6	new_cov=136/139	quality=1138.6	ref_cov=0/0	tot_cov=136/139
RA	124	.	NC_007779	547831	1	.	G	bias_e_value=1883500	bias_p_value=0.405373	fisher_strand_p_value=1	frequency=1	genotype_quality=893.8	ks_quality_p_value=0.135019	log10_base_likelihood=-7.32144	log10_qual_likelihood_position_model=3.61211	log10_strand_likelihood_position_model=0.396508	new_cov=99/113	polymorphism_changed_to_consensus=1	polymorphism_quality=1.8	quality=1.8	quality_position_model=4.077e-05	ref_cov=1/2	tot_cov=100/115
RA	125	.	NC_007779	556653	0	A	C	bias_e_value=2.18575e-06	bias_p_value=4.70425e-13	fisher_strand_p_value=1.43082e-14	frequency=6.533289e-02	genotype_quality=596.7	ks_quality_p_value=1	log10_base_likelihood=-6.43385	log10_qual_likelihood_position_model=19.1374	log10_strand_likelihood_position_model=13.8444	new_cov=0/23	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=127/31	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/54
RA	126	.	NC_007779	556858	0	A	T	frequency=1	genotype_quality=981.6	new_cov=128/116	quality=981.6	ref_cov=0/0	tot_cov=128/116
RA	127	.	NC_007779	562836	0	C	A	bias_e_value=54400.4	bias_p_value=0.0117082	fisher_strand_p_value=0.0015746	frequency=5.175161e-02	genotype_quality=669.9	ks_quality_p_value=0.9972	log10_base_likelihood=-10.5405	log10_qual_likelihood_position_model=14.8282	log10_strand_likelihood_position_model=2.97387	new_cov=0/10	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=84/80	reject=POLYMORPHISM_STRAND	tot_cov=84/90
RA	128	.	NC_007779	569996	0	G	C	frequency=1	genotype_quality=1078.2	new_cov=115/133	quality=1078.2	ref_cov=0/0	tot_cov=115/133
RA	129	.	NC_007779	583702	1	.	T	bias_e_value=3937650	bias_p_value=0.847475	fisher_strand_p_value=0.57676	frequency=1.265812e-02	genotype_quality=1163.0	ks_quality_p_value=0.869172	log10_base_likelihood=-13.0202	log10_qual_likelihood_position_model=1.67242	log10_strand_likelihood_position_model=0.503747	new_cov=1/2	polymorphism_quality=7.6	quality=7.6	quality_position_model=6.88935e-13	ref_cov=135/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=136/101
RA	130	.	NC_007779	593216	0	T	G	bias_e_value=2.17847e-09	bias_p_value=4.68858e-16	fisher_strand_p_value=1.17259e-17	frequency=9.649038e-02	genotype_quality=618.8	ks_quality_p_value=1	log10_base_likelihood=-15.3314	log10_qual_likelihood_position_model=26.8731	log10_strand_likelihood_position_model=16.9309	new_cov=27/0	polymorphism_quality=10.0	quality=10.0	quality_position_model=Inf	ref_cov=28/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=56/133
RA	131	.	NC_007779	596918	0	G	T	bias_e_value=1.5272	bias_p_value=3.28689e-07	fisher_strand_p_value=1.89656e-08	frequency=4.455853e-02	genotype_quality=1107.3	ks_quality_p_value=0.918651	log10_base_likelihood=-8.89056	log10_qual_likelihood_position_model=24.0418	log10_strand_likelihood_position_model=7.72203	new_cov=0/22	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=177/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=177/153
RA	132	.	NC_007779	598799	0	T	G	bias_e_value=4.20615e-16	bias_p_value=9.05263e-23	fisher_strand_p_value=1.62298e-24	frequency=1.462564e-01	genotype_quality=613.4	ks_quality_p_value=1	log10_base_likelihood=-20.453	log10_qual_likelihood_position_model=35.6751	log10_strand_likelihood_position_model=23.7897	new_cov=40/0	polymorphism_quality=15.2	quality=15.2	quality_position_model=Inf	ref_cov=28/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=68/137
RA	133	.	NC_007779	606915	0	T	G	bias_e_value=25.7754	bias_p_value=5.54746e-06	fisher_strand_p_value=3.50301e-07	frequency=3.559971e-02	genotype_quality=627.4	ks_quality_p_value=0.998102	log10_base_likelihood=-7.24349	log10_qual_likelihood_position_model=8.80278	log10_strand_likelihood_position_model=6.45556	new_cov=6/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=10/146	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=16/146
RA	134	.	NC_007779	617621	0	G	T	bias_e_value=3540.14	bias_p_value=0.000761922	fisher_strand_p_value=7.23277e-05	frequency=3.495121e-02	genotype_quality=842.6	ks_quality_p_value=1	log10_base_likelihood=-5.83548	log10_qual_likelihood_position_model=8.97486	log10_strand_likelihood_position_model=4.1407	new_cov=9/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=72/145	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=81/145
RA	135	.	NC_007779	645484	0	A	C	bias_e_value=0.100834	bias_p_value=2.17019e-08	fisher_strand_p_value=9.98969e-10	frequency=5.502701e-02	genotype_quality=912.3	ks_quality_p_value=1	log10_base_likelihood=-7.39138	log10_qual_likelihood_position_model=23.5956	log10_strand_likelihood_position_model=9.00045	new_cov=0/24	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=158/103	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=159/128
RA	136	.	NC_007779	645970	0	T	G	bias_e_value=8.0366e-18	bias_p_value=1.72967e-24	fisher_strand_p_value=2.89217e-26	frequency=1.085691e-01	genotype_quality=706.7	ks_quality_p_value=1	log10_base_likelihood=-20.0491	log10_qual_likelihood_position_model=30.784	log10_strand_likelihood_position_model=25.5388	new_cov=28/0	polymorphism_quality=14.8	quality=14.8	quality_position_model=Inf	ref_cov=10/164	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=38/164
RA	137	.	NC_007779	646440	0	C	A	bias_e_value=0.195796	bias_p_value=4.21398e-08	fisher_strand_p_value=2.02632e-09	frequency=4.281139e-02	genotype_quality=814.6	ks_quality_p_value=0.988973	log10_base_likelihood=-13.3117	log10_qual_likelihood_position_model=12.1266	log10_strand_likelihood_position_model=8.69329	new_cov=0/9	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=180/17	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=180/26
RA	138	.	NC_007779	657963	1	.	T	bias_e_value=4640570	bias_p_value=0.99876	fisher_strand_p_value=1	frequency=1.003361e-02	genotype_quality=1441.1	ks_quality_p_value=0.950612	log10_base_likelihood=-12.0982	log10_qual_likelihood_position_model=3.30405	log10_strand_likelihood_position_model=0.423059	new_cov=2/1	polymorphism_quality=6.7	quality=6.7	quality_position_model=2.31741e-10	ref_cov=148/148	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=150/149
RA	139	.	NC_007779	660356	0	T	G	bias_e_value=6.20963e-09	bias_p_value=1.33646e-15	fisher_strand_p_value=3.43474e-17	frequency=7.488537e-02	genotype_quality=802.4	ks_quality_p_value=1	log10_base_likelihood=-11.0915	log10_qual_likelihood_position_model=27.2559	log10_strand_likelihood_position_model=16.4641	new_cov=31/0	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=54/166	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=86/166
RA	140	.	NC_007779	667452	0	G	T	bias_e_value=19055.9	bias_p_value=0.00410127	fisher_strand_p_value=0.000474041	frequency=3.312016e-02	genotype_quality=1086.4	ks_quality_p_value=0.999676	log10_base_likelihood=-8.39167	log10_qual_likelihood_position_model=18.7655	log10_strand_likelihood_position_model=3.41645	new_cov=12/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=135/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/131
RA	141	.	NC_007779	686495	0	A	C	bias_e_value=9.49931e-17	bias_p_value=2.04447e-23	fisher_strand_p_value=3.56849e-25	frequency=7.246780e-02	genotype_quality=1042.6	ks_quality_p_value=1	log10_base_likelihood=-21.9663	log10_qual_likelihood_position_model=35.1742	log10_strand_likelihood_position_model=24.4475	new_cov=0/32	polymorphism_quality=16.7	quality=16.7	quality_position_model=Inf	ref_cov=233/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=233/65
RA	142	.	NC_007779	686664	0	T	.	bias_e_value=3173700	bias_p_value=0.683054	fisher_strand_p_value=0.621795	frequency=8.514404e-03	genotype_quality=1374.0	ks_quality_p_value=0.512435	log10_base_likelihood=-7.73511	log10_qual_likelihood_position_model=3.95576	log10_strand_likelihood_position_model=0.427236	new_cov=2/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=3.70469e-05	ref_cov=173/176	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=175/177
RA	143	.	NC_007779	706278	1	.	G	bias_e_value=1521000	bias_p_value=0.327354	fisher_strand_p_value=0.121405	frequency=1.129913e-02	genotype_quality=870.3	ks_quality_p_value=0.81333	log10_base_likelihood=-8.54575	log10_qual_likelihood_position_model=1.56921	log10_strand_likelihood_position_model=0.915764	new_cov=2/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=5.51688e-08	ref_cov=60/115	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=62/115
RA	144	.	NC_007779	706385	1	.	T	bias_e_value=3050410	bias_p_value=0.656521	fisher_strand_p_value=1	frequency=1.132107e-02	genotype_quality=1280.4	ks_quality_p_value=0.296141	log10_base_likelihood=-12.8059	log10_qual_likelihood_position_model=1.82984	log10_strand_likelihood_position_model=0.410215	new_cov=1/2	polymorphism_quality=7.4	quality=7.4	quality_position_model=1.32371e-12	ref_cov=127/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/137
RA	145	.	NC_007779	706386	0	T	.	bias_e_value=4212310	bias_p_value=0.906589	fisher_strand_p_value=0.608749	frequency=1.113605e-02	genotype_quality=1071.6	ks_quality_p_value=0.985929	log10_base_likelihood=-7.27369	log10_qual_likelihood_position_model=3.76905	log10_strand_likelihood_position_model=0.443349	new_cov=2/1	polymorphism_quality=1.8	quality=1.8	quality_position_model=7.53791e-05	ref_cov=127/139	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/140
RA	146	.	NC_007779	749354	0	C	A	frequency=1	genotype_quality=902.6	new_cov=99/124	quality=902.6	ref_cov=0/0	tot_cov=99/124
RA	147	.	NC_007779	758440	0	C	A	frequency=1	genotype_quality=961.0	new_cov=100/135	quality=961.0	ref_cov=0/0	tot_cov=100/135
RA	148	.	NC_007779	759019	0	C	G	bias_e_value=3.40536e-06	bias_p_value=7.32914e-13	fisher_strand_p_value=2.28417e-14	frequency=8.214760e-02	genotype_quality=621.7	ks_quality_p_value=0.989703	log10_base_likelihood=-27.4122	log10_qual_likelihood_position_model=16.7983	log10_strand_likelihood_position_model=13.6413	new_cov=0/13	polymorphism_quality=22.2	quality=22.2	quality_position_model=Inf	ref_cov=137/7	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/21
RA	149	.	NC_007779	817515	0	G	T	bias_e_value=0.69695	bias_p_value=1.5e-07	fisher_strand_p_value=7.61696e-09	frequency=5.595589e-02	genotype_quality=848.0	ks_quality_p_value=1	log10_base_likelihood=-10.0836	log10_qual_likelihood_position_model=18.0377	log10_strand_likelihood_position_model=8.11822	new_cov=0/24	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=137/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/128
RA	150	.	NC_007779	831318	0	A	G	bias_e_value=3429590	bias_p_value=0.73813	fisher_strand_p_value=0.370591	frequency=1.332951e-02	genotype_quality=1117.3	ks_quality_p_value=0.999101	log10_base_likelihood=-5.89059	log10_qual_likelihood_position_model=4.48838	log10_strand_likelihood_position_model=0.605167	new_cov=1/3	polymorphism_quality=0.3	quality=0.3	quality_position_model=0.024744	ref_cov=142/139	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=143/142
RA	151	.	NC_007779	835703	0	C	A	bias_e_value=47489.6	bias_p_value=0.0102209	fisher_strand_p_value=0.00136026	frequency=3.779316e-02	genotype_quality=749.1	ks_quality_p_value=0.986956	log10_base_likelihood=-9.32447	log10_qual_likelihood_position_model=14.3966	log10_strand_likelihood_position_model=3.1942	new_cov=13/1	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=106/118	reject=POLYMORPHISM_STRAND	tot_cov=119/119
RA	152	.	NC_007779	842195	0	C	A	bias_e_value=102.032	bias_p_value=2.19598e-05	fisher_strand_p_value=1.52572e-06	frequency=3.908443e-02	genotype_quality=879.8	ks_quality_p_value=1	log10_base_likelihood=-5.73744	log10_qual_likelihood_position_model=20.9032	log10_strand_likelihood_position_model=5.93437	new_cov=25/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=144/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=170/114
RA	153	.	NC_007779	845764	1	.	T	bias_e_value=2713880	bias_p_value=0.584092	fisher_strand_p_value=0.501614	frequency=8.695602e-03	genotype_quality=1118.9	ks_quality_p_value=0.480672	log10_base_likelihood=-8.41643	log10_qual_likelihood_position_model=1.41923	log10_strand_likelihood_position_model=0.531232	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.1052e-08	ref_cov=123/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/105
RA	154	.	NC_007779	847635	0	A	C	bias_e_value=3.89655	bias_p_value=8.3863e-07	fisher_strand_p_value=4.69166e-08	frequency=4.941702e-02	genotype_quality=634.7	ks_quality_p_value=1	log10_base_likelihood=-9.25833	log10_qual_likelihood_position_model=19.5772	log10_strand_likelihood_position_model=7.32867	new_cov=14/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=50/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=64/134
RA	155	.	NC_007779	850496	0	C	A	bias_e_value=59.372	bias_p_value=1.27782e-05	fisher_strand_p_value=8.53357e-07	frequency=4.545021e-02	genotype_quality=830.7	ks_quality_p_value=1	log10_base_likelihood=-7.2565	log10_qual_likelihood_position_model=17.5709	log10_strand_likelihood_position_model=6.33457	new_cov=20/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=108/127	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/127
RA	156	.	NC_007779	868836	1	.	C	bias_e_value=2255610	bias_p_value=0.48546	fisher_strand_p_value=0.231342	frequency=8.928299e-03	genotype_quality=1092.5	ks_quality_p_value=0.770018	log10_base_likelihood=-8.26289	log10_qual_likelihood_position_model=1.30939	log10_strand_likelihood_position_model=0.635745	new_cov=0/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=2.99393e-08	ref_cov=116/106	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/108
RA	157	.	NC_007779	874748	1	.	G	bias_e_value=3273890	bias_p_value=0.704619	fisher_strand_p_value=0.508362	frequency=6.919861e-03	genotype_quality=1445.8	ks_quality_p_value=0.664857	log10_base_likelihood=-8.08706	log10_qual_likelihood_position_model=2.26901	log10_strand_likelihood_position_model=0.487963	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.15119e-07	ref_cov=163/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=165/124
RA	158	.	NC_007779	884191	1	.	T	bias_e_value=2445580	bias_p_value=0.526346	fisher_strand_p_value=0.202782	frequency=8.436203e-03	genotype_quality=1167.8	ks_quality_p_value=1	log10_base_likelihood=-6.4164	log10_qual_likelihood_position_model=3.96951	log10_strand_likelihood_position_model=0.692971	new_cov=0/2	polymorphism_quality=0.9	quality=0.9	quality_position_model=0.00195124	ref_cov=130/105	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=130/107
RA	159	.	NC_007779	887234	0	C	A	frequency=1	genotype_quality=799.9	new_cov=123/89	quality=799.9	ref_cov=0/0	tot_cov=123/89
RA	160	.	NC_007779	904838	0	C	A	bias_e_value=1.93852e-08	bias_p_value=4.17214e-15	fisher_strand_p_value=1.28923e-16	frequency=1.167650e-01	genotype_quality=816.7	ks_quality_p_value=0.857458	log10_base_likelihood=-30.5674	log10_qual_likelihood_position_model=32.5491	log10_strand_likelihood_position_model=15.8897	new_cov=39/0	polymorphism_quality=25.4	quality=25.4	quality_position_model=Inf	ref_cov=78/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/152
RA	161	.	NC_007779	912696	0	G	.	bias_e_value=719638	bias_p_value=0.154883	fisher_strand_p_value=0.498759	frequency=8.923531e-03	genotype_quality=948.6	ks_quality_p_value=0.0717035	log10_base_likelihood=-5.6131	log10_qual_likelihood_position_model=1.44184	log10_strand_likelihood_position_model=0.565909	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=2.0009e-05	ref_cov=115/107	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/107
RA	162	.	NC_007779	917563	0	G	.	bias_e_value=4351920	bias_p_value=0.936636	fisher_strand_p_value=1	frequency=1.175404e-02	genotype_quality=1091.4	ks_quality_p_value=0.665829	log10_base_likelihood=-7.89922	log10_qual_likelihood_position_model=3.0807	log10_strand_likelihood_position_model=0.41593	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.91337e-06	ref_cov=124/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/130
RA	163	.	NC_007779	969494	0	C	A	bias_e_value=1.06595	bias_p_value=2.29418e-07	fisher_strand_p_value=1.19791e-08	frequency=5.978107e-02	genotype_quality=616.8	ks_quality_p_value=0.995146	log10_base_likelihood=-5.97973	log10_qual_likelihood_position_model=16.5796	log10_strand_likelihood_position_model=7.92158	new_cov=24/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=81/106	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/106
RA	164	.	NC_007779	987574	0	G	T	frequency=1	genotype_quality=786.5	new_cov=80/112	quality=786.5	ref_cov=0/0	tot_cov=80/112
RA	165	.	NC_007779	987916	0	T	G	bias_e_value=6.7796e-07	bias_p_value=1.45913e-13	fisher_strand_p_value=4.28933e-15	frequency=9.460402e-02	genotype_quality=551.7	ks_quality_p_value=0.998035	log10_base_likelihood=-9.3791	log10_qual_likelihood_position_model=22.5009	log10_strand_likelihood_position_model=14.3676	new_cov=21/0	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=20/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=41/116
RA	166	.	NC_007779	999606	0	A	T	bias_e_value=1144710	bias_p_value=0.246369	fisher_strand_p_value=0.0664659	frequency=3.061485e-02	genotype_quality=604.8	ks_quality_p_value=0.998388	log10_base_likelihood=-9.79437	log10_qual_likelihood_position_model=4.50038	log10_strand_likelihood_position_model=1.29589	new_cov=5/0	polymorphism_quality=4.4	quality=4.4	quality_position_model=7.72794e-06	ref_cov=84/71	reject=POLYMORPHISM_STRAND	tot_cov=89/72
RA	167	.	NC_007779	999607	0	A	C	bias_e_value=234459	bias_p_value=0.0504611	fisher_strand_p_value=0.00880225	frequency=4.384899e-02	genotype_quality=568.0	ks_quality_p_value=1	log10_base_likelihood=-13.5001	log10_qual_likelihood_position_model=8.24874	log10_strand_likelihood_position_model=2.1234	new_cov=8/0	polymorphism_quality=8.1	quality=8.1	quality_position_model=6.40303e-05	ref_cov=81/72	reject=POLYMORPHISM_STRAND	tot_cov=89/72
RA	168	.	NC_007779	999613	0	A	T	bias_e_value=275044	bias_p_value=0.0591959	fisher_strand_p_value=0.0106878	frequency=5.221653e-02	genotype_quality=608.4	ks_quality_p_value=1	log10_base_likelihood=-19.0724	log10_qual_likelihood_position_model=7.62792	log10_strand_likelihood_position_model=2.27436	new_cov=9/0	polymorphism_quality=13.8	quality=13.8	quality_position_model=3.52419e-11	ref_cov=85/71	reject=POLYMORPHISM_STRAND	tot_cov=95/71
RA	169	.	NC_007779	1006080	0	C	A	bias_e_value=11.2886	bias_p_value=2.42957e-06	fisher_strand_p_value=1.45084e-07	frequency=6.385565e-02	genotype_quality=641.3	ks_quality_p_value=1	log10_base_likelihood=-9.72784	log10_qual_likelihood_position_model=17.6505	log10_strand_likelihood_position_model=7.05044	new_cov=22/0	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=85/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/105
RA	170	.	NC_007779	1019391	0	A	.	bias_e_value=3936180	bias_p_value=0.847159	fisher_strand_p_value=0.597857	frequency=1.218605e-02	genotype_quality=989.0	ks_quality_p_value=0.837734	log10_base_likelihood=-8.1027	log10_qual_likelihood_position_model=1.93983	log10_strand_likelihood_position_model=0.459813	new_cov=1/2	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.29358e-07	ref_cov=131/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/114
RA	171	.	NC_007779	1035834	0	C	A	bias_e_value=17.1742	bias_p_value=3.69629e-06	fisher_strand_p_value=2.26776e-07	frequency=4.322720e-02	genotype_quality=763.3	ks_quality_p_value=1	log10_base_likelihood=-9.50668	log10_qual_likelihood_position_model=14.4336	log10_strand_likelihood_position_model=6.6444	new_cov=18/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=87/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/129
RA	172	.	NC_007779	1058914	0	A	C	bias_e_value=0.000545661	bias_p_value=1.17439e-10	fisher_strand_p_value=4.32284e-12	frequency=6.430912e-02	genotype_quality=621.0	ks_quality_p_value=1	log10_base_likelihood=-10.3264	log10_qual_likelihood_position_model=20.1516	log10_strand_likelihood_position_model=11.3642	new_cov=0/17	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=134/28	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/45
RA	173	.	NC_007779	1093686	0	T	C	frequency=1	genotype_quality=1128.8	new_cov=113/144	quality=1128.8	ref_cov=2/0	tot_cov=115/144
RA	174	.	NC_007779	1097580	0	C	T	bias_e_value=704431	bias_p_value=0.15161	fisher_strand_p_value=0.7804	frequency=2.206135e-01	genotype_quality=696.2	ks_quality_p_value=0.0445723	log10_base_likelihood=-190.313	log10_qual_likelihood_position_model=19.0929	log10_strand_likelihood_position_model=0.990115	new_cov=34/32	polymorphism_quality=185.5	quality=185.5	quality_position_model=7.2794e-173	ref_cov=113/119	tot_cov=147/151
RA	175	.	NC_007779	1097583	1	.	A	bias_e_value=2219080	bias_p_value=0.477598	fisher_strand_p_value=0.236807	frequency=7.117271e-03	genotype_quality=1010.9	ks_quality_p_value=0.733145	log10_base_likelihood=-8.17915	log10_qual_likelihood_position_model=1.50705	log10_strand_likelihood_position_model=0.625605	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=5.70771e-08	ref_cov=144/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=144/137
RA	176	.	NC_007779	1098028	0	T	.	bias_e_value=660948	bias_p_value=0.142252	fisher_strand_p_value=0.247544	frequency=1.074409e-02	genotype_quality=1122.6	ks_quality_p_value=0.129396	log10_base_likelihood=-8.01376	log10_qual_likelihood_position_model=1.87489	log10_strand_likelihood_position_model=0.884493	new_cov=3/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=3.77634e-07	ref_cov=139/137	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/137
RA	177	.	NC_007779	1116582	0	G	C	bias_e_value=6.71512e-07	bias_p_value=1.44525e-13	fisher_strand_p_value=4.24659e-15	frequency=1.025949e-01	genotype_quality=451.2	ks_quality_p_value=0.998204	log10_base_likelihood=-21.419	log10_qual_likelihood_position_model=13.569	log10_strand_likelihood_position_model=14.372	new_cov=0/14	polymorphism_quality=16.1	quality=16.1	quality_position_model=Inf	ref_cov=113/5	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/19
RA	178	.	NC_007779	1120197	0	C	A	bias_e_value=0.749823	bias_p_value=1.61379e-07	fisher_strand_p_value=8.23554e-09	frequency=7.327032e-02	genotype_quality=689.1	ks_quality_p_value=0.998963	log10_base_likelihood=-11.7036	log10_qual_likelihood_position_model=15.3886	log10_strand_likelihood_position_model=8.09693	new_cov=27/0	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=101/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/114
RA	179	.	NC_007779	1124696	1	.	C	bias_e_value=2427260	bias_p_value=0.522404	fisher_strand_p_value=0.225564	frequency=9.523392e-03	genotype_quality=1018.0	ks_quality_p_value=0.888091	log10_base_likelihood=-7.78676	log10_qual_likelihood_position_model=2.32015	log10_strand_likelihood_position_model=0.64673	new_cov=0/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.06896e-06	ref_cov=110/98	reject=POLYMORPHISM_STRAND	tot_cov=110/100
RA	180	.	NC_007779	1133574	0	G	C	bias_e_value=2761300	bias_p_value=0.594296	fisher_strand_p_value=0.248451	frequency=1.142120e-02	genotype_quality=1071.7	ks_quality_p_value=0.999638	log10_base_likelihood=-6.06072	log10_qual_likelihood_position_model=2.78423	log10_strand_likelihood_position_model=0.853562	new_cov=3/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=0.000363531	ref_cov=132/124	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=136/124
RA	181	.	NC_007779	1148417	0	C	A	bias_e_value=101.743	bias_p_value=2.18975e-05	fisher_strand_p_value=1.59465e-06	frequency=4.046249e-02	genotype_quality=770.4	ks_quality_p_value=0.953856	log10_base_likelihood=-7.73455	log10_qual_likelihood_position_model=20.466	log10_strand_likelihood_position_model=5.82586	new_cov=20/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=109/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/114
RA	182	.	NC_007779	1151485	0	C	A	bias_e_value=687.441	bias_p_value=0.000147953	fisher_strand_p_value=1.19988e-05	frequency=5.354738e-02	genotype_quality=719.7	ks_quality_p_value=1	log10_base_likelihood=-7.60366	log10_qual_likelihood_position_model=13.6614	log10_strand_likelihood_position_model=4.97647	new_cov=19/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=111/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/100
RA	183	.	NC_007779	1158848	0	T	G	bias_e_value=3.52534e-10	bias_p_value=7.58737e-17	fisher_strand_p_value=1.81292e-18	frequency=1.098700e-01	genotype_quality=622.1	ks_quality_p_value=1	log10_base_likelihood=-12.0941	log10_qual_likelihood_position_model=26.76	log10_strand_likelihood_position_model=17.7416	new_cov=38/0	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=46/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=84/124
RA	184	.	NC_007779	1164944	0	T	G	bias_e_value=0.871644	bias_p_value=1.87598e-07	fisher_strand_p_value=9.64159e-09	frequency=6.170797e-02	genotype_quality=429.9	ks_quality_p_value=1	log10_base_likelihood=-5.64097	log10_qual_likelihood_position_model=16.884	log10_strand_likelihood_position_model=8.01585	new_cov=13/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=22/90	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=35/90
RA	185	.	NC_007779	1170375	1	.	T	bias_e_value=2557110	bias_p_value=0.55035	fisher_strand_p_value=0.51228	frequency=1.010036e-02	genotype_quality=944.1	ks_quality_p_value=0.425907	log10_base_likelihood=-7.8926	log10_qual_likelihood_position_model=2.68804	log10_strand_likelihood_position_model=0.465976	new_cov=0/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.29921e-06	ref_cov=82/114	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=82/116
RA	186	.	NC_007779	1170573	0	C	T	frequency=1	genotype_quality=1092.7	new_cov=169/103	quality=1092.7	ref_cov=0/0	tot_cov=169/103
RA	187	.	NC_007779	1176573	0	A	G	bias_e_value=330121	bias_p_value=0.0710499	fisher_strand_p_value=0.0133681	frequency=3.062534e-02	genotype_quality=842.4	ks_quality_p_value=1	log10_base_likelihood=-7.42556	log10_qual_likelihood_position_model=12.5218	log10_strand_likelihood_position_model=2.02645	new_cov=1/8	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=121/98	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=122/106
RA	188	.	NC_007779	1177683	0	A	G	bias_e_value=0.462819	bias_p_value=9.96095e-08	fisher_strand_p_value=4.94981e-09	frequency=6.766844e-02	genotype_quality=563.4	ks_quality_p_value=1	log10_base_likelihood=-7.09149	log10_qual_likelihood_position_model=14.6714	log10_strand_likelihood_position_model=8.30541	new_cov=16/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=46/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=63/125
RA	189	.	NC_007779	1273399	0	T	G	bias_e_value=2.53248e-20	bias_p_value=5.4505e-27	fisher_strand_p_value=8.30128e-29	frequency=1.636381e-01	genotype_quality=648.8	ks_quality_p_value=1	log10_base_likelihood=-31.3012	log10_qual_likelihood_position_model=39.6847	log10_strand_likelihood_position_model=28.0809	new_cov=43/0	polymorphism_quality=26.1	quality=26.1	quality_position_model=Inf	ref_cov=22/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=65/146
RA	190	.	NC_007779	1275449	0	A	.	bias_e_value=1298740	bias_p_value=0.279519	fisher_strand_p_value=0.247212	frequency=1.126862e-02	genotype_quality=1070.6	ks_quality_p_value=0.319551	log10_base_likelihood=-7.93208	log10_qual_likelihood_position_model=2.26065	log10_strand_likelihood_position_model=0.898201	new_cov=0/3	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.19555e-06	ref_cov=132/131	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/134
RA	191	.	NC_007779	1280617	0	G	T	bias_e_value=363.431	bias_p_value=7.82189e-05	fisher_strand_p_value=6.00635e-06	frequency=4.435825e-02	genotype_quality=737.6	ks_quality_p_value=1	log10_base_likelihood=-6.84902	log10_qual_likelihood_position_model=15.7264	log10_strand_likelihood_position_model=5.26545	new_cov=0/18	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=107/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/120
RA	192	.	NC_007779	1281091	0	T	.	bias_e_value=3393070	bias_p_value=0.730269	fisher_strand_p_value=0.606633	frequency=1.265049e-02	genotype_quality=962.6	ks_quality_p_value=0.597445	log10_base_likelihood=-8.40217	log10_qual_likelihood_position_model=2.3749	log10_strand_likelihood_position_model=0.445889	new_cov=1/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.72923e-07	ref_cov=123/111	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/113
RA	193	.	NC_007779	1288364	0	G	A	deleted=1	frequency=1	genotype_quality=43.8	new_cov=9/6	quality=43.8	ref_cov=0/0	tot_cov=9/6
RA	194	.	NC_007779	1288370	0	A	G	deleted=1	frequency=1	genotype_quality=15.6	new_cov=5/2	quality=15.6	ref_cov=0/0	tot_cov=5/2
RA	195	.	NC_007779	1288462	0	T	C	deleted=1	frequency=1	genotype_quality=34.7	new_cov=9/6	quality=34.7	ref_cov=0/0	tot_cov=9/6
RA	196	.	NC_007779	1313924	0	C	A	bias_e_value=21.8625	bias_p_value=4.70532e-06	fisher_strand_p_value=2.93312e-07	frequency=5.073452e-02	genotype_quality=705.6	ks_quality_p_value=1	log10_base_likelihood=-8.5444	log10_qual_likelihood_position_model=12.9082	log10_strand_likelihood_position_model=6.53267	new_cov=12/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=44/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=56/126
RA	197	.	NC_007779	1318876	0	G	A	frequency=1	genotype_quality=928.2	new_cov=121/109	quality=928.2	ref_cov=0/0	tot_cov=121/109
RA	198	.	NC_007779	1336531	0	G	T	bias_e_value=311.622	bias_p_value=6.70684e-05	fisher_strand_p_value=5.0851e-06	frequency=6.643581e-02	genotype_quality=806.2	ks_quality_p_value=1	log10_base_likelihood=-9.01115	log10_qual_likelihood_position_model=22.8147	log10_strand_likelihood_position_model=5.44541	new_cov=2/27	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=113/116	reject=FISHER_STRAND_P_VALUE	tot_cov=115/143
RA	199	.	NC_007779	1343446	1	.	A	bias_e_value=4552580	bias_p_value=0.979822	fisher_strand_p_value=1	frequency=9.433746e-03	genotype_quality=1042.2	ks_quality_p_value=0.805958	log10_base_likelihood=-8.04874	log10_qual_likelihood_position_model=2.09432	log10_strand_likelihood_position_model=0.30037	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.45395e-07	ref_cov=111/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/100
RA	200	.	NC_007779	1352913	1	.	T	bias_e_value=1474270	bias_p_value=0.317299	fisher_strand_p_value=0.109804	frequency=1.169586e-02	genotype_quality=825.0	ks_quality_p_value=0.860078	log10_base_likelihood=-8.10195	log10_qual_likelihood_position_model=2.08323	log10_strand_likelihood_position_model=0.959382	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=6.02216e-07	ref_cov=55/114	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=57/114
RA	201	.	NC_007779	1352922	0	T	C	bias_e_value=82.2004	bias_p_value=1.76915e-05	fisher_strand_p_value=1.20966e-06	frequency=3.679276e-02	genotype_quality=502.8	ks_quality_p_value=1	log10_base_likelihood=-6.40507	log10_qual_likelihood_position_model=9.40786	log10_strand_likelihood_position_model=5.91734	new_cov=6/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=11/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=17/125
RA	202	.	NC_007779	1360909	0	G	T	bias_e_value=0.030417	bias_p_value=6.54645e-09	fisher_strand_p_value=2.84889e-10	frequency=7.156944e-02	genotype_quality=820.1	ks_quality_p_value=1	log10_base_likelihood=-14.621	log10_qual_likelihood_position_model=16.9236	log10_strand_likelihood_position_model=9.5698	new_cov=0/31	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=130/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/141
RA	203	.	NC_007779	1371749	1	.	T	bias_e_value=2195550	bias_p_value=0.472535	fisher_strand_p_value=0.453398	frequency=2.822590e-02	genotype_quality=1150.3	ks_quality_p_value=0.37657	log10_base_likelihood=-32.3872	log10_qual_likelihood_position_model=4.10288	log10_strand_likelihood_position_model=0.707098	new_cov=2/5	polymorphism_quality=27.2	quality=27.2	quality_position_model=8.07691e-30	ref_cov=114/127	reject=INDEL_HOMOPOLYMER	tot_cov=116/132
RA	204	.	NC_007779	1378219	0	A	C	bias_e_value=8.00181e-11	bias_p_value=1.72218e-17	fisher_strand_p_value=3.97088e-19	frequency=8.818340e-02	genotype_quality=771.2	ks_quality_p_value=1	log10_base_likelihood=-13.4543	log10_qual_likelihood_position_model=45.0045	log10_strand_likelihood_position_model=18.4011	new_cov=0/39	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=151/58	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=151/97
RA	205	.	NC_007779	1385794	1	.	T	bias_e_value=4245040	bias_p_value=0.913633	fisher_strand_p_value=1	frequency=7.812500e-03	genotype_quality=1267.6	ks_quality_p_value=0.614303	log10_base_likelihood=-7.92657	log10_qual_likelihood_position_model=2.22372	log10_strand_likelihood_position_model=0.30103	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.65479e-07	ref_cov=119/135	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=120/136
RA	206	.	NC_007779	1405508	0	G	T	bias_e_value=3.16357	bias_p_value=6.80874e-07	fisher_strand_p_value=3.90651e-08	frequency=6.462812e-02	genotype_quality=507.9	ks_quality_p_value=0.963178	log10_base_likelihood=-14.7802	log10_qual_likelihood_position_model=11.1902	log10_strand_likelihood_position_model=7.40821	new_cov=9/0	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=15/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=24/112
RA	207	.	NC_007779	1409137	0	G	T	bias_e_value=2.33412e-10	bias_p_value=5.02357e-17	fisher_strand_p_value=1.18834e-18	frequency=1.597481e-01	genotype_quality=685.0	ks_quality_p_value=1	log10_base_likelihood=-32.9667	log10_qual_likelihood_position_model=22.889	log10_strand_likelihood_position_model=17.9251	new_cov=0/50	polymorphism_quality=27.8	quality=27.8	quality_position_model=Inf	ref_cov=127/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/126
RA	208	.	NC_007779	1412694	0	C	A	bias_e_value=0.00623784	bias_p_value=1.34253e-09	fisher_strand_p_value=5.45018e-11	frequency=7.349253e-02	genotype_quality=715.9	ks_quality_p_value=1	log10_base_likelihood=-8.58582	log10_qual_likelihood_position_model=18.6724	log10_strand_likelihood_position_model=10.2636	new_cov=26/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=72/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/126
RA	209	.	NC_007779	1421185	0	T	C	deleted=1	frequency=1	genotype_quality=0.9	new_cov=1/0	quality=0.9	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	210	.	NC_007779	1421217	0	G	A	deleted=1	frequency=1	genotype_quality=0.7	new_cov=1/0	quality=0.7	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	211	.	NC_007779	1435785	0	A	T	deleted=1	frequency=1	genotype_quality=0.8	new_cov=1/0	quality=0.8	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	212	.	NC_007779	1435787	0	G	T	deleted=1	frequency=1	genotype_quality=1.3	new_cov=1/0	quality=1.3	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	213	.	NC_007779	1437447	0	G	C	bias_e_value=0.0117306	bias_p_value=2.52471e-09	fisher_strand_p_value=1.0531e-10	frequency=6.556273e-02	genotype_quality=694.9	ks_quality_p_value=1	log10_base_likelihood=-10.1326	log10_qual_likelihood_position_model=15.7381	log10_strand_likelihood_position_model=9.97753	new_cov=0/19	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=145/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/71
RA	214	.	NC_007779	1438937	0	T	.	bias_e_value=1816450	bias_p_value=0.390943	fisher_strand_p_value=0.133778	frequency=1.745510e-02	genotype_quality=906.9	ks_quality_p_value=0.95612	log10_base_likelihood=-10.9117	log10_qual_likelihood_position_model=3.99308	log10_strand_likelihood_position_model=1.00593	new_cov=4/0	polymorphism_quality=5.5	quality=5.5	quality_position_model=7.84914e-08	ref_cov=125/100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/100
RA	215	.	NC_007779	1442205	0	G	C	bias_e_value=1.07067	bias_p_value=2.30433e-07	fisher_strand_p_value=1.19766e-08	frequency=4.081917e-02	genotype_quality=657.5	ks_quality_p_value=1	log10_base_likelihood=-6.06525	log10_qual_likelihood_position_model=12.3511	log10_strand_likelihood_position_model=7.92167	new_cov=0/10	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=142/22	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=142/32
RA	216	.	NC_007779	1483588	0	G	A	frequency=1	genotype_quality=720.2	new_cov=144/37	quality=720.2	ref_cov=0/0	tot_cov=144/37
RA	217	.	NC_007779	1493621	0	T	C	bias_e_value=1037.84	bias_p_value=0.000223368	fisher_strand_p_value=1.87994e-05	frequency=3.990173e-02	genotype_quality=747.6	ks_quality_p_value=1	log10_base_likelihood=-7.64518	log10_qual_likelihood_position_model=12.2012	log10_strand_likelihood_position_model=4.72586	new_cov=0/12	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=132/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/97
RA	218	.	NC_007779	1496775	0	T	.	frequency=1	genotype_quality=1304.7	new_cov=126/139	quality=1304.7	ref_cov=1/0	tot_cov=127/139
RA	219	.	NC_007779	1515709	0	A	G	bias_e_value=8.44629e-07	bias_p_value=1.81784e-13	fisher_strand_p_value=5.36899e-15	frequency=1.412721e-01	genotype_quality=620.4	ks_quality_p_value=1	log10_base_likelihood=-25.6938	log10_qual_likelihood_position_model=37.918	log10_strand_likelihood_position_model=14.2701	new_cov=39/0	polymorphism_quality=20.5	quality=20.5	quality_position_model=Inf	ref_cov=74/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/123
RA	220	.	NC_007779	1527474	0	G	A	bias_e_value=0.292859	bias_p_value=6.30301e-08	fisher_strand_p_value=3.05894e-09	frequency=1.162615e-01	genotype_quality=745.5	ks_quality_p_value=1	log10_base_likelihood=-26.586	log10_qual_likelihood_position_model=31.0648	log10_strand_likelihood_position_model=8.58335	new_cov=1/31	polymorphism_quality=21.4	quality=21.4	quality_position_model=Inf	ref_cov=120/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/128
RA	221	.	NC_007779	1527479	0	C	A	bias_e_value=170.7	bias_p_value=3.67386e-05	fisher_strand_p_value=3.15139e-06	frequency=5.150414e-02	genotype_quality=843.5	ks_quality_p_value=0.842384	log10_base_likelihood=-7.16504	log10_qual_likelihood_position_model=22.0277	log10_strand_likelihood_position_model=5.5015	new_cov=0/17	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=126/105	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/122
RA	222	.	NC_007779	1537499	0	A	G	bias_e_value=1.20733	bias_p_value=2.59846e-07	fisher_strand_p_value=1.35949e-08	frequency=8.100891e-02	genotype_quality=605.0	ks_quality_p_value=1	log10_base_likelihood=-9.98772	log10_qual_likelihood_position_model=15.734	log10_strand_likelihood_position_model=7.86663	new_cov=23/0	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=81/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/111
RA	223	.	NC_007779	1552377	0	A	C	bias_e_value=2.40201e-10	bias_p_value=5.1697e-17	fisher_strand_p_value=1.22375e-18	frequency=1.293864e-01	genotype_quality=615.1	ks_quality_p_value=1	log10_base_likelihood=-13.6277	log10_qual_likelihood_position_model=29.3152	log10_strand_likelihood_position_model=17.9123	new_cov=0/40	polymorphism_quality=8.3	quality=8.3	quality_position_model=Inf	ref_cov=123/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/89
RA	224	.	NC_007779	1595838	1	.	C	bias_e_value=3895510	bias_p_value=0.838406	fisher_strand_p_value=1	frequency=9.259224e-03	genotype_quality=1047.4	ks_quality_p_value=0.488411	log10_base_likelihood=-8.71634	log10_qual_likelihood_position_model=1.27209	log10_strand_likelihood_position_model=0.302754	new_cov=1/1	polymorphism_quality=3.3	quality=3.3	quality_position_model=4.24019e-09	ref_cov=97/117	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/118
RA	225	.	NC_007779	1595839	0	C	.	bias_e_value=1035050	bias_p_value=0.222767	fisher_strand_p_value=0.0923715	frequency=1.356506e-02	genotype_quality=886.2	ks_quality_p_value=0.626468	log10_base_likelihood=-8.19725	log10_qual_likelihood_position_model=2.46199	log10_strand_likelihood_position_model=1.03446	new_cov=3/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.42256e-06	ref_cov=97/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=101/120
RA	226	.	NC_007779	1595962	1	.	C	bias_e_value=4468210	bias_p_value=0.961663	fisher_strand_p_value=1	frequency=9.661674e-03	genotype_quality=992.5	ks_quality_p_value=0.736198	log10_base_likelihood=-8.37107	log10_qual_likelihood_position_model=1.73111	log10_strand_likelihood_position_model=0.298937	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.83288e-08	ref_cov=102/103	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=103/104
RA	227	.	NC_007779	1615814	0	C	A	frequency=1	genotype_quality=895.2	new_cov=95/146	quality=895.2	ref_cov=0/0	tot_cov=95/146
RA	228	.	NC_007779	1626063	1	.	T	bias_e_value=4411550	bias_p_value=0.949468	fisher_strand_p_value=1	frequency=1.363659e-02	genotype_quality=1072.8	ks_quality_p_value=0.699428	log10_base_likelihood=-13.0671	log10_qual_likelihood_position_model=1.83629	log10_strand_likelihood_position_model=0.416237	new_cov=2/1	polymorphism_quality=7.7	quality=7.7	quality_position_model=7.38252e-13	ref_cov=110/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/108
RA	229	.	NC_007779	1628027	0	G	T	bias_e_value=869.434	bias_p_value=0.000187123	fisher_strand_p_value=1.67435e-05	frequency=1.355176e-01	genotype_quality=314.9	ks_quality_p_value=0.925548	log10_base_likelihood=-23.4713	log10_qual_likelihood_position_model=16.9866	log10_strand_likelihood_position_model=4.80366	new_cov=16/0	polymorphism_quality=18.2	quality=18.2	quality_position_model=0.00235006	ref_cov=43/51	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=59/51
RA	230	.	NC_007779	1641155	0	T	.	bias_e_value=3085910	bias_p_value=0.664161	fisher_strand_p_value=0.370069	frequency=1.952171e-02	genotype_quality=1004.2	ks_quality_p_value=0.817346	log10_base_likelihood=-14.5223	log10_qual_likelihood_position_model=2.93515	log10_strand_likelihood_position_model=0.809661	new_cov=1/4	polymorphism_quality=9.2	quality=9.2	quality_position_model=8.05392e-13	ref_cov=127/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/128
RA	231	.	NC_007779	1651009	0	T	G	bias_e_value=0.192715	bias_p_value=4.14767e-08	fisher_strand_p_value=1.97088e-09	frequency=5.701780e-02	genotype_quality=583.0	ks_quality_p_value=1	log10_base_likelihood=-5.68024	log10_qual_likelihood_position_model=17.2325	log10_strand_likelihood_position_model=8.70534	new_cov=16/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=37/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=53/113
RA	232	.	NC_007779	1660545	0	G	T	bias_e_value=381.919	bias_p_value=8.2198e-05	fisher_strand_p_value=6.34235e-06	frequency=3.982162e-02	genotype_quality=776.9	ks_quality_p_value=0.999325	log10_base_likelihood=-6.16073	log10_qual_likelihood_position_model=12.5593	log10_strand_likelihood_position_model=5.24053	new_cov=0/18	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=113/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/127
RA	233	.	NC_007779	1669599	0	C	.	frequency=1	genotype_quality=1074.4	new_cov=111/104	quality=1074.4	ref_cov=1/0	tot_cov=112/104
RA	234	.	NC_007779	1671093	0	G	T	bias_e_value=1996.32	bias_p_value=0.000429655	fisher_strand_p_value=3.84811e-05	frequency=3.882313e-02	genotype_quality=775.3	ks_quality_p_value=1	log10_base_likelihood=-6.32645	log10_qual_likelihood_position_model=13.599	log10_strand_likelihood_position_model=4.63553	new_cov=0/15	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=115/103	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/118
RA	235	.	NC_007779	1677110	0	G	T	bias_e_value=0.36997	bias_p_value=7.96263e-08	fisher_strand_p_value=5.32506e-09	frequency=7.551718e-02	genotype_quality=730.0	ks_quality_p_value=0.734457	log10_base_likelihood=-11.422	log10_qual_likelihood_position_model=28.1133	log10_strand_likelihood_position_model=8.32866	new_cov=0/29	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=113/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/135
RA	236	.	NC_007779	1681402	0	T	G	bias_e_value=6.91648e-05	bias_p_value=1.48859e-11	fisher_strand_p_value=5.07904e-13	frequency=7.443762e-02	genotype_quality=706.1	ks_quality_p_value=1	log10_base_likelihood=-9.9953	log10_qual_likelihood_position_model=27.6106	log10_strand_likelihood_position_model=12.2942	new_cov=29/0	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=63/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=92/128
RA	237	.	NC_007779	1693355	0	C	A	bias_e_value=71.6531	bias_p_value=1.54214e-05	fisher_strand_p_value=1.04393e-06	frequency=3.971672e-02	genotype_quality=921.9	ks_quality_p_value=1	log10_base_likelihood=-7.00287	log10_qual_likelihood_position_model=16.7587	log10_strand_likelihood_position_model=5.98133	new_cov=18/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=109/136	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/136
RA	238	.	NC_007779	1705209	1	.	T	bias_e_value=3861420	bias_p_value=0.831068	fisher_strand_p_value=0.513767	frequency=1.063728e-02	genotype_quality=896.6	ks_quality_p_value=0.931002	log10_base_likelihood=-7.35024	log10_qual_likelihood_position_model=2.64291	log10_strand_likelihood_position_model=0.459284	new_cov=2/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=4.22732e-06	ref_cov=109/77	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=111/77
RA	239	.	NC_007779	1705210	0	G	T	bias_e_value=33961.3	bias_p_value=0.00730927	fisher_strand_p_value=0.000913913	frequency=6.049967e-02	genotype_quality=688.4	ks_quality_p_value=1	log10_base_likelihood=-13.1382	log10_qual_likelihood_position_model=15.6743	log10_strand_likelihood_position_model=3.09354	new_cov=13/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=Inf	ref_cov=100/78	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/78
RA	240	.	NC_007779	1705224	0	G	T	bias_e_value=10195.8	bias_p_value=0.00219439	fisher_strand_p_value=0.000234491	frequency=6.799459e-02	genotype_quality=691.0	ks_quality_p_value=1	log10_base_likelihood=-9.92859	log10_qual_likelihood_position_model=16.9916	log10_strand_likelihood_position_model=3.79175	new_cov=16/0	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=95/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/75
RA	241	.	NC_007779	1722510	0	G	T	bias_e_value=28509.6	bias_p_value=0.00613594	fisher_strand_p_value=0.000748522	frequency=2.587318e-02	genotype_quality=916.5	ks_quality_p_value=1	log10_base_likelihood=-6.46453	log10_qual_likelihood_position_model=14.4621	log10_strand_likelihood_position_model=3.30261	new_cov=0/13	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=116/139	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/154
RA	242	.	NC_007779	1759412	0	T	.	bias_e_value=4235610	bias_p_value=0.911604	fisher_strand_p_value=1	frequency=1.275921e-02	genotype_quality=920.0	ks_quality_p_value=0.610168	log10_base_likelihood=-8.44377	log10_qual_likelihood_position_model=1.37185	log10_strand_likelihood_position_model=0.39292	new_cov=1/2	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.26948e-08	ref_cov=107/125	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/127
RA	243	.	NC_007779	1763744	0	C	A	bias_e_value=0.000925775	bias_p_value=1.99249e-10	fisher_strand_p_value=7.49193e-12	frequency=7.148457e-02	genotype_quality=832.0	ks_quality_p_value=0.999137	log10_base_likelihood=-14.6051	log10_qual_likelihood_position_model=18.8456	log10_strand_likelihood_position_model=11.1254	new_cov=31/0	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=102/151	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/152
RA	244	.	NC_007779	1769840	0	C	.	bias_e_value=1640030	bias_p_value=0.352972	fisher_strand_p_value=0.243577	frequency=1.030350e-02	genotype_quality=787.3	ks_quality_p_value=0.451923	log10_base_likelihood=-5.60084	log10_qual_likelihood_position_model=1.29142	log10_strand_likelihood_position_model=0.613364	new_cov=0/2	polymorphism_quality=0.0	quality=0.0	quality_position_model=1.60558e-05	ref_cov=98/94	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/96
RA	245	.	NC_007779	1801443	0	A	C	bias_e_value=0.896648	bias_p_value=1.9298e-07	fisher_strand_p_value=9.9334e-09	frequency=5.686378e-02	genotype_quality=629.1	ks_quality_p_value=1	log10_base_likelihood=-7.46656	log10_qual_likelihood_position_model=23.2141	log10_strand_likelihood_position_model=8.0029	new_cov=0/22	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=109/72	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=109/94
RA	246	.	NC_007779	1801456	0	C	G	bias_e_value=8652.26	bias_p_value=0.00186217	fisher_strand_p_value=0.000205316	frequency=3.935051e-02	genotype_quality=795.5	ks_quality_p_value=0.950543	log10_base_likelihood=-6.54681	log10_qual_likelihood_position_model=15.2321	log10_strand_likelihood_position_model=3.79255	new_cov=0/13	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=111/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/122
RA	247	.	NC_007779	1820099	0	A	C	bias_e_value=0.254632	bias_p_value=5.48029e-08	fisher_strand_p_value=2.64083e-09	frequency=7.314634e-02	genotype_quality=677.5	ks_quality_p_value=1	log10_base_likelihood=-8.42292	log10_qual_likelihood_position_model=21.4026	log10_strand_likelihood_position_model=8.57826	new_cov=0/20	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=125/64	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/85
RA	248	.	NC_007779	1832491	0	G	T	bias_e_value=40.5226	bias_p_value=8.72142e-06	fisher_strand_p_value=5.68919e-07	frequency=5.216646e-02	genotype_quality=738.0	ks_quality_p_value=0.996543	log10_base_likelihood=-7.84096	log10_qual_likelihood_position_model=16.773	log10_strand_likelihood_position_model=6.29064	new_cov=0/21	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=110/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/122
RA	249	.	NC_007779	1840899	0	G	T	bias_e_value=36.8987	bias_p_value=7.94147e-06	fisher_strand_p_value=5.1331e-07	frequency=4.727888e-02	genotype_quality=704.0	ks_quality_p_value=0.99922	log10_base_likelihood=-8.45193	log10_qual_likelihood_position_model=14.3543	log10_strand_likelihood_position_model=6.28962	new_cov=0/18	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=119/87	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/107
RA	250	.	NC_007779	1844073	0	G	A	frequency=1	genotype_quality=1144.9	new_cov=155/131	quality=1144.9	ref_cov=0/0	tot_cov=155/131
RA	251	.	NC_007779	1846633	1	.	A	bias_e_value=764058	bias_p_value=0.164443	fisher_strand_p_value=0.23364	frequency=7.812500e-03	genotype_quality=1271.2	ks_quality_p_value=0.1655	log10_base_likelihood=-8.20236	log10_qual_likelihood_position_model=1.26187	log10_strand_likelihood_position_model=0.631453	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.05663e-08	ref_cov=132/122	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=132/124
RA	252	.	NC_007779	1854108	0	A	.	bias_e_value=4552150	bias_p_value=0.979729	fisher_strand_p_value=1	frequency=1.312923e-02	genotype_quality=905.4	ks_quality_p_value=0.805528	log10_base_likelihood=-7.35922	log10_qual_likelihood_position_model=3.59972	log10_strand_likelihood_position_model=0.370831	new_cov=2/1	polymorphism_quality=1.9	quality=1.9	quality_position_model=3.38902e-05	ref_cov=130/95	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=132/96
RA	253	.	NC_007779	1861399	0	A	C	bias_e_value=9.82915e-07	bias_p_value=2.11546e-13	fisher_strand_p_value=6.27699e-15	frequency=8.186960e-02	genotype_quality=573.9	ks_quality_p_value=1	log10_base_likelihood=-7.75322	log10_qual_likelihood_position_model=25.3962	log10_strand_likelihood_position_model=14.2063	new_cov=1/28	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=120/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/61
RA	254	.	NC_007779	1865524	1	.	T	bias_e_value=4513320	bias_p_value=0.971373	fisher_strand_p_value=1	frequency=8.474350e-03	genotype_quality=1162.7	ks_quality_p_value=0.770469	log10_base_likelihood=-8.46183	log10_qual_likelihood_position_model=1.62472	log10_strand_likelihood_position_model=0.300717	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.78096e-08	ref_cov=124/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/111
RA	255	.	NC_007779	1879404	0	A	C	bias_e_value=1.35831e-07	bias_p_value=2.9234e-14	fisher_strand_p_value=8.17971e-16	frequency=5.638409e-02	genotype_quality=705.3	ks_quality_p_value=1	log10_base_likelihood=-8.78795	log10_qual_likelihood_position_model=24.0944	log10_strand_likelihood_position_model=15.0873	new_cov=0/20	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=154/23	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/43
RA	256	.	NC_007779	1879996	0	G	T	bias_e_value=21870.1	bias_p_value=0.00470696	fisher_strand_p_value=0.00055385	frequency=3.313541e-02	genotype_quality=835.4	ks_quality_p_value=1	log10_base_likelihood=-5.71694	log10_qual_likelihood_position_model=10.2783	log10_strand_likelihood_position_model=3.25661	new_cov=9/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=95/130	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/130
RA	257	.	NC_007779	1881068	1	.	T	bias_e_value=918345	bias_p_value=0.197649	fisher_strand_p_value=0.105089	frequency=1.119423e-02	genotype_quality=1290.6	ks_quality_p_value=0.469015	log10_base_likelihood=-12.4864	log10_qual_likelihood_position_model=4.03303	log10_strand_likelihood_position_model=0.978443	new_cov=3/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=1.92558e-09	ref_cov=124/141	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=127/141
RA	258	.	NC_007779	1889729	1	.	A	bias_e_value=4500310	bias_p_value=0.968573	fisher_strand_p_value=1	frequency=1.181126e-02	genotype_quality=1233.9	ks_quality_p_value=0.760005	log10_base_likelihood=-12.7026	log10_qual_likelihood_position_model=2.8915	log10_strand_likelihood_position_model=0.399248	new_cov=2/1	polymorphism_quality=7.3	quality=7.3	quality_position_model=1.99487e-11	ref_cov=133/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=135/119
RA	259	.	NC_007779	1906475	1	.	C	bias_e_value=433179	bias_p_value=0.0932304	fisher_strand_p_value=0.0773899	frequency=1.260471e-02	genotype_quality=1145.2	ks_quality_p_value=0.242019	log10_base_likelihood=-13.277	log10_qual_likelihood_position_model=2.25474	log10_strand_likelihood_position_model=1.11132	new_cov=3/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=6.16669e-12	ref_cov=99/136	reject=POLYMORPHISM_STRAND	tot_cov=102/136
RA	260	.	NC_007779	1906477	1	.	G	bias_e_value=32926.3	bias_p_value=0.00708652	fisher_strand_p_value=0.000889225	frequency=3.286362e-02	genotype_quality=981.8	ks_quality_p_value=0.992055	log10_base_likelihood=-30.1735	log10_qual_likelihood_position_model=8.38921	log10_strand_likelihood_position_model=3.05099	new_cov=7/0	polymorphism_quality=25.0	quality=25.0	quality_position_model=6.81704e-21	ref_cov=73/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,INDEL_HOMOPOLYMER	tot_cov=80/133
RA	261	.	NC_007779	1906488	0	G	T	bias_e_value=4382	bias_p_value=0.00094311	fisher_strand_p_value=9.16186e-05	frequency=3.335857e-02	genotype_quality=767.2	ks_quality_p_value=0.999569	log10_base_likelihood=-5.85108	log10_qual_likelihood_position_model=9.76513	log10_strand_likelihood_position_model=4.03802	new_cov=9/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=68/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=77/132
RA	262	.	NC_007779	1911198	0	G	T	bias_e_value=4457.16	bias_p_value=0.000959285	fisher_strand_p_value=9.33562e-05	frequency=3.121853e-02	genotype_quality=944.0	ks_quality_p_value=0.999617	log10_base_likelihood=-6.1142	log10_qual_likelihood_position_model=14.6397	log10_strand_likelihood_position_model=4.18797	new_cov=0/16	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=131/150	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/166
RA	263	.	NC_007779	1918872	0	T	A	frequency=1	genotype_quality=1022.4	new_cov=145/122	quality=1022.4	ref_cov=0/0	tot_cov=145/125
RA	264	.	NC_007779	1920746	0	G	T	bias_e_value=0.15611	bias_p_value=3.35986e-08	fisher_strand_p_value=1.57993e-09	frequency=6.042528e-02	genotype_quality=755.2	ks_quality_p_value=1	log10_base_likelihood=-9.56946	log10_qual_likelihood_position_model=14.9176	log10_strand_likelihood_position_model=8.80136	new_cov=0/21	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=136/73	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/94
RA	265	.	NC_007779	1938748	1	.	A	bias_e_value=3881140	bias_p_value=0.835312	fisher_strand_p_value=1	frequency=7.575989e-03	genotype_quality=1286.1	ks_quality_p_value=0.48412	log10_base_likelihood=-8.24349	log10_qual_likelihood_position_model=1.32888	log10_strand_likelihood_position_model=0.308474	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.50914e-08	ref_cov=112/150	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=113/151
RA	266	.	NC_007779	1971508	0	A	C	bias_e_value=1.80909e-08	bias_p_value=3.89358e-15	fisher_strand_p_value=1.03299e-16	frequency=1.474190e-01	genotype_quality=393.8	ks_quality_p_value=0.99683	log10_base_likelihood=-20.7007	log10_qual_likelihood_position_model=20.9682	log10_strand_likelihood_position_model=15.9859	new_cov=0/21	polymorphism_quality=15.4	quality=15.4	quality_position_model=Inf	ref_cov=95/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=95/31
RA	267	.	NC_007779	1973476	0	G	A	frequency=1	genotype_quality=738.1	new_cov=99/93	quality=738.1	ref_cov=0/0	tot_cov=99/93
RA	268	.	NC_007779	1978921	1	.	A	bias_e_value=4646010	bias_p_value=0.999932	fisher_strand_p_value=1	frequency=8.297920e-03	genotype_quality=1175.6	ks_quality_p_value=0.988332	log10_base_likelihood=-7.75618	log10_qual_likelihood_position_model=2.30284	log10_strand_likelihood_position_model=0.29983	new_cov=1/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=4.80676e-07	ref_cov=115/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/125
RA	269	.	NC_007779	1993891	0	A	C	bias_e_value=58.6084	bias_p_value=1.26139e-05	fisher_strand_p_value=8.41603e-07	frequency=4.276657e-02	genotype_quality=860.2	ks_quality_p_value=1	log10_base_likelihood=-7.10736	log10_qual_likelihood_position_model=21.3378	log10_strand_likelihood_position_model=6.07489	new_cov=0/19	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=126/106	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/125
RA	270	.	NC_007779	1993894	0	A	C	bias_e_value=0.158266	bias_p_value=3.40626e-08	fisher_strand_p_value=1.60284e-09	frequency=7.320356e-02	genotype_quality=885.9	ks_quality_p_value=1	log10_base_likelihood=-21.9123	log10_qual_likelihood_position_model=26.3809	log10_strand_likelihood_position_model=9.00714	new_cov=0/28	polymorphism_quality=16.6	quality=16.6	quality_position_model=Inf	ref_cov=134/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=134/136
RA	271	.	NC_007779	2004055	0	A	C	bias_e_value=1.36257e-26	bias_p_value=2.93257e-33	fisher_strand_p_value=3.65224e-35	frequency=2.411704e-01	genotype_quality=589.5	ks_quality_p_value=1	log10_base_likelihood=-55.7883	log10_qual_likelihood_position_model=45.7671	log10_strand_likelihood_position_model=34.4374	new_cov=0/73	polymorphism_quality=50.7	quality=50.7	quality_position_model=Inf	ref_cov=139/38	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/111
RA	272	.	NC_007779	2005401	0	C	T	frequency=1	genotype_quality=1137.8	new_cov=136/141	quality=1137.8	ref_cov=0/0	tot_cov=136/141
RA	273	.	NC_007779	2005920	1	.	A	bias_e_value=2699760	bias_p_value=0.581051	fisher_strand_p_value=0.240221	frequency=7.167816e-03	genotype_quality=1384.8	ks_quality_p_value=0.994838	log10_base_likelihood=-7.28923	log10_qual_likelihood_position_model=2.35562	log10_strand_likelihood_position_model=0.61939	new_cov=0/2	polymorphism_quality=1.8	quality=1.8	quality_position_model=3.60425e-06	ref_cov=142/135	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/137
RA	274	.	NC_007779	2023811	0	C	A	bias_e_value=600.64	bias_p_value=0.000129272	fisher_strand_p_value=1.03604e-05	frequency=5.963230e-02	genotype_quality=755.0	ks_quality_p_value=1	log10_base_likelihood=-9.82819	log10_qual_likelihood_position_model=21.1712	log10_strand_likelihood_position_model=5.15276	new_cov=20/1	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=101/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/116
RA	275	.	NC_007779	2081843	0	C	A	bias_e_value=1.81291	bias_p_value=3.90181e-07	fisher_strand_p_value=2.08828e-08	frequency=3.137970e-02	genotype_quality=1019.0	ks_quality_p_value=1	log10_base_likelihood=-8.69075	log10_qual_likelihood_position_model=14.6249	log10_strand_likelihood_position_model=7.68021	new_cov=18/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=96/176	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/176
RA	276	.	NC_007779	2095582	0	G	T	bias_e_value=65.5941	bias_p_value=1.41174e-05	fisher_strand_p_value=9.49562e-07	frequency=6.162262e-02	genotype_quality=643.1	ks_quality_p_value=1	log10_base_likelihood=-7.36195	log10_qual_likelihood_position_model=13.2635	log10_strand_likelihood_position_model=6.1189	new_cov=0/22	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=98/98	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/121
RA	277	.	NC_007779	2098223	0	T	G	bias_e_value=0.000396356	bias_p_value=8.53052e-11	fisher_strand_p_value=3.10213e-12	frequency=6.442881e-02	genotype_quality=713.7	ks_quality_p_value=1	log10_base_likelihood=-7.30054	log10_qual_likelihood_position_model=22.8525	log10_strand_likelihood_position_model=11.5083	new_cov=30/0	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=76/129	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/129
RA	278	.	NC_007779	2101941	0	A	.	bias_e_value=4319460	bias_p_value=0.929649	fisher_strand_p_value=1	frequency=1.249313e-02	genotype_quality=976.4	ks_quality_p_value=0.649166	log10_base_likelihood=-8.39809	log10_qual_likelihood_position_model=1.27485	log10_strand_likelihood_position_model=0.41028	new_cov=2/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.17119e-08	ref_cov=122/115	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/116
RA	279	.	NC_007779	2107010	1	.	A	bias_e_value=898638	bias_p_value=0.193408	fisher_strand_p_value=0.564342	frequency=1.265812e-02	genotype_quality=1148.1	ks_quality_p_value=0.0848526	log10_base_likelihood=-12.7412	log10_qual_likelihood_position_model=2.83137	log10_strand_likelihood_position_model=0.54466	new_cov=1/2	polymorphism_quality=7.4	quality=7.4	quality_position_model=2.22656e-11	ref_cov=142/92	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/94
RA	280	.	NC_007779	2128126	0	T	A	bias_e_value=589141	bias_p_value=0.126797	fisher_strand_p_value=0.113685	frequency=1.323414e-02	genotype_quality=887.2	ks_quality_p_value=0.243057	log10_base_likelihood=-7.1074	log10_qual_likelihood_position_model=3.06567	log10_strand_likelihood_position_model=0.944296	new_cov=3/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=6.89957e-05	ref_cov=107/116	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=111/116
RA	281	.	NC_007779	2156661	0	C	A	bias_e_value=4.95807	bias_p_value=1.06709e-06	fisher_strand_p_value=6.0563e-08	frequency=5.810070e-02	genotype_quality=770.1	ks_quality_p_value=1	log10_base_likelihood=-7.65233	log10_qual_likelihood_position_model=19.3718	log10_strand_likelihood_position_model=7.26017	new_cov=28/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=123/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=153/112
RA	282	.	NC_007779	2161945	1	.	A	bias_e_value=3945320	bias_p_value=0.849126	fisher_strand_p_value=0.503876	frequency=9.258270e-03	genotype_quality=1064.5	ks_quality_p_value=0.999654	log10_base_likelihood=-7.009	log10_qual_likelihood_position_model=3.88874	log10_strand_likelihood_position_model=0.512164	new_cov=2/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=0.000229782	ref_cov=118/96	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=120/96
RA	283	.	NC_007779	2170094	0	C	A	frequency=1	genotype_quality=1111.5	new_cov=124/147	quality=1111.5	ref_cov=0/0	tot_cov=124/148
RA	284	.	NC_007779	2174678	0	C	G	bias_e_value=9637.1	bias_p_value=0.00207413	fisher_strand_p_value=0.000220765	frequency=4.059029e-02	genotype_quality=531.8	ks_quality_p_value=0.997244	log10_base_likelihood=-6.07742	log10_qual_likelihood_position_model=7.82832	log10_strand_likelihood_position_model=3.65607	new_cov=0/7	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=100/39	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/46
RA	285	.	NC_007779	2178210	0	A	C	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=2.347088e-02	genotype_quality=1175.9	ks_quality_p_value=0.999341	log10_base_likelihood=-14.0057	log10_qual_likelihood_position_model=8.08799	log10_strand_likelihood_position_model=0.549038	new_cov=3/4	polymorphism_quality=8.6	quality=8.6	quality_position_model=2.87361e-07	ref_cov=141/147	tot_cov=144/151
RA	286	.	NC_007779	2211749	0	G	C	bias_e_value=4.26506	bias_p_value=9.17941e-07	fisher_strand_p_value=5.16726e-08	frequency=5.005074e-02	genotype_quality=658.9	ks_quality_p_value=0.999179	log10_base_likelihood=-8.80246	log10_qual_likelihood_position_model=15.7953	log10_strand_likelihood_position_model=7.28674	new_cov=12/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=36/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=48/129
RA	287	.	NC_007779	2213136	0	G	T	bias_e_value=49.8341	bias_p_value=1.07255e-05	fisher_strand_p_value=7.07972e-07	frequency=6.333828e-02	genotype_quality=683.4	ks_quality_p_value=0.999201	log10_base_likelihood=-18.7471	log10_qual_likelihood_position_model=15.981	log10_strand_likelihood_position_model=6.14998	new_cov=13/0	polymorphism_quality=13.4	quality=13.4	quality_position_model=Inf	ref_cov=54/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=67/120
RA	288	.	NC_007779	2226024	0	C	A	bias_e_value=40.2009	bias_p_value=8.65218e-06	fisher_strand_p_value=5.62139e-07	frequency=4.195786e-02	genotype_quality=821.2	ks_quality_p_value=1	log10_base_likelihood=-6.29672	log10_qual_likelihood_position_model=14.1049	log10_strand_likelihood_position_model=6.25016	new_cov=19/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=112/138	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/138
RA	289	.	NC_007779	2249963	0	T	G	bias_e_value=0.0292428	bias_p_value=6.29373e-09	fisher_strand_p_value=2.73402e-10	frequency=8.072853e-02	genotype_quality=675.6	ks_quality_p_value=1	log10_base_likelihood=-11.8729	log10_qual_likelihood_position_model=29.442	log10_strand_likelihood_position_model=9.65095	new_cov=30/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=88/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/113
RA	290	.	NC_007779	2254201	0	G	T	bias_e_value=32.9681	bias_p_value=7.0955e-06	fisher_strand_p_value=4.54736e-07	frequency=4.975224e-02	genotype_quality=846.2	ks_quality_p_value=1	log10_base_likelihood=-9.20112	log10_qual_likelihood_position_model=15.8819	log10_strand_likelihood_position_model=6.63809	new_cov=1/22	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=141/102	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/125
RA	291	.	NC_007779	2266892	0	G	T	bias_e_value=3.34057	bias_p_value=7.1897e-07	fisher_strand_p_value=3.98588e-08	frequency=5.243826e-02	genotype_quality=953.1	ks_quality_p_value=1	log10_base_likelihood=-12.9075	log10_qual_likelihood_position_model=16.0269	log10_strand_likelihood_position_model=7.39948	new_cov=0/22	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=150/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/139
RA	292	.	NC_007779	2278635	0	C	A	bias_e_value=28.9762	bias_p_value=6.23635e-06	fisher_strand_p_value=3.96452e-07	frequency=5.326939e-02	genotype_quality=809.7	ks_quality_p_value=0.999302	log10_base_likelihood=-7.5913	log10_qual_likelihood_position_model=14.2938	log10_strand_likelihood_position_model=6.63222	new_cov=21/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=108/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/127
RA	293	.	NC_007779	2287114	0	C	A	bias_e_value=7572.32	bias_p_value=0.00162974	fisher_strand_p_value=0.000175279	frequency=4.300785e-02	genotype_quality=843.1	ks_quality_p_value=0.959496	log10_base_likelihood=-11.928	log10_qual_likelihood_position_model=16.1905	log10_strand_likelihood_position_model=3.75627	new_cov=0/12	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=124/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/123
RA	294	.	NC_007779	2331120	0	T	G	bias_e_value=1.74369e-08	bias_p_value=3.75282e-15	fisher_strand_p_value=9.91502e-17	frequency=1.170688e-01	genotype_quality=701.4	ks_quality_p_value=1	log10_base_likelihood=-20.3428	log10_qual_likelihood_position_model=29.1083	log10_strand_likelihood_position_model=16.0083	new_cov=40/1	polymorphism_quality=15.1	quality=15.1	quality_position_model=Inf	ref_cov=62/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/141
RA	295	.	NC_007779	2342393	0	A	C	bias_e_value=3.06278e-06	bias_p_value=6.59183e-13	fisher_strand_p_value=2.02639e-14	frequency=8.925247e-02	genotype_quality=735.6	ks_quality_p_value=1	log10_base_likelihood=-8.5181	log10_qual_likelihood_position_model=26.5425	log10_strand_likelihood_position_model=13.6933	new_cov=0/31	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=140/64	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/95
RA	296	.	NC_007779	2344586	0	C	A	bias_e_value=0.246611	bias_p_value=5.30766e-08	fisher_strand_p_value=2.5535e-09	frequency=8.309555e-02	genotype_quality=654.8	ks_quality_p_value=1	log10_base_likelihood=-8.10046	log10_qual_likelihood_position_model=21.7022	log10_strand_likelihood_position_model=8.60907	new_cov=28/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=86/103	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/103
RA	297	.	NC_007779	2347976	0	A	C	bias_e_value=0.000296157	bias_p_value=6.374e-11	fisher_strand_p_value=2.2927e-12	frequency=3.935719e-02	genotype_quality=790.1	ks_quality_p_value=1	log10_base_likelihood=-6.14247	log10_qual_likelihood_position_model=19.5552	log10_strand_likelihood_position_model=11.6397	new_cov=0/23	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=158/60	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=158/83
RA	298	.	NC_007779	2353815	0	A	C	bias_e_value=2.33161e-05	bias_p_value=5.01816e-12	fisher_strand_p_value=1.64889e-13	frequency=7.575893e-02	genotype_quality=642.3	ks_quality_p_value=1	log10_base_likelihood=-10.2675	log10_qual_likelihood_position_model=21.1224	log10_strand_likelihood_position_model=12.7828	new_cov=0/22	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=132/36	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/58
RA	299	.	NC_007779	2354291	0	A	C	bias_e_value=0.153252	bias_p_value=3.29835e-08	fisher_strand_p_value=1.54959e-09	frequency=5.920601e-02	genotype_quality=793.9	ks_quality_p_value=1	log10_base_likelihood=-8.31152	log10_qual_likelihood_position_model=19.3572	log10_strand_likelihood_position_model=8.80978	new_cov=0/21	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=146/79	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=146/101
RA	300	.	NC_007779	2396399	0	G	T	bias_e_value=2127.28	bias_p_value=0.000457841	fisher_strand_p_value=4.12636e-05	frequency=2.916241e-02	genotype_quality=901.0	ks_quality_p_value=1	log10_base_likelihood=-6.01654	log10_qual_likelihood_position_model=14.397	log10_strand_likelihood_position_model=4.59416	new_cov=0/15	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=131/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/135
RA	301	.	NC_007779	2406075	0	C	T	frequency=1	genotype_quality=1000.4	new_cov=131/118	quality=1000.4	ref_cov=0/0	tot_cov=131/118
RA	302	.	NC_007779	2409821	0	A	.	bias_e_value=4494150	bias_p_value=0.967247	fisher_strand_p_value=1	frequency=9.926796e-03	genotype_quality=1221.1	ks_quality_p_value=0.755227	log10_base_likelihood=-8.21382	log10_qual_likelihood_position_model=1.65246	log10_strand_likelihood_position_model=0.408181	new_cov=2/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=4.42798e-08	ref_cov=155/144	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=157/145
RA	303	.	NC_007779	2410316	0	A	C	bias_e_value=4.23774e-05	bias_p_value=9.1206e-12	fisher_strand_p_value=3.05901e-13	frequency=1.004000e-01	genotype_quality=655.4	ks_quality_p_value=1	log10_base_likelihood=-14.8423	log10_qual_likelihood_position_model=28.5066	log10_strand_likelihood_position_model=12.5144	new_cov=0/34	polymorphism_quality=9.5	quality=9.5	quality_position_model=Inf	ref_cov=117/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/108
RA	304	.	NC_007779	2416102	0	G	A	frequency=1	genotype_quality=775.1	new_cov=88/109	quality=775.1	ref_cov=0/0	tot_cov=88/109
RA	305	.	NC_007779	2417605	0	C	A	bias_e_value=0.000197318	bias_p_value=4.24675e-11	fisher_strand_p_value=2.06935e-12	frequency=1.006937e-01	genotype_quality=791.9	ks_quality_p_value=0.727158	log10_base_likelihood=-22.9868	log10_qual_likelihood_position_model=38.6237	log10_strand_likelihood_position_model=11.7163	new_cov=41/0	polymorphism_quality=17.7	quality=17.7	quality_position_model=Inf	ref_cov=113/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=154/124
RA	306	.	NC_007779	2465370	0	C	A	bias_e_value=17293.8	bias_p_value=0.00372203	fisher_strand_p_value=0.000425438	frequency=3.013039e-02	genotype_quality=612.1	ks_quality_p_value=0.998235	log10_base_likelihood=-7.22391	log10_qual_likelihood_position_model=6.01627	log10_strand_likelihood_position_model=3.37116	new_cov=0/5	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=119/29	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/34
RA	307	.	NC_007779	2468327	0	C	.	bias_e_value=4491970	bias_p_value=0.966779	fisher_strand_p_value=0.753565	frequency=4.715109e-02	genotype_quality=853.5	ks_quality_p_value=1	log10_base_likelihood=-31.3203	log10_qual_likelihood_position_model=7.27945	log10_strand_likelihood_position_model=0.631779	new_cov=4/6	polymorphism_quality=26.1	quality=26.1	quality_position_model=1.28944e-25	ref_cov=95/107	reject=INDEL_HOMOPOLYMER	tot_cov=99/113
RA	308	.	NC_007779	2476279	0	C	G	bias_e_value=194418	bias_p_value=0.0418434	fisher_strand_p_value=0.00702626	frequency=4.347801e-02	genotype_quality=683.7	ks_quality_p_value=0.999433	log10_base_likelihood=-17.4937	log10_qual_likelihood_position_model=6.73276	log10_strand_likelihood_position_model=2.31757	new_cov=0/8	polymorphism_quality=12.2	quality=12.2	quality_position_model=1.95407e-10	ref_cov=82/82	reject=POLYMORPHISM_STRAND	tot_cov=82/90
RA	309	.	NC_007779	2476287	0	T	G	bias_e_value=100682	bias_p_value=0.0216691	fisher_strand_p_value=0.00321504	frequency=3.448772e-02	genotype_quality=665.2	ks_quality_p_value=1	log10_base_likelihood=-10.305	log10_qual_likelihood_position_model=12.6565	log10_strand_likelihood_position_model=2.71059	new_cov=0/9	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=86/81	reject=POLYMORPHISM_STRAND	tot_cov=86/90
RA	310	.	NC_007779	2476289	0	A	T	bias_e_value=188678	bias_p_value=0.0406079	fisher_strand_p_value=0.00677401	frequency=4.174709e-02	genotype_quality=661.0	ks_quality_p_value=1	log10_base_likelihood=-9.14922	log10_qual_likelihood_position_model=10.918	log10_strand_likelihood_position_model=2.37889	new_cov=0/8	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=85/82	reject=POLYMORPHISM_STRAND	tot_cov=85/90
RA	311	.	NC_007779	2484034	0	G	T	bias_e_value=120.059	bias_p_value=2.58396e-05	fisher_strand_p_value=2.0251e-06	frequency=3.479958e-02	genotype_quality=858.4	ks_quality_p_value=0.897421	log10_base_likelihood=-6.53646	log10_qual_likelihood_position_model=18.6965	log10_strand_likelihood_position_model=5.88361	new_cov=0/19	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=134/119	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/138
RA	312	.	NC_007779	2517218	0	A	C	bias_e_value=4.21283e-08	bias_p_value=9.06699e-15	fisher_strand_p_value=2.45428e-16	frequency=7.296658e-02	genotype_quality=593.2	ks_quality_p_value=1	log10_base_likelihood=-6.94374	log10_qual_likelihood_position_model=33.4289	log10_strand_likelihood_position_model=15.6101	new_cov=0/30	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=124/39	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/69
RA	313	.	NC_007779	2536601	0	T	G	bias_e_value=6.66281	bias_p_value=1.43399e-06	fisher_strand_p_value=8.28606e-08	frequency=6.170225e-02	genotype_quality=726.0	ks_quality_p_value=1	log10_base_likelihood=-6.96442	log10_qual_likelihood_position_model=22.0681	log10_strand_likelihood_position_model=7.08165	new_cov=20/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=85/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/120
RA	314	.	NC_007779	2538628	0	C	T	frequency=1	genotype_quality=1218.3	new_cov=155/148	quality=1218.3	ref_cov=0/0	tot_cov=155/148
RA	315	.	NC_007779	2556426	0	G	T	bias_e_value=3.76943e-06	bias_p_value=8.1127e-13	fisher_strand_p_value=3.24417e-14	frequency=9.104347e-02	genotype_quality=820.5	ks_quality_p_value=0.773834	log10_base_likelihood=-13.9375	log10_qual_likelihood_position_model=38.9186	log10_strand_likelihood_position_model=13.4889	new_cov=0/37	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=145/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=145/130
RA	316	.	NC_007779	2581900	0	G	T	bias_e_value=0.0361982	bias_p_value=7.7907e-09	fisher_strand_p_value=3.766e-10	frequency=6.995535e-02	genotype_quality=820.6	ks_quality_p_value=0.907442	log10_base_likelihood=-8.50904	log10_qual_likelihood_position_model=23.489	log10_strand_likelihood_position_model=9.50842	new_cov=0/30	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=129/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/135
RA	317	.	NC_007779	2584429	0	T	.	bias_e_value=3895990	bias_p_value=0.838508	fisher_strand_p_value=0.621732	frequency=1.291656e-02	genotype_quality=907.3	ks_quality_p_value=0.785797	log10_base_likelihood=-7.89835	log10_qual_likelihood_position_model=3.56983	log10_strand_likelihood_position_model=0.425993	new_cov=2/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=9.73711e-06	ref_cov=113/115	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/116
RA	318	.	NC_007779	2601998	0	A	C	bias_e_value=1.4294e-08	bias_p_value=3.07641e-15	fisher_strand_p_value=8.08434e-17	frequency=1.173229e-01	genotype_quality=610.2	ks_quality_p_value=1	log10_base_likelihood=-33.8889	log10_qual_likelihood_position_model=25.372	log10_strand_likelihood_position_model=16.0945	new_cov=1/22	polymorphism_quality=28.7	quality=28.7	quality_position_model=Inf	ref_cov=137/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/38
RA	319	.	NC_007779	2616347	0	A	C	bias_e_value=4.02009e-07	bias_p_value=8.65217e-14	fisher_strand_p_value=2.49897e-15	frequency=7.156277e-02	genotype_quality=648.2	ks_quality_p_value=1	log10_base_likelihood=-9.00787	log10_qual_likelihood_position_model=21.6815	log10_strand_likelihood_position_model=14.6022	new_cov=0/26	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=137/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/65
RA	320	.	NC_007779	2623159	0	T	G	bias_e_value=7.05768e-15	bias_p_value=1.51898e-21	fisher_strand_p_value=2.87116e-23	frequency=1.523533e-01	genotype_quality=607.5	ks_quality_p_value=1	log10_base_likelihood=-19.8256	log10_qual_likelihood_position_model=32.3634	log10_strand_likelihood_position_model=22.5419	new_cov=45/0	polymorphism_quality=14.5	quality=14.5	quality_position_model=Inf	ref_cov=37/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=83/126
RA	321	.	NC_007779	2623173	0	G	T	bias_e_value=10.9089	bias_p_value=2.34786e-06	fisher_strand_p_value=1.40395e-07	frequency=6.418896e-02	genotype_quality=720.8	ks_quality_p_value=0.996477	log10_base_likelihood=-8.39656	log10_qual_likelihood_position_model=13.6991	log10_strand_likelihood_position_model=6.85265	new_cov=17/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=69/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=86/120
RA	322	.	NC_007779	2646804	0	A	C	bias_e_value=42.4105	bias_p_value=9.12773e-06	fisher_strand_p_value=5.9525e-07	frequency=5.027580e-02	genotype_quality=839.4	ks_quality_p_value=1	log10_base_likelihood=-6.91418	log10_qual_likelihood_position_model=28.3705	log10_strand_likelihood_position_model=6.32492	new_cov=1/22	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=136/105	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/128
RA	323	.	NC_007779	2648595	0	A	C	bias_e_value=5.85962e-08	bias_p_value=1.26113e-14	fisher_strand_p_value=3.44529e-16	frequency=6.518364e-02	genotype_quality=541.6	ks_quality_p_value=1	log10_base_likelihood=-5.79108	log10_qual_likelihood_position_model=21.0283	log10_strand_likelihood_position_model=15.4628	new_cov=0/16	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=130/8	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/24
RA	324	.	NC_007779	2672817	0	A	C	bias_e_value=0.000527474	bias_p_value=1.13525e-10	fisher_strand_p_value=4.17335e-12	frequency=6.484222e-02	genotype_quality=635.2	ks_quality_p_value=1	log10_base_likelihood=-7.72426	log10_qual_likelihood_position_model=23.2019	log10_strand_likelihood_position_model=11.3795	new_cov=0/30	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=117/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/99
RA	325	.	NC_007779	2708935	0	A	C	bias_e_value=0.156482	bias_p_value=3.36786e-08	fisher_strand_p_value=1.58388e-09	frequency=8.017921e-02	genotype_quality=796.9	ks_quality_p_value=1	log10_base_likelihood=-12.7465	log10_qual_likelihood_position_model=24.9497	log10_strand_likelihood_position_model=8.97319	new_cov=0/28	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=130/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=130/134
RA	326	.	NC_007779	2791171	0	G	T	bias_e_value=83.0342	bias_p_value=1.78709e-05	fisher_strand_p_value=1.22283e-06	frequency=5.572939e-02	genotype_quality=674.9	ks_quality_p_value=1	log10_base_likelihood=-10.1284	log10_qual_likelihood_position_model=13.591	log10_strand_likelihood_position_model=5.91263	new_cov=0/17	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=109/80	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/97
RA	327	.	NC_007779	2791635	0	C	T	bias_e_value=3.63318e-05	bias_p_value=7.81945e-12	fisher_strand_p_value=2.60868e-13	frequency=1.117787e-01	genotype_quality=522.8	ks_quality_p_value=1	log10_base_likelihood=-12.639	log10_qual_likelihood_position_model=18.5334	log10_strand_likelihood_position_model=12.5836	new_cov=0/23	polymorphism_quality=7.3	quality=7.3	quality_position_model=Inf	ref_cov=112/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/57
RA	328	.	NC_007779	2793036	1	.	G	bias_e_value=3259190	bias_p_value=0.701454	fisher_strand_p_value=0.498783	frequency=8.264542e-03	genotype_quality=1200.4	ks_quality_p_value=0.671799	log10_base_likelihood=-8.25616	log10_qual_likelihood_position_model=1.25208	log10_strand_likelihood_position_model=0.568552	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=2.26307e-08	ref_cov=124/116	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=126/116
RA	329	.	NC_007779	2815240	1	.	A	bias_e_value=2541310	bias_p_value=0.54695	fisher_strand_p_value=0.606821	frequency=1.363659e-02	genotype_quality=1073.3	ks_quality_p_value=0.355884	log10_base_likelihood=-13.0071	log10_qual_likelihood_position_model=1.67907	log10_strand_likelihood_position_model=0.445282	new_cov=1/2	polymorphism_quality=7.6	quality=7.6	quality_position_model=6.29097e-13	ref_cov=114/103	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=115/105
RA	330	.	NC_007779	2817030	0	G	C	bias_e_value=3.25248e-10	bias_p_value=7.00011e-17	fisher_strand_p_value=2.71682e-18	frequency=1.302490e-01	genotype_quality=717.1	ks_quality_p_value=0.614436	log10_base_likelihood=-35.3269	log10_qual_likelihood_position_model=36.2278	log10_strand_likelihood_position_model=17.5659	new_cov=35/0	polymorphism_quality=30.2	quality=30.2	quality_position_model=Inf	ref_cov=51/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=86/148
RA	331	.	NC_007779	2830767	0	G	T	bias_e_value=4182.22	bias_p_value=0.000900113	fisher_strand_p_value=8.69676e-05	frequency=2.855778e-02	genotype_quality=1001.8	ks_quality_p_value=1	log10_base_likelihood=-9.6648	log10_qual_likelihood_position_model=11.5183	log10_strand_likelihood_position_model=4.36167	new_cov=0/14	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=141/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=141/141
RA	332	.	NC_007779	2833989	0	A	C	bias_e_value=3.68985e-10	bias_p_value=7.94143e-17	fisher_strand_p_value=1.89964e-18	frequency=8.406734e-02	genotype_quality=723.4	ks_quality_p_value=1	log10_base_likelihood=-11.647	log10_qual_likelihood_position_model=30.3967	log10_strand_likelihood_position_model=17.7213	new_cov=0/27	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=156/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=157/58
RA	333	.	NC_007779	2839296	0	A	G	bias_e_value=0.00258746	bias_p_value=5.56883e-10	fisher_strand_p_value=2.17964e-11	frequency=8.256626e-02	genotype_quality=606.7	ks_quality_p_value=1	log10_base_likelihood=-10.8717	log10_qual_likelihood_position_model=18.3055	log10_strand_likelihood_position_model=10.6616	new_cov=21/0	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=48/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=69/130
RA	334	.	NC_007779	2847445	0	G	T	bias_e_value=0.000620875	bias_p_value=1.33627e-10	fisher_strand_p_value=4.9431e-12	frequency=1.201563e-01	genotype_quality=683.1	ks_quality_p_value=1	log10_base_likelihood=-26.4943	log10_qual_likelihood_position_model=22.1834	log10_strand_likelihood_position_model=11.4106	new_cov=0/37	polymorphism_quality=21.3	quality=21.3	quality_position_model=Inf	ref_cov=114/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/130
RA	335	.	NC_007779	2866111	0	A	G	frequency=1	genotype_quality=1083.5	new_cov=114/136	quality=1083.5	ref_cov=0/0	tot_cov=114/136
RA	336	.	NC_007779	2895131	0	A	C	bias_e_value=1.78757e-05	bias_p_value=3.84727e-12	fisher_strand_p_value=1.25285e-13	frequency=9.507275e-02	genotype_quality=600.3	ks_quality_p_value=1	log10_base_likelihood=-11.6632	log10_qual_likelihood_position_model=31.5133	log10_strand_likelihood_position_model=12.9021	new_cov=0/28	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=111/45	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/73
RA	337	.	NC_007779	2898954	0	A	.	bias_e_value=4532770	bias_p_value=0.975558	fisher_strand_p_value=1	frequency=1.491737e-02	genotype_quality=1081.2	ks_quality_p_value=0.787212	log10_base_likelihood=-11.4467	log10_qual_likelihood_position_model=1.6723	log10_strand_likelihood_position_model=0.422758	new_cov=2/2	polymorphism_quality=6.0	quality=6.0	quality_position_model=2.29855e-11	ref_cov=133/131	reject=INDEL_HOMOPOLYMER	tot_cov=135/133
RA	338	.	NC_007779	2899215	1	.	T	bias_e_value=4252190	bias_p_value=0.915171	fisher_strand_p_value=1	frequency=7.518768e-03	genotype_quality=1305.7	ks_quality_p_value=0.617476	log10_base_likelihood=-8.22697	log10_qual_likelihood_position_model=1.33278	log10_strand_likelihood_position_model=0.299492	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.55071e-08	ref_cov=134/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=135/131
RA	339	.	NC_007779	2905200	0	C	G	bias_e_value=1798.61	bias_p_value=0.000387103	fisher_strand_p_value=3.46016e-05	frequency=3.378963e-02	genotype_quality=530.0	ks_quality_p_value=0.991809	log10_base_likelihood=-5.93187	log10_qual_likelihood_position_model=5.12501	log10_strand_likelihood_position_model=4.4609	new_cov=5/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=15/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=20/122
RA	340	.	NC_007779	2941345	0	T	C	bias_e_value=4162750	bias_p_value=0.895921	fisher_strand_p_value=0.663844	frequency=1.576614e-02	genotype_quality=1081.3	ks_quality_p_value=0.873643	log10_base_likelihood=-7.57962	log10_qual_likelihood_position_model=5.21357	log10_strand_likelihood_position_model=0.545226	new_cov=2/3	polymorphism_quality=2.1	quality=2.1	quality_position_model=0.00164599	ref_cov=151/127	tot_cov=153/130
RA	341	.	NC_007779	2983097	0	A	C	bias_e_value=5.37882e-06	bias_p_value=1.15765e-12	fisher_strand_p_value=3.62345e-14	frequency=9.642887e-02	genotype_quality=536.3	ks_quality_p_value=1	log10_base_likelihood=-7.00703	log10_qual_likelihood_position_model=35.5597	log10_strand_likelihood_position_model=13.4409	new_cov=0/32	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=102/47	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=102/79
RA	342	.	NC_007779	2987535	0	A	C	bias_e_value=6.34392e-09	bias_p_value=1.36536e-15	fisher_strand_p_value=3.511e-17	frequency=1.268544e-01	genotype_quality=689.0	ks_quality_p_value=1	log10_base_likelihood=-17.2165	log10_qual_likelihood_position_model=42.8336	log10_strand_likelihood_position_model=16.4546	new_cov=0/44	polymorphism_quality=11.9	quality=11.9	quality_position_model=Inf	ref_cov=126/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/115
RA	343	.	NC_007779	3003330	0	G	A	frequency=1	genotype_quality=1010.1	new_cov=119/129	quality=1010.1	ref_cov=0/0	tot_cov=119/129
RA	344	.	NC_007779	3016772	1	.	G	bias_e_value=1179670	bias_p_value=0.253893	fisher_strand_p_value=0.121852	frequency=1.047134e-02	genotype_quality=930.7	ks_quality_p_value=0.567525	log10_base_likelihood=-8.29876	log10_qual_likelihood_position_model=2.30451	log10_strand_likelihood_position_model=0.914168	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=5.73039e-07	ref_cov=65/124	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=67/124
RA	345	.	NC_007779	3034413	0	A	C	bias_e_value=3.06247e-11	bias_p_value=6.59115e-18	fisher_strand_p_value=1.48607e-19	frequency=1.361670e-01	genotype_quality=581.3	ks_quality_p_value=1	log10_base_likelihood=-14.6878	log10_qual_likelihood_position_model=32.6813	log10_strand_likelihood_position_model=18.828	new_cov=0/45	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=114/49	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/95
RA	346	.	NC_007779	3035390	0	T	C	bias_e_value=6.46645e-07	bias_p_value=1.39173e-13	fisher_strand_p_value=4.07734e-15	frequency=1.301546e-01	genotype_quality=484.7	ks_quality_p_value=1	log10_base_likelihood=-24.1658	log10_qual_likelihood_position_model=22.3635	log10_strand_likelihood_position_model=14.3896	new_cov=0/27	polymorphism_quality=18.9	quality=18.9	quality_position_model=Inf	ref_cov=126/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/66
RA	347	.	NC_007779	3042585	0	A	G	bias_e_value=2474080	bias_p_value=0.53248	fisher_strand_p_value=0.248356	frequency=9.639740e-03	genotype_quality=1202.7	ks_quality_p_value=0.832069	log10_base_likelihood=-5.85231	log10_qual_likelihood_position_model=2.26498	log10_strand_likelihood_position_model=0.865697	new_cov=0/3	polymorphism_quality=0.3	quality=0.3	quality_position_model=0.000173624	ref_cov=150/157	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=150/160
RA	348	.	NC_007779	3044712	0	T	C	bias_e_value=0.420617	bias_p_value=9.05267e-08	fisher_strand_p_value=4.47609e-09	frequency=4.151630e-02	genotype_quality=571.6	ks_quality_p_value=1	log10_base_likelihood=-8.25027	log10_qual_likelihood_position_model=11.6043	log10_strand_likelihood_position_model=8.3491	new_cov=8/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=11/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=19/154
RA	349	.	NC_007779	3049815	0	G	T	frequency=1	genotype_quality=1112.1	new_cov=131/145	quality=1112.1	ref_cov=0/0	tot_cov=131/145
RA	350	.	NC_007779	3074129	0	G	T	bias_e_value=0.0100385	bias_p_value=2.16052e-09	fisher_strand_p_value=8.95119e-11	frequency=5.377531e-02	genotype_quality=956.2	ks_quality_p_value=1	log10_base_likelihood=-6.12418	log10_qual_likelihood_position_model=25.5845	log10_strand_likelihood_position_model=10.0611	new_cov=0/33	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=142/123	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/156
RA	351	.	NC_007779	3084663	0	C	A	bias_e_value=0.0487579	bias_p_value=1.04939e-08	fisher_strand_p_value=4.66698e-10	frequency=6.876040e-02	genotype_quality=1006.9	ks_quality_p_value=1	log10_base_likelihood=-17.8099	log10_qual_likelihood_position_model=21.2542	log10_strand_likelihood_position_model=9.43517	new_cov=30/0	polymorphism_quality=12.5	quality=12.5	quality_position_model=Inf	ref_cov=126/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=157/150
RA	352	.	NC_007779	3126793	1	.	T	bias_e_value=2141640	bias_p_value=0.460931	fisher_strand_p_value=0.22068	frequency=6.192207e-03	genotype_quality=1605.7	ks_quality_p_value=0.744255	log10_base_likelihood=-7.87193	log10_qual_likelihood_position_model=1.66604	log10_strand_likelihood_position_model=0.656238	new_cov=2/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.86521e-07	ref_cov=150/171	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=152/171
RA	353	.	NC_007779	3152854	1	.	A	bias_e_value=3829780	bias_p_value=0.82426	fisher_strand_p_value=0.61215	frequency=1.162815e-02	genotype_quality=1261.4	ks_quality_p_value=0.766487	log10_base_likelihood=-13.2507	log10_qual_likelihood_position_model=2.92016	log10_strand_likelihood_position_model=0.438488	new_cov=2/1	polymorphism_quality=7.9	quality=7.9	quality_position_model=6.44688e-12	ref_cov=123/132	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/133
RA	354	.	NC_007779	3152855	0	A	.	bias_e_value=4552320	bias_p_value=0.979766	fisher_strand_p_value=1	frequency=1.131344e-02	genotype_quality=1065.3	ks_quality_p_value=0.805699	log10_base_likelihood=-8.19983	log10_qual_likelihood_position_model=1.68594	log10_strand_likelihood_position_model=0.413222	new_cov=1/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=5.01724e-08	ref_cov=128/134	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/136
RA	355	.	NC_007779	3160153	0	G	C	bias_e_value=1.10814	bias_p_value=2.38498e-07	fisher_strand_p_value=1.24332e-08	frequency=6.540918e-02	genotype_quality=471.1	ks_quality_p_value=0.998874	log10_base_likelihood=-14.0718	log10_qual_likelihood_position_model=9.58057	log10_strand_likelihood_position_model=7.90542	new_cov=9/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=12/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=21/110
RA	356	.	NC_007779	3193538	1	.	A	bias_e_value=2060580	bias_p_value=0.443485	fisher_strand_p_value=1	frequency=6.514549e-03	genotype_quality=1518.1	ks_quality_p_value=0.15474	log10_base_likelihood=-8.34951	log10_qual_likelihood_position_model=2.0633	log10_strand_likelihood_position_model=0.30128	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=6.60864e-08	ref_cov=143/162	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=144/163
RA	357	.	NC_007779	3212355	0	G	C	bias_e_value=278.912	bias_p_value=6.00285e-05	fisher_strand_p_value=4.60223e-06	frequency=4.293537e-02	genotype_quality=785.8	ks_quality_p_value=0.980029	log10_base_likelihood=-9.04595	log10_qual_likelihood_position_model=17.6285	log10_strand_likelihood_position_model=5.33703	new_cov=13/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=77/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=90/132
RA	358	.	NC_007779	3223274	0	G	T	bias_e_value=68.8035	bias_p_value=1.48081e-05	fisher_strand_p_value=9.99466e-07	frequency=5.779934e-02	genotype_quality=691.5	ks_quality_p_value=1	log10_base_likelihood=-5.58111	log10_qual_likelihood_position_model=15.3742	log10_strand_likelihood_position_model=6.09228	new_cov=0/22	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=101/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/125
RA	359	.	NC_007779	3231832	1	.	G	bias_e_value=698655	bias_p_value=0.150367	fisher_strand_p_value=0.0454089	frequency=1.500034e-02	genotype_quality=971.4	ks_quality_p_value=0.757884	log10_base_likelihood=-13.1433	log10_qual_likelihood_position_model=2.19288	log10_strand_likelihood_position_model=1.34286	new_cov=3/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=1.25869e-11	ref_cov=69/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=72/128
RA	360	.	NC_007779	3238322	0	T	C	bias_e_value=1218.49	bias_p_value=0.000262249	fisher_strand_p_value=2.24023e-05	frequency=5.900335e-02	genotype_quality=413.8	ks_quality_p_value=1	log10_base_likelihood=-9.27915	log10_qual_likelihood_position_model=11.202	log10_strand_likelihood_position_model=4.64971	new_cov=10/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=40/87	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=50/87
RA	361	.	NC_007779	3238324	0	A	C	bias_e_value=1796.52	bias_p_value=0.000386654	fisher_strand_p_value=3.42745e-05	frequency=5.802011e-02	genotype_quality=363.3	ks_quality_p_value=1	log10_base_likelihood=-7.52847	log10_qual_likelihood_position_model=13.0674	log10_strand_likelihood_position_model=4.47959	new_cov=11/1	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=36/87	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=48/89
RA	362	.	NC_007779	3256332	0	C	.	bias_e_value=662051	bias_p_value=0.142489	fisher_strand_p_value=0.510976	frequency=9.297371e-03	genotype_quality=884.4	ks_quality_p_value=0.0628211	log10_base_likelihood=-5.64886	log10_qual_likelihood_position_model=1.53835	log10_strand_likelihood_position_model=0.472521	new_cov=0/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=1.84849e-05	ref_cov=90/123	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=90/125
RA	363	.	NC_007779	3259711	0	A	C	bias_e_value=9.96293e-07	bias_p_value=2.14426e-13	fisher_strand_p_value=6.36505e-15	frequency=8.181143e-02	genotype_quality=747.7	ks_quality_p_value=1	log10_base_likelihood=-8.82745	log10_qual_likelihood_position_model=31.1067	log10_strand_likelihood_position_model=14.2017	new_cov=1/37	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=142/69	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=144/107
RA	364	.	NC_007779	3267102	0	A	.	bias_e_value=1407940	bias_p_value=0.303021	fisher_strand_p_value=0.58078	frequency=1.394653e-02	genotype_quality=874.1	ks_quality_p_value=0.152332	log10_base_likelihood=-8.59032	log10_qual_likelihood_position_model=1.41494	log10_strand_likelihood_position_model=0.492952	new_cov=2/1	polymorphism_quality=3.1	quality=3.1	quality_position_model=1.25918e-08	ref_cov=91/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=94/121
RA	365	.	NC_007779	3280326	0	A	C	bias_e_value=4.74159e-12	bias_p_value=1.0205e-18	fisher_strand_p_value=2.20599e-20	frequency=1.257300e-01	genotype_quality=611.4	ks_quality_p_value=1	log10_base_likelihood=-16.3747	log10_qual_likelihood_position_model=29.3607	log10_strand_likelihood_position_model=19.6564	new_cov=0/46	polymorphism_quality=11.0	quality=11.0	quality_position_model=Inf	ref_cov=122/51	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=122/97
RA	366	.	NC_007779	3285688	1	.	G	bias_e_value=1986180	bias_p_value=0.427473	fisher_strand_p_value=0.158852	frequency=9.523392e-03	genotype_quality=1037.0	ks_quality_p_value=0.920887	log10_base_likelihood=-8.32095	log10_qual_likelihood_position_model=1.30791	log10_strand_likelihood_position_model=0.799008	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=3.83133e-08	ref_cov=82/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=84/126
RA	367	.	NC_007779	3300073	0	T	G	bias_e_value=2.04395e-06	bias_p_value=4.39906e-13	fisher_strand_p_value=1.33519e-14	frequency=1.255460e-01	genotype_quality=562.4	ks_quality_p_value=1	log10_base_likelihood=-18.6397	log10_qual_likelihood_position_model=35.7383	log10_strand_likelihood_position_model=13.8745	new_cov=38/0	polymorphism_quality=13.3	quality=13.3	quality_position_model=Inf	ref_cov=59/102	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=99/102
RA	368	.	NC_007779	3309158	0	G	T	bias_e_value=2118.47	bias_p_value=0.000455944	fisher_strand_p_value=4.10928e-05	frequency=2.866077e-02	genotype_quality=940.1	ks_quality_p_value=0.999584	log10_base_likelihood=-5.59536	log10_qual_likelihood_position_model=14.8769	log10_strand_likelihood_position_model=4.64033	new_cov=0/15	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=137/124	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/139
RA	369	.	NC_007779	3333429	1	.	A	bias_e_value=3932300	bias_p_value=0.846323	fisher_strand_p_value=1	frequency=1.094913e-02	genotype_quality=1342.3	ks_quality_p_value=0.499638	log10_base_likelihood=-13.1402	log10_qual_likelihood_position_model=1.82598	log10_strand_likelihood_position_model=0.393411	new_cov=1/2	polymorphism_quality=7.8	quality=7.8	quality_position_model=5.75341e-13	ref_cov=125/146	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=126/148
RA	370	.	NC_007779	3355055	0	T	A	bias_e_value=330031	bias_p_value=0.0710304	fisher_strand_p_value=0.0777554	frequency=1.212406e-02	genotype_quality=912.5	ks_quality_p_value=0.171867	log10_base_likelihood=-6.54595	log10_qual_likelihood_position_model=1.73416	log10_strand_likelihood_position_model=1.10927	new_cov=3/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=1.58061e-05	ref_cov=103/141	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=106/141
RA	371	.	NC_007779	3357279	0	C	A	bias_e_value=34.2591	bias_p_value=7.37336e-06	fisher_strand_p_value=6.17843e-07	frequency=3.897667e-02	genotype_quality=743.3	ks_quality_p_value=0.766846	log10_base_likelihood=-8.36844	log10_qual_likelihood_position_model=17.4882	log10_strand_likelihood_position_model=6.20912	new_cov=17/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=89/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/130
RA	372	.	NC_007779	3385700	1	.	T	bias_e_value=3867350	bias_p_value=0.832344	fisher_strand_p_value=0.499644	frequency=7.117271e-03	genotype_quality=1369.7	ks_quality_p_value=0.960789	log10_base_likelihood=-7.75306	log10_qual_likelihood_position_model=2.99277	log10_strand_likelihood_position_model=0.558285	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=4.72369e-06	ref_cov=146/133	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=148/133
RA	373	.	NC_007779	3389914	0	A	C	bias_e_value=1.12324e-05	bias_p_value=2.41748e-12	fisher_strand_p_value=7.75121e-14	frequency=8.222151e-02	genotype_quality=690.0	ks_quality_p_value=1	log10_base_likelihood=-7.08156	log10_qual_likelihood_position_model=26.7524	log10_strand_likelihood_position_model=13.1106	new_cov=0/36	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=123/76	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=123/113
RA	374	.	NC_007779	3392267	0	C	A	bias_e_value=0.373872	bias_p_value=8.04662e-08	fisher_strand_p_value=3.95442e-09	frequency=3.841591e-02	genotype_quality=1015.1	ks_quality_p_value=1	log10_base_likelihood=-10.5869	log10_qual_likelihood_position_model=16.0596	log10_strand_likelihood_position_model=8.40292	new_cov=20/0	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=97/175	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/175
RA	375	.	NC_007779	3397405	0	A	C	bias_e_value=2.40689e-06	bias_p_value=5.18018e-13	fisher_strand_p_value=1.58036e-14	frequency=6.461859e-02	genotype_quality=672.6	ks_quality_p_value=1	log10_base_likelihood=-9.07943	log10_qual_likelihood_position_model=22.4459	log10_strand_likelihood_position_model=13.8012	new_cov=0/28	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=139/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=139/80
RA	376	.	NC_007779	3397813	0	C	G	frequency=1	genotype_quality=1025.2	new_cov=115/122	quality=1025.2	ref_cov=0/0	tot_cov=115/123
RA	377	.	NC_007779	3404070	0	T	G	bias_e_value=0.0010313	bias_p_value=2.2196e-10	fisher_strand_p_value=8.37398e-12	frequency=5.566978e-02	genotype_quality=661.5	ks_quality_p_value=1	log10_base_likelihood=-6.05383	log10_qual_likelihood_position_model=21.9719	log10_strand_likelihood_position_model=11.0771	new_cov=29/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=70/119	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/119
RA	378	.	NC_007779	3412753	0	C	T	bias_e_value=0.369342	bias_p_value=7.94912e-08	fisher_strand_p_value=3.90404e-09	frequency=6.311083e-02	genotype_quality=706.6	ks_quality_p_value=1	log10_base_likelihood=-6.06365	log10_qual_likelihood_position_model=20.4254	log10_strand_likelihood_position_model=8.40849	new_cov=0/18	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=126/56	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/74
RA	379	.	NC_007779	3412772	0	A	C	bias_e_value=1.78778e-05	bias_p_value=3.84771e-12	fisher_strand_p_value=1.253e-13	frequency=5.551672e-02	genotype_quality=610.0	ks_quality_p_value=1	log10_base_likelihood=-7.46314	log10_qual_likelihood_position_model=19.8196	log10_strand_likelihood_position_model=12.902	new_cov=0/19	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=134/26	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/45
RA	380	.	NC_007779	3439587	0	A	C	bias_e_value=25330.5	bias_p_value=0.00545172	fisher_strand_p_value=0.000656218	frequency=5.921793e-02	genotype_quality=687.4	ks_quality_p_value=0.997105	log10_base_likelihood=-13.3537	log10_qual_likelihood_position_model=17.1752	log10_strand_likelihood_position_model=3.40493	new_cov=13/0	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=97/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/86
RA	381	.	NC_007779	3439592	0	G	A	bias_e_value=405861	bias_p_value=0.0873508	fisher_strand_p_value=0.0172965	frequency=3.376293e-02	genotype_quality=684.7	ks_quality_p_value=0.998263	log10_base_likelihood=-5.94051	log10_qual_likelihood_position_model=9.82902	log10_strand_likelihood_position_model=1.84877	new_cov=7/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=94/82	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=106/82
RA	382	.	NC_007779	3439598	1	.	T	bias_e_value=1868890	bias_p_value=0.40223	fisher_strand_p_value=0.135277	frequency=2.325535e-02	genotype_quality=809.6	ks_quality_p_value=0.986526	log10_base_likelihood=-16.3615	log10_qual_likelihood_position_model=4.89344	log10_strand_likelihood_position_model=0.988868	new_cov=4/0	polymorphism_quality=11.0	quality=11.0	quality_position_model=1.62243e-12	ref_cov=94/74	reject=POLYMORPHISM_STRAND	tot_cov=98/74
RA	383	.	NC_007779	3439601	0	G	T	bias_e_value=159659	bias_p_value=0.0343624	fisher_strand_p_value=0.00555097	frequency=5.335999e-02	genotype_quality=667.9	ks_quality_p_value=0.999339	log10_base_likelihood=-13.3227	log10_qual_likelihood_position_model=11.5743	log10_strand_likelihood_position_model=2.44095	new_cov=10/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=94/75	reject=POLYMORPHISM_STRAND	tot_cov=104/75
RA	384	.	NC_007779	3439605	0	T	C	bias_e_value=166396	bias_p_value=0.0358124	fisher_strand_p_value=0.00582778	frequency=4.219341e-02	genotype_quality=658.0	ks_quality_p_value=1	log10_base_likelihood=-8.50625	log10_qual_likelihood_position_model=13.1158	log10_strand_likelihood_position_model=2.38118	new_cov=10/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=100/77	reject=POLYMORPHISM_STRAND	tot_cov=110/77
RA	385	.	NC_007779	3439607	0	G	T	bias_e_value=17835.6	bias_p_value=0.00383864	fisher_strand_p_value=0.00043974	frequency=6.248903e-02	genotype_quality=705.1	ks_quality_p_value=1	log10_base_likelihood=-11.5375	log10_qual_likelihood_position_model=16.2435	log10_strand_likelihood_position_model=3.40994	new_cov=14/0	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=95/77	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=109/77
RA	386	.	NC_007779	3447060	0	T	A	bias_e_value=3100.31	bias_p_value=0.000667259	fisher_strand_p_value=6.24729e-05	frequency=3.247070e-02	genotype_quality=1078.5	ks_quality_p_value=1	log10_base_likelihood=-6.34569	log10_qual_likelihood_position_model=22.4713	log10_strand_likelihood_position_model=4.20431	new_cov=0/13	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=168/145	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=169/158
RA	387	.	NC_007779	3475527	0	T	G	bias_e_value=7.18446e-12	bias_p_value=1.54627e-18	fisher_strand_p_value=3.37349e-20	frequency=1.287260e-01	genotype_quality=685.2	ks_quality_p_value=1	log10_base_likelihood=-18.3319	log10_qual_likelihood_position_model=33.4616	log10_strand_likelihood_position_model=19.4719	new_cov=46/0	polymorphism_quality=13.0	quality=13.0	quality_position_model=Inf	ref_cov=58/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/132
RA	388	.	NC_007779	3475533	0	C	T	bias_e_value=0.00115593	bias_p_value=2.48782e-10	fisher_strand_p_value=9.42811e-12	frequency=9.773350e-02	genotype_quality=769.3	ks_quality_p_value=1	log10_base_likelihood=-22.7289	log10_qual_likelihood_position_model=33.013	log10_strand_likelihood_position_model=11.0256	new_cov=27/0	polymorphism_quality=17.5	quality=17.5	quality_position_model=Inf	ref_cov=80/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=107/146
RA	389	.	NC_007779	3484372	0	A	C	bias_e_value=0.000582869	bias_p_value=1.25447e-10	fisher_strand_p_value=4.62928e-12	frequency=6.416559e-02	genotype_quality=694.9	ks_quality_p_value=1	log10_base_likelihood=-7.4938	log10_qual_likelihood_position_model=25.7478	log10_strand_likelihood_position_model=11.3345	new_cov=0/31	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=126/80	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/111
RA	390	.	NC_007779	3498149	0	T	G	bias_e_value=2.48585e-06	bias_p_value=5.35014e-13	fisher_strand_p_value=1.63387e-14	frequency=7.451487e-02	genotype_quality=570.7	ks_quality_p_value=1	log10_base_likelihood=-10.1294	log10_qual_likelihood_position_model=20.2722	log10_strand_likelihood_position_model=13.7868	new_cov=23/0	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=30/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=53/123
RA	391	.	NC_007779	3499066	0	A	C	bias_e_value=9.33516e-06	bias_p_value=2.00915e-12	fisher_strand_p_value=6.40274e-14	frequency=1.138010e-01	genotype_quality=675.5	ks_quality_p_value=1	log10_base_likelihood=-20.4554	log10_qual_likelihood_position_model=28.4459	log10_strand_likelihood_position_model=13.1936	new_cov=0/28	polymorphism_quality=15.2	quality=15.2	quality_position_model=Inf	ref_cov=129/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/80
RA	392	.	NC_007779	3520391	0	C	G	bias_e_value=0.0134186	bias_p_value=2.888e-09	fisher_strand_p_value=1.21512e-10	frequency=4.688549e-02	genotype_quality=629.1	ks_quality_p_value=0.997207	log10_base_likelihood=-8.34871	log10_qual_likelihood_position_model=10.7237	log10_strand_likelihood_position_model=9.91538	new_cov=9/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=8/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=17/148
RA	393	.	NC_007779	3523734	0	G	T	bias_e_value=0.0171661	bias_p_value=3.69455e-09	fisher_strand_p_value=1.56704e-10	frequency=5.788183e-02	genotype_quality=928.4	ks_quality_p_value=1	log10_base_likelihood=-8.93771	log10_qual_likelihood_position_model=24.6571	log10_strand_likelihood_position_model=10.106	new_cov=0/31	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=146/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/148
RA	394	.	NC_007779	3530308	1	.	A	bias_e_value=2254920	bias_p_value=0.485312	fisher_strand_p_value=0.178052	frequency=7.688522e-03	genotype_quality=1285.2	ks_quality_p_value=1	log10_base_likelihood=-5.66588	log10_qual_likelihood_position_model=3.74909	log10_strand_likelihood_position_model=0.749454	new_cov=0/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.00895933	ref_cov=150/108	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=150/110
RA	395	.	NC_007779	3530315	0	T	G	bias_e_value=57767.3	bias_p_value=0.0124329	fisher_strand_p_value=0.00168304	frequency=1.947784e-02	genotype_quality=905.9	ks_quality_p_value=1	log10_base_likelihood=-6.56231	log10_qual_likelihood_position_model=9.02041	log10_strand_likelihood_position_model=2.77391	new_cov=0/7	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=149/96	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=149/103
RA	396	.	NC_007779	3543547	0	A	C	bias_e_value=9.67649e-12	bias_p_value=2.08261e-18	fisher_strand_p_value=4.57402e-20	frequency=1.899772e-01	genotype_quality=645.3	ks_quality_p_value=1	log10_base_likelihood=-35.0561	log10_qual_likelihood_position_model=50.5207	log10_strand_likelihood_position_model=19.4843	new_cov=0/64	polymorphism_quality=29.9	quality=29.9	quality_position_model=Inf	ref_cov=114/82	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/149
RA	397	.	NC_007779	3550877	0	C	A	bias_e_value=0.093685	bias_p_value=2.01632e-08	fisher_strand_p_value=9.24859e-10	frequency=5.649662e-02	genotype_quality=782.3	ks_quality_p_value=1	log10_base_likelihood=-6.13976	log10_qual_likelihood_position_model=21.3732	log10_strand_likelihood_position_model=9.08304	new_cov=29/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=99/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/120
RA	398	.	NC_007779	3561760	1	.	T	bias_e_value=816503	bias_p_value=0.175731	fisher_strand_p_value=0.0430611	frequency=1.027393e-02	genotype_quality=1428.4	ks_quality_p_value=0.979662	log10_base_likelihood=-11.3907	log10_qual_likelihood_position_model=5.53434	log10_strand_likelihood_position_model=1.36592	new_cov=0/3	polymorphism_quality=6.0	quality=6.0	quality_position_model=2.35827e-06	ref_cov=189/100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=189/103
RA	399	.	NC_007779	3580297	0	G	T	bias_e_value=580.646	bias_p_value=0.000124969	fisher_strand_p_value=9.99985e-06	frequency=2.327824e-02	genotype_quality=980.9	ks_quality_p_value=0.998621	log10_base_likelihood=-6.13091	log10_qual_likelihood_position_model=12.5954	log10_strand_likelihood_position_model=5.00001	new_cov=0/14	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=160/118	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=160/132
RA	400	.	NC_007779	3581567	0	C	.	bias_e_value=923170	bias_p_value=0.198688	fisher_strand_p_value=0.0496948	frequency=1.636696e-02	genotype_quality=1010.8	ks_quality_p_value=0.998771	log10_base_likelihood=-9.8853	log10_qual_likelihood_position_model=5.82416	log10_strand_likelihood_position_model=1.30369	new_cov=4/0	polymorphism_quality=4.4	quality=4.4	quality_position_model=0.000158958	ref_cov=112/128	reject=POLYMORPHISM_STRAND	tot_cov=116/128
RA	401	.	NC_007779	3651632	0	C	T	bias_e_value=1063810	bias_p_value=0.228957	fisher_strand_p_value=0.0600636	frequency=1.695347e-02	genotype_quality=1024.7	ks_quality_p_value=0.999843	log10_base_likelihood=-6.51243	log10_qual_likelihood_position_model=5.2674	log10_strand_likelihood_position_model=1.51385	new_cov=5/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=123/127	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=128/127
RA	402	.	NC_007779	3651641	0	G	C	bias_e_value=979370	bias_p_value=0.210784	fisher_strand_p_value=0.0543929	frequency=1.366806e-02	genotype_quality=1131.6	ks_quality_p_value=0.987552	log10_base_likelihood=-6.34209	log10_qual_likelihood_position_model=4.73162	log10_strand_likelihood_position_model=1.26446	new_cov=4/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=0.100637	ref_cov=132/144	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=136/144
RA	403	.	NC_007779	3665059	0	C	A	bias_e_value=45.087	bias_p_value=9.70378e-06	fisher_strand_p_value=6.3553e-07	frequency=3.842831e-02	genotype_quality=1000.0	ks_quality_p_value=1	log10_base_likelihood=-7.35612	log10_qual_likelihood_position_model=18.5801	log10_strand_likelihood_position_model=6.26618	new_cov=21/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=139/148	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=161/148
RA	404	.	NC_007779	3671123	1	.	A	bias_e_value=3648010	bias_p_value=0.785137	fisher_strand_p_value=0.498141	frequency=7.434845e-03	genotype_quality=1336.9	ks_quality_p_value=0.844957	log10_base_likelihood=-8.21272	log10_qual_likelihood_position_model=1.40122	log10_strand_likelihood_position_model=0.600449	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.85854e-08	ref_cov=134/133	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/135
RA	405	.	NC_007779	3673380	0	G	T	bias_e_value=315.831	bias_p_value=6.79742e-05	fisher_strand_p_value=5.63035e-06	frequency=4.615211e-02	genotype_quality=829.6	ks_quality_p_value=0.916365	log10_base_likelihood=-7.93323	log10_qual_likelihood_position_model=21.8457	log10_strand_likelihood_position_model=5.32931	new_cov=0/20	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=118/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/149
RA	406	.	NC_007779	3686205	0	A	.	bias_e_value=4153170	bias_p_value=0.89386	fisher_strand_p_value=0.579795	frequency=1.198578e-02	genotype_quality=1005.0	ks_quality_p_value=0.993801	log10_base_likelihood=-7.80012	log10_qual_likelihood_position_model=3.08206	log10_strand_likelihood_position_model=0.496374	new_cov=1/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=4.5047e-06	ref_cov=141/106	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=142/108
RA	407	.	NC_007779	3688858	0	A	C	bias_e_value=9.82956e-08	bias_p_value=2.11555e-14	fisher_strand_p_value=5.86474e-16	frequency=1.562486e-01	genotype_quality=530.9	ks_quality_p_value=1	log10_base_likelihood=-23.1851	log10_qual_likelihood_position_model=29.3633	log10_strand_likelihood_position_model=15.4252	new_cov=0/43	polymorphism_quality=17.9	quality=17.9	quality_position_model=Inf	ref_cov=97/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=97/98
RA	408	.	NC_007779	3701118	0	G	T	bias_e_value=5.28593e-05	bias_p_value=1.13766e-11	fisher_strand_p_value=3.84515e-13	frequency=8.776522e-02	genotype_quality=806.0	ks_quality_p_value=1	log10_base_likelihood=-13.411	log10_qual_likelihood_position_model=24.8973	log10_strand_likelihood_position_model=12.4151	new_cov=0/31	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=143/79	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=143/112
RA	409	.	NC_007779	3724806	0	G	T	bias_e_value=106481	bias_p_value=0.0229173	fisher_strand_p_value=0.00343377	frequency=2.044296e-02	genotype_quality=862.9	ks_quality_p_value=1	log10_base_likelihood=-5.69565	log10_qual_likelihood_position_model=8.83427	log10_strand_likelihood_position_model=2.67775	new_cov=0/9	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=120/117	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=120/126
RA	410	.	NC_007779	3728155	0	T	C	bias_e_value=1.28961	bias_p_value=2.77555e-07	fisher_strand_p_value=1.45744e-08	frequency=5.684519e-02	genotype_quality=365.0	ks_quality_p_value=1	log10_base_likelihood=-6.7876	log10_qual_likelihood_position_model=9.83204	log10_strand_likelihood_position_model=7.83641	new_cov=8/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=7/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=15/96
RA	411	.	NC_007779	3728157	0	A	C	bias_e_value=2722.27	bias_p_value=0.000585896	fisher_strand_p_value=5.41286e-05	frequency=6.411076e-02	genotype_quality=326.6	ks_quality_p_value=1	log10_base_likelihood=-8.14464	log10_qual_likelihood_position_model=10.3523	log10_strand_likelihood_position_model=4.2817	new_cov=7/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=13/92	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=20/94
RA	412	.	NC_007779	3731041	1	.	T	bias_e_value=4181590	bias_p_value=0.899977	fisher_strand_p_value=0.605149	frequency=1.102924e-02	genotype_quality=1324.6	ks_quality_p_value=0.970831	log10_base_likelihood=-12.3605	log10_qual_likelihood_position_model=3.55508	log10_strand_likelihood_position_model=0.448645	new_cov=2/1	polymorphism_quality=7.0	quality=7.0	quality_position_model=2.39703e-10	ref_cov=127/142	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/143
RA	413	.	NC_007779	3732310	0	G	T	bias_e_value=0.000710017	bias_p_value=1.52812e-10	fisher_strand_p_value=5.68209e-12	frequency=8.251905e-02	genotype_quality=728.5	ks_quality_p_value=1	log10_base_likelihood=-13.479	log10_qual_likelihood_position_model=19.8215	log10_strand_likelihood_position_model=11.2455	new_cov=0/29	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=129/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/105
RA	414	.	NC_007779	3739544	0	G	T	bias_e_value=9.30748	bias_p_value=2.00319e-06	fisher_strand_p_value=1.18174e-07	frequency=4.399586e-02	genotype_quality=867.0	ks_quality_p_value=1	log10_base_likelihood=-5.86518	log10_qual_likelihood_position_model=18.4519	log10_strand_likelihood_position_model=6.92748	new_cov=0/20	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=137/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/123
RA	415	.	NC_007779	3750122	0	C	.	bias_e_value=1358910	bias_p_value=0.292468	fisher_strand_p_value=1	frequency=9.704800e-01	genotype_quality=1277.0	ks_quality_p_value=0.0841638	log10_base_likelihood=-37.1112	log10_qual_likelihood_position_model=4.95084	log10_strand_likelihood_position_model=0.577113	new_cov=117/146	polymorphism_quality=32.0	quality=32.0	quality_position_model=7.45055e-34	ref_cov=4/4	tot_cov=121/150
RA	416	.	NC_007779	3750123	0	C	T	bias_e_value=4640520	bias_p_value=0.998748	fisher_strand_p_value=1	frequency=2.939224e-02	genotype_quality=1061.8	ks_quality_p_value=0.950383	log10_base_likelihood=-15.5891	log10_qual_likelihood_position_model=6.22701	log10_strand_likelihood_position_model=0.578699	new_cov=4/4	polymorphism_quality=10.2	quality=10.2	quality_position_model=8.76474e-11	ref_cov=116/146	tot_cov=121/150
RA	417	.	NC_007779	3762475	0	T	G	bias_e_value=0.713443	bias_p_value=1.5355e-07	fisher_strand_p_value=7.80699e-09	frequency=5.279160e-02	genotype_quality=775.4	ks_quality_p_value=1	log10_base_likelihood=-8.36926	log10_qual_likelihood_position_model=18.732	log10_strand_likelihood_position_model=8.10752	new_cov=19/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=77/145	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=97/145
RA	418	.	NC_007779	3776590	1	.	T	bias_e_value=3875440	bias_p_value=0.834086	fisher_strand_p_value=1	frequency=7.873535e-03	genotype_quality=1260.2	ks_quality_p_value=0.482435	log10_base_likelihood=-8.31981	log10_qual_likelihood_position_model=1.69535	log10_strand_likelihood_position_model=0.301044	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=2.95392e-08	ref_cov=134/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=135/119
RA	419	.	NC_007779	3788380	0	G	T	bias_e_value=0.00380863	bias_p_value=8.19707e-10	fisher_strand_p_value=3.25968e-11	frequency=6.176424e-02	genotype_quality=826.5	ks_quality_p_value=1	log10_base_likelihood=-10.1844	log10_qual_likelihood_position_model=20.4227	log10_strand_likelihood_position_model=10.4868	new_cov=0/31	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=135/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/130
RA	420	.	NC_007779	3812429	0	G	T	bias_e_value=49.693	bias_p_value=1.06951e-05	fisher_strand_p_value=7.05263e-07	frequency=4.217625e-02	genotype_quality=913.6	ks_quality_p_value=1	log10_base_likelihood=-6.88117	log10_qual_likelihood_position_model=17.4514	log10_strand_likelihood_position_model=6.15165	new_cov=0/18	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=144/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=145/130
RA	421	.	NC_007779	3824606	1	.	T	bias_e_value=3415460	bias_p_value=0.735086	fisher_strand_p_value=0.506334	frequency=8.064270e-03	genotype_quality=1191.4	ks_quality_p_value=0.725228	log10_base_likelihood=-8.19821	log10_qual_likelihood_position_model=1.9676	log10_strand_likelihood_position_model=0.498006	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.2056e-07	ref_cov=108/138	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/140
RA	422	.	NC_007779	3828029	0	G	T	bias_e_value=199.158	bias_p_value=4.28634e-05	fisher_strand_p_value=3.22289e-06	frequency=4.860449e-02	genotype_quality=877.1	ks_quality_p_value=0.972704	log10_base_likelihood=-8.83707	log10_qual_likelihood_position_model=21.8838	log10_strand_likelihood_position_model=5.49175	new_cov=17/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=108/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/129
RA	423	.	NC_007779	3843072	0	T	.	bias_e_value=2413800	bias_p_value=0.519508	fisher_strand_p_value=1	frequency=1.315117e-02	genotype_quality=623.3	ks_quality_p_value=0.198525	log10_base_likelihood=-5.70943	log10_qual_likelihood_position_model=0.87227	log10_strand_likelihood_position_model=0.326192	new_cov=1/1	polymorphism_quality=0.2	quality=0.2	quality_position_model=2.2447e-06	ref_cov=56/94	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=57/95
RA	424	.	NC_007779	3845596	0	G	T	bias_e_value=0.181354	bias_p_value=3.90316e-08	fisher_strand_p_value=1.84909e-09	frequency=6.492710e-02	genotype_quality=838.9	ks_quality_p_value=1	log10_base_likelihood=-11.824	log10_qual_likelihood_position_model=17.8647	log10_strand_likelihood_position_model=8.85321	new_cov=0/28	polymorphism_quality=6.4	quality=6.4	quality_position_model=Inf	ref_cov=134/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/139
RA	425	.	NC_007779	3846240	0	G	C	bias_e_value=12229.9	bias_p_value=0.00263215	fisher_strand_p_value=0.000287536	frequency=4.633570e-02	genotype_quality=500.3	ks_quality_p_value=1	log10_base_likelihood=-5.66088	log10_qual_likelihood_position_model=10.0061	log10_strand_likelihood_position_model=3.55965	new_cov=1/9	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=101/44	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=102/53
RA	426	.	NC_007779	3855233	0	C	A	bias_e_value=12859.7	bias_p_value=0.00276771	fisher_strand_p_value=0.000304218	frequency=3.382874e-02	genotype_quality=838.7	ks_quality_p_value=1	log10_base_likelihood=-6.22879	log10_qual_likelihood_position_model=14.1603	log10_strand_likelihood_position_model=3.53587	new_cov=1/9	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=135/61	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/70
RA	427	.	NC_007779	3855255	0	C	A	bias_e_value=1869.19	bias_p_value=0.000402294	fisher_strand_p_value=3.61396e-05	frequency=2.886772e-02	genotype_quality=689.2	ks_quality_p_value=0.990574	log10_base_likelihood=-5.90668	log10_qual_likelihood_position_model=9.05032	log10_strand_likelihood_position_model=4.44202	new_cov=0/6	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=146/29	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/35
RA	428	.	NC_007779	3859254	1	.	T	bias_e_value=280522	bias_p_value=0.060375	fisher_strand_p_value=0.0148714	frequency=2.071953e-02	genotype_quality=1119.2	ks_quality_p_value=0.736194	log10_base_likelihood=-18.6923	log10_qual_likelihood_position_model=1.80979	log10_strand_likelihood_position_model=1.82765	new_cov=4/0	polymorphism_quality=13.4	quality=13.4	quality_position_model=3.61702e-17	ref_cov=78/150	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=83/150
RA	429	.	NC_007779	3859254	2	.	T	bias_e_value=1621890	bias_p_value=0.349069	fisher_strand_p_value=0.125906	frequency=8.583069e-03	genotype_quality=1150.4	ks_quality_p_value=0.860284	log10_base_likelihood=-8.21662	log10_qual_likelihood_position_model=1.68285	log10_strand_likelihood_position_model=0.899952	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.52586e-07	ref_cov=81/150	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=83/150
RA	430	.	NC_007779	3859258	1	.	T	bias_e_value=550651	bias_p_value=0.118513	fisher_strand_p_value=0.0253644	frequency=1.414776e-02	genotype_quality=1002.1	ks_quality_p_value=0.999458	log10_base_likelihood=-9.79757	log10_qual_likelihood_position_model=4.87247	log10_strand_likelihood_position_model=1.59578	new_cov=3/0	polymorphism_quality=4.4	quality=4.4	quality_position_model=3.91622e-05	ref_cov=60/149	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=63/149
RA	431	.	NC_007779	3859258	2	.	C	bias_e_value=1372190	bias_p_value=0.295328	fisher_strand_p_value=0.0853532	frequency=1.407433e-02	genotype_quality=1004.6	ks_quality_p_value=0.999637	log10_base_likelihood=-8.65317	log10_qual_likelihood_position_model=3.02325	log10_strand_likelihood_position_model=1.06878	new_cov=2/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=1.98964e-06	ref_cov=60/149	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=63/149
RA	432	.	NC_007779	3859263	0	T	C	bias_e_value=3.06639	bias_p_value=6.59958e-07	fisher_strand_p_value=3.64043e-08	frequency=4.725266e-02	genotype_quality=646.1	ks_quality_p_value=1	log10_base_likelihood=-9.54052	log10_qual_likelihood_position_model=16.1169	log10_strand_likelihood_position_model=7.43885	new_cov=11/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=35/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=47/153
RA	433	.	NC_007779	3859265	0	A	C	bias_e_value=0.702813	bias_p_value=1.51262e-07	fisher_strand_p_value=7.85226e-09	frequency=5.981302e-02	genotype_quality=526.2	ks_quality_p_value=0.978634	log10_base_likelihood=-12.75	log10_qual_likelihood_position_model=8.29673	log10_strand_likelihood_position_model=8.1117	new_cov=14/1	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=34/145	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=48/150
RA	434	.	NC_007779	3859270	0	G	C	bias_e_value=325.327	bias_p_value=7.00179e-05	fisher_strand_p_value=5.32755e-06	frequency=2.955914e-02	genotype_quality=718.7	ks_quality_p_value=1	log10_base_likelihood=-6.69076	log10_qual_likelihood_position_model=9.20241	log10_strand_likelihood_position_model=5.27347	new_cov=7/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=28/149	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=35/149
RA	435	.	NC_007779	3873375	0	T	.	bias_e_value=1784360	bias_p_value=0.384037	fisher_strand_p_value=0.255434	frequency=1.074409e-02	genotype_quality=1120.3	ks_quality_p_value=0.487682	log10_base_likelihood=-8.03564	log10_qual_likelihood_position_model=1.99573	log10_strand_likelihood_position_model=0.778073	new_cov=0/3	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.70956e-07	ref_cov=125/151	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/154
RA	436	.	NC_007779	3893880	0	G	T	bias_e_value=0.0179781	bias_p_value=3.86932e-09	fisher_strand_p_value=1.65258e-10	frequency=7.543850e-02	genotype_quality=687.8	ks_quality_p_value=0.995131	log10_base_likelihood=-13.1445	log10_qual_likelihood_position_model=19.3717	log10_strand_likelihood_position_model=9.78184	new_cov=0/29	polymorphism_quality=7.8	quality=7.8	quality_position_model=Inf	ref_cov=118/86	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/118
RA	437	.	NC_007779	3898657	0	C	G	frequency=1	genotype_quality=1057.5	new_cov=127/118	quality=1057.5	ref_cov=0/0	tot_cov=127/118
RA	438	.	NC_007779	3900676	1	.	G	bias_e_value=2402250	bias_p_value=0.517021	fisher_strand_p_value=0.205987	frequency=7.518768e-03	genotype_quality=1321.9	ks_quality_p_value=0.956325	log10_base_likelihood=-8.11476	log10_qual_likelihood_position_model=1.32334	log10_strand_likelihood_position_model=0.686161	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=4.96278e-08	ref_cov=119/145	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/145
RA	439	.	NC_007779	3900680	0	T	G	bias_e_value=1.17627e-08	bias_p_value=2.53162e-15	fisher_strand_p_value=6.61789e-17	frequency=7.241631e-02	genotype_quality=626.1	ks_quality_p_value=1	log10_base_likelihood=-12.0154	log10_qual_likelihood_position_model=22.6611	log10_strand_likelihood_position_model=16.1793	new_cov=19/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=14/142	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=35/142
RA	440	.	NC_007779	3900687	0	G	T	bias_e_value=1.01266	bias_p_value=2.17948e-07	fisher_strand_p_value=1.12932e-08	frequency=4.566097e-02	genotype_quality=756.3	ks_quality_p_value=1	log10_base_likelihood=-6.29462	log10_qual_likelihood_position_model=15.3569	log10_strand_likelihood_position_model=7.94718	new_cov=11/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=29/149	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=40/150
RA	441	.	NC_007779	3910746	0	C	A	bias_e_value=0.000976254	bias_p_value=2.10113e-10	fisher_strand_p_value=7.91002e-12	frequency=8.801317e-02	genotype_quality=820.6	ks_quality_p_value=1	log10_base_likelihood=-15.8032	log10_qual_likelihood_position_model=33.6748	log10_strand_likelihood_position_model=11.181	new_cov=37/0	polymorphism_quality=10.5	quality=10.5	quality_position_model=Inf	ref_cov=108/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=146/127
RA	442	.	NC_007779	3930443	0	T	G	bias_e_value=7.44905e-09	bias_p_value=1.60321e-15	fisher_strand_p_value=4.14018e-17	frequency=8.807230e-02	genotype_quality=673.3	ks_quality_p_value=1	log10_base_likelihood=-10.8113	log10_qual_likelihood_position_model=28.4604	log10_strand_likelihood_position_model=16.383	new_cov=30/0	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=41/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/140
RA	443	.	NC_007779	4000535	1	.	A	bias_e_value=1242430	bias_p_value=0.2674	fisher_strand_p_value=0.507571	frequency=7.194519e-03	genotype_quality=1379.5	ks_quality_p_value=0.146343	log10_base_likelihood=-8.12053	log10_qual_likelihood_position_model=1.35377	log10_strand_likelihood_position_model=0.491968	new_cov=2/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=3.3159e-08	ref_cov=156/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=158/120
RA	444	.	NC_007779	4016762	0	T	C	bias_e_value=120130	bias_p_value=0.0258549	fisher_strand_p_value=0.00395879	frequency=1.771259e-02	genotype_quality=1044.2	ks_quality_p_value=0.999855	log10_base_likelihood=-6.22514	log10_qual_likelihood_position_model=8.21439	log10_strand_likelihood_position_model=2.40244	new_cov=5/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=84/176	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=89/176
RA	445	.	NC_007779	4023064	1	.	G	bias_e_value=3364580	bias_p_value=0.724138	fisher_strand_p_value=0.497436	frequency=1.025581e-02	genotype_quality=962.8	ks_quality_p_value=0.71655	log10_base_likelihood=-8.38738	log10_qual_likelihood_position_model=1.00011	log10_strand_likelihood_position_model=0.599839	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=9.81511e-09	ref_cov=96/97	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/97
RA	446	.	NC_007779	4029622	1	.	G	bias_e_value=2190900	bias_p_value=0.471533	fisher_strand_p_value=0.246606	frequency=9.049416e-03	genotype_quality=1071.4	ks_quality_p_value=0.690044	log10_base_likelihood=-8.2764	log10_qual_likelihood_position_model=1.10452	log10_strand_likelihood_position_model=0.607996	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.66841e-08	ref_cov=108/111	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=110/111
RA	447	.	NC_007779	4029633	0	T	G	bias_e_value=4.34375e-09	bias_p_value=9.34878e-16	fisher_strand_p_value=2.38023e-17	frequency=1.069393e-01	genotype_quality=598.3	ks_quality_p_value=1	log10_base_likelihood=-12.8886	log10_qual_likelihood_position_model=28.6959	log10_strand_likelihood_position_model=16.6234	new_cov=32/0	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=37/121	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=69/121
RA	448	.	NC_007779	4031691	1	.	T	bias_e_value=62078.6	bias_p_value=0.0133608	fisher_strand_p_value=0.0033327	frequency=2.352905e-02	genotype_quality=811.8	ks_quality_p_value=0.548889	log10_base_likelihood=-18.6429	log10_qual_likelihood_position_model=2.24394	log10_strand_likelihood_position_model=2.4772	new_cov=4/0	polymorphism_quality=13.3	quality=13.3	quality_position_model=5.10465e-16	ref_cov=38/128	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=42/128
RA	449	.	NC_007779	4031700	0	T	C	bias_e_value=0.957633	bias_p_value=2.06105e-07	fisher_strand_p_value=1.0647e-08	frequency=4.337215e-02	genotype_quality=574.7	ks_quality_p_value=1	log10_base_likelihood=-8.27896	log10_qual_likelihood_position_model=10.3044	log10_strand_likelihood_position_model=7.97277	new_cov=9/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=17/146	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=26/146
RA	450	.	NC_007779	4036507	0	G	T	bias_e_value=40.3108	bias_p_value=8.67583e-06	fisher_strand_p_value=6.28468e-07	frequency=4.038906e-02	genotype_quality=896.1	ks_quality_p_value=0.897075	log10_base_likelihood=-6.08314	log10_qual_likelihood_position_model=20.7901	log10_strand_likelihood_position_model=6.26225	new_cov=0/21	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=137/128	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=137/150
RA	451	.	NC_007779	4043703	0	C	A	bias_e_value=0.269053	bias_p_value=5.79065e-08	fisher_strand_p_value=2.79818e-09	frequency=7.673359e-02	genotype_quality=715.3	ks_quality_p_value=1	log10_base_likelihood=-9.07365	log10_qual_likelihood_position_model=17.8587	log10_strand_likelihood_position_model=8.58781	new_cov=30/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=105/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=136/112
RA	452	.	NC_007779	4052978	0	G	T	bias_e_value=3.64154e-06	bias_p_value=7.83745e-13	fisher_strand_p_value=2.4226e-14	frequency=7.285166e-02	genotype_quality=875.6	ks_quality_p_value=1	log10_base_likelihood=-9.44263	log10_qual_likelihood_position_model=21.9398	log10_strand_likelihood_position_model=13.6157	new_cov=0/35	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=157/91	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=157/126
RA	453	.	NC_007779	4055100	0	G	T	bias_e_value=57.5063	bias_p_value=1.23767e-05	fisher_strand_p_value=8.71768e-07	frequency=5.354643e-02	genotype_quality=799.7	ks_quality_p_value=0.945959	log10_base_likelihood=-12.8048	log10_qual_likelihood_position_model=19.3824	log10_strand_likelihood_position_model=6.0596	new_cov=15/0	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=84/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/141
RA	454	.	NC_007779	4055329	0	T	G	bias_e_value=1.04257e-18	bias_p_value=2.24385e-25	fisher_strand_p_value=3.62603e-27	frequency=1.243553e-01	genotype_quality=666.8	ks_quality_p_value=1	log10_base_likelihood=-22.8413	log10_qual_likelihood_position_model=34.0278	log10_strand_likelihood_position_model=26.4406	new_cov=36/0	polymorphism_quality=17.6	quality=17.6	quality_position_model=Inf	ref_cov=19/158	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=55/158
RA	455	.	NC_007779	4059484	1	.	T	bias_e_value=1303830	bias_p_value=0.280616	fisher_strand_p_value=1	frequency=8.474350e-03	genotype_quality=1152.0	ks_quality_p_value=0.0794296	log10_base_likelihood=-8.22061	log10_qual_likelihood_position_model=1.6648	log10_strand_likelihood_position_model=0.306261	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.521e-08	ref_cov=132/102	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/103
RA	456	.	NC_007779	4059485	0	T	.	bias_e_value=1673800	bias_p_value=0.360242	fisher_strand_p_value=0.170037	frequency=2.091122e-02	genotype_quality=956.6	ks_quality_p_value=0.666887	log10_base_likelihood=-14.6424	log10_qual_likelihood_position_model=4.41999	log10_strand_likelihood_position_model=1.00161	new_cov=1/4	polymorphism_quality=9.3	quality=9.3	quality_position_model=3.12775e-11	ref_cov=134/100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=135/104
RA	457	.	NC_007779	4062114	0	T	G	bias_e_value=2.68569e-11	bias_p_value=5.78023e-18	fisher_strand_p_value=1.2993e-19	frequency=1.193533e-01	genotype_quality=598.5	ks_quality_p_value=1	log10_base_likelihood=-12.6821	log10_qual_likelihood_position_model=31.3129	log10_strand_likelihood_position_model=18.8863	new_cov=40/0	polymorphism_quality=7.3	quality=7.3	quality_position_model=Inf	ref_cov=42/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/120
RA	458	.	NC_007779	4064463	0	G	T	bias_e_value=0.584038	bias_p_value=1.25699e-07	fisher_strand_p_value=6.32317e-09	frequency=6.915331e-02	genotype_quality=804.3	ks_quality_p_value=1	log10_base_likelihood=-12.931	log10_qual_likelihood_position_model=16.7673	log10_strand_likelihood_position_model=8.2355	new_cov=0/27	polymorphism_quality=7.6	quality=7.6	quality_position_model=Inf	ref_cov=130/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/142
RA	459	.	NC_007779	4084209	0	A	G	bias_e_value=2.54358	bias_p_value=5.47437e-07	fisher_strand_p_value=2.98716e-08	frequency=5.259180e-02	genotype_quality=762.5	ks_quality_p_value=1	log10_base_likelihood=-6.24949	log10_qual_likelihood_position_model=15.4333	log10_strand_likelihood_position_model=7.52474	new_cov=21/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=100/142	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=121/142
RA	460	.	NC_007779	4090749	0	A	T	frequency=1	genotype_quality=871.0	new_cov=112/108	quality=871.0	ref_cov=0/0	tot_cov=112/108
RA	461	.	NC_007779	4098730	0	G	T	bias_e_value=0.000133356	bias_p_value=2.87013e-11	fisher_strand_p_value=1.00255e-12	frequency=8.863592e-02	genotype_quality=797.4	ks_quality_p_value=1	log10_base_likelihood=-22.6437	log10_qual_likelihood_position_model=22.5281	log10_strand_likelihood_position_model=11.9989	new_cov=0/33	polymorphism_quality=17.4	quality=17.4	quality_position_model=Inf	ref_cov=142/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=142/125
RA	462	.	NC_007779	4114782	0	G	T	bias_e_value=4.24731	bias_p_value=9.14121e-07	fisher_strand_p_value=5.14026e-08	frequency=4.769802e-02	genotype_quality=888.6	ks_quality_p_value=1	log10_base_likelihood=-9.56995	log10_qual_likelihood_position_model=20.9446	log10_strand_likelihood_position_model=7.37469	new_cov=0/24	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=134/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=134/143
RA	463	.	NC_007779	4115400	1	.	C	bias_e_value=1449550	bias_p_value=0.311978	fisher_strand_p_value=0.0939345	frequency=1.233482e-02	genotype_quality=767.3	ks_quality_p_value=0.9815	log10_base_likelihood=-5.83002	log10_qual_likelihood_position_model=2.81428	log10_strand_likelihood_position_model=1.02717	new_cov=0/2	polymorphism_quality=0.3	quality=0.3	quality_position_model=0.00107698	ref_cov=112/48	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/50
RA	464	.	NC_007779	4124974	0	G	T	bias_e_value=8.1192e-05	bias_p_value=1.74744e-11	fisher_strand_p_value=5.9962e-13	frequency=8.632135e-02	genotype_quality=877.1	ks_quality_p_value=1	log10_base_likelihood=-12.4425	log10_qual_likelihood_position_model=21.037	log10_strand_likelihood_position_model=12.2221	new_cov=0/34	polymorphism_quality=7.1	quality=7.1	quality_position_model=Inf	ref_cov=148/98	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=148/132
RA	465	.	NC_007779	4135559	1	.	A	bias_e_value=383734	bias_p_value=0.0825885	fisher_strand_p_value=0.0161031	frequency=1.234245e-02	genotype_quality=771.9	ks_quality_p_value=1	log10_base_likelihood=-6.16824	log10_qual_likelihood_position_model=3.03613	log10_strand_likelihood_position_model=1.79309	new_cov=0/2	polymorphism_quality=0.6	quality=0.6	quality_position_model=0.00569159	ref_cov=141/19	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=141/21
RA	466	.	NC_007779	4148399	0	A	C	bias_e_value=1.31972e-07	bias_p_value=2.84036e-14	fisher_strand_p_value=7.94076e-16	frequency=8.006287e-02	genotype_quality=685.0	ks_quality_p_value=1	log10_base_likelihood=-8.80722	log10_qual_likelihood_position_model=26.4638	log10_strand_likelihood_position_model=15.1001	new_cov=0/33	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=131/54	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/87
RA	467	.	NC_007779	4152489	0	G	T	bias_e_value=313.405	bias_p_value=6.7452e-05	fisher_strand_p_value=5.11658e-06	frequency=4.780769e-02	genotype_quality=816.9	ks_quality_p_value=1	log10_base_likelihood=-10.4844	log10_qual_likelihood_position_model=15.4364	log10_strand_likelihood_position_model=5.38303	new_cov=0/20	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=111/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/141
RA	468	.	NC_007779	4158580	1	.	A	bias_e_value=3936270	bias_p_value=0.847178	fisher_strand_p_value=0.500873	frequency=1.041412e-02	genotype_quality=945.9	ks_quality_p_value=1	log10_base_likelihood=-6.61005	log10_qual_likelihood_position_model=3.66124	log10_strand_likelihood_position_model=0.534464	new_cov=0/2	polymorphism_quality=1.1	quality=1.1	quality_position_model=0.000371363	ref_cov=88/102	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=88/104
RA	469	.	NC_007779	4163966	1	.	T	bias_e_value=4595200	bias_p_value=0.988996	fisher_strand_p_value=1	frequency=1.265812e-02	genotype_quality=1141.9	ks_quality_p_value=0.855366	log10_base_likelihood=-12.2245	log10_qual_likelihood_position_model=2.8746	log10_strand_likelihood_position_model=0.422296	new_cov=1/2	polymorphism_quality=6.8	quality=6.8	quality_position_model=6.2394e-11	ref_cov=117/117	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=118/119
RA	470	.	NC_007779	4165991	0	A	C	frequency=1	genotype_quality=1060.2	new_cov=123/128	quality=1060.2	ref_cov=0/0	tot_cov=123/128
RA	471	.	NC_007779	4174730	0	T	.	bias_e_value=4431030	bias_p_value=0.953662	fisher_strand_p_value=1	frequency=1.326561e-02	genotype_quality=892.0	ks_quality_p_value=0.711445	log10_base_likelihood=-8.1778	log10_qual_likelihood_position_model=2.00788	log10_strand_likelihood_position_model=0.420165	new_cov=2/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.15728e-07	ref_cov=111/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/112
RA	472	.	NC_007779	4197139	0	T	G	bias_e_value=2.2306e-08	bias_p_value=4.80077e-15	fisher_strand_p_value=1.27691e-16	frequency=9.850359e-02	genotype_quality=532.4	ks_quality_p_value=1	log10_base_likelihood=-20.8908	log10_qual_likelihood_position_model=18.0261	log10_strand_likelihood_position_model=15.8938	new_cov=18/0	polymorphism_quality=15.6	quality=15.6	quality_position_model=Inf	ref_cov=10/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=28/125
RA	473	.	NC_007779	4203025	0	C	T	bias_e_value=4645780	bias_p_value=0.999882	fisher_strand_p_value=1	frequency=1.433754e-02	genotype_quality=1153.2	ks_quality_p_value=0.984661	log10_base_likelihood=-6.24579	log10_qual_likelihood_position_model=3.79973	log10_strand_likelihood_position_model=0.42475	new_cov=2/2	polymorphism_quality=0.7	quality=0.7	quality_position_model=0.000991743	ref_cov=129/142	reject=EVALUE	tot_cov=132/144
RA	474	.	NC_007779	4207565	0	C	A	bias_e_value=0.284238	bias_p_value=6.11747e-08	fisher_strand_p_value=2.96438e-09	frequency=4.660892e-02	genotype_quality=788.8	ks_quality_p_value=1	log10_base_likelihood=-6.43748	log10_qual_likelihood_position_model=20.6827	log10_strand_likelihood_position_model=8.52807	new_cov=24/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=96/137	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/137
RA	475	.	NC_007779	4226513	0	C	A	bias_e_value=0.37459	bias_p_value=8.06205e-08	fisher_strand_p_value=3.96239e-09	frequency=5.740786e-02	genotype_quality=915.3	ks_quality_p_value=1	log10_base_likelihood=-12.0392	log10_qual_likelihood_position_model=17.9053	log10_strand_likelihood_position_model=8.40204	new_cov=25/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=114/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=139/148
RA	476	.	NC_007779	4227183	0	T	G	bias_e_value=1.29153e-08	bias_p_value=2.77969e-15	fisher_strand_p_value=7.28464e-17	frequency=7.836819e-02	genotype_quality=735.5	ks_quality_p_value=1	log10_base_likelihood=-8.96986	log10_qual_likelihood_position_model=27.6246	log10_strand_likelihood_position_model=16.1376	new_cov=34/0	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=58/148	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=94/148
RA	477	.	NC_007779	4276181	0	C	T	bias_e_value=2998370	bias_p_value=0.64532	fisher_strand_p_value=0.350051	frequency=1.518631e-02	genotype_quality=1042.0	ks_quality_p_value=0.820031	log10_base_likelihood=-5.95033	log10_qual_likelihood_position_model=4.97582	log10_strand_likelihood_position_model=0.645243	new_cov=1/3	polymorphism_quality=0.4	quality=0.4	quality_position_model=0.106891	ref_cov=133/119	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=134/122
RA	478	.	NC_007779	4289840	0	G	T	bias_e_value=4.588	bias_p_value=9.87446e-07	fisher_strand_p_value=5.57822e-08	frequency=4.780722e-02	genotype_quality=790.6	ks_quality_p_value=1	log10_base_likelihood=-7.3388	log10_qual_likelihood_position_model=12.8914	log10_strand_likelihood_position_model=7.2535	new_cov=0/20	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=140/97	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=140/117
RA	479	.	NC_007779	4297968	0	A	.	bias_e_value=4620590	bias_p_value=0.994459	fisher_strand_p_value=1	frequency=1.148701e-02	genotype_quality=1062.7	ks_quality_p_value=0.896595	log10_base_likelihood=-8.3063	log10_qual_likelihood_position_model=1.08909	log10_strand_likelihood_position_model=0.398539	new_cov=2/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=9.11396e-09	ref_cov=137/121	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/122
RA	480	.	NC_007779	4304641	0	T	G	bias_e_value=0.000611396	bias_p_value=1.31587e-10	fisher_strand_p_value=4.86475e-12	frequency=7.187796e-02	genotype_quality=560.9	ks_quality_p_value=1	log10_base_likelihood=-5.83715	log10_qual_likelihood_position_model=20.621	log10_strand_likelihood_position_model=11.3129	new_cov=25/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=47/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=72/109
RA	481	.	NC_007779	4322023	0	T	.	bias_e_value=4170670	bias_p_value=0.897627	fisher_strand_p_value=1	frequency=1.051521e-02	genotype_quality=1098.8	ks_quality_p_value=0.583109	log10_base_likelihood=-7.75308	log10_qual_likelihood_position_model=3.27731	log10_strand_likelihood_position_model=0.419911	new_cov=2/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=6.72134e-06	ref_cov=142/140	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=144/141
RA	482	.	NC_007779	4337469	0	A	C	bias_e_value=7.23753e-09	bias_p_value=1.55769e-15	fisher_strand_p_value=4.01955e-17	frequency=1.273170e-01	genotype_quality=593.8	ks_quality_p_value=1	log10_base_likelihood=-16.0852	log10_qual_likelihood_position_model=29.7477	log10_strand_likelihood_position_model=16.3993	new_cov=1/33	polymorphism_quality=10.8	quality=10.8	quality_position_model=Inf	ref_cov=122/34	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/68
RA	483	.	NC_007779	4348529	0	T	G	bias_e_value=0.00359048	bias_p_value=7.72757e-10	fisher_strand_p_value=3.06549e-11	frequency=5.610228e-02	genotype_quality=730.1	ks_quality_p_value=1	log10_base_likelihood=-9.03978	log10_qual_likelihood_position_model=28.7651	log10_strand_likelihood_position_model=10.5135	new_cov=23/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=64/141	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/141
RA	484	.	NC_007779	4371271	0	A	.	frequency=1	genotype_quality=1219.8	new_cov=124/117	quality=1219.8	ref_cov=0/0	tot_cov=124/117
RA	485	.	NC_007779	4371272	0	A	.	frequency=1	genotype_quality=1219.8	new_cov=124/117	quality=1219.8	ref_cov=0/0	tot_cov=124/117
RA	486	.	NC_007779	4414725	0	T	.	bias_e_value=2436220	bias_p_value=0.524332	fisher_strand_p_value=0.337364	frequency=2.117920e-02	genotype_quality=922.4	ks_quality_p_value=0.597344	log10_base_likelihood=-15.083	log10_qual_likelihood_position_model=2.94448	log10_strand_likelihood_position_model=0.780803	new_cov=3/2	polymorphism_quality=9.7	quality=9.7	quality_position_model=2.06444e-13	ref_cov=76/155	reject=INDEL_HOMOPOLYMER	tot_cov=79/157
RA	487	.	NC_007779	4420066	0	C	A	bias_e_value=4.79367	bias_p_value=1.03171e-06	fisher_strand_p_value=5.84362e-08	frequency=3.682232e-02	genotype_quality=856.6	ks_quality_p_value=1	log10_base_likelihood=-6.59475	log10_qual_likelihood_position_model=15.7195	log10_strand_likelihood_position_model=7.23332	new_cov=19/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=95/147	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/147
RA	488	.	NC_007779	4429120	0	G	T	bias_e_value=0.104689	bias_p_value=2.25316e-08	fisher_strand_p_value=1.12655e-09	frequency=5.178499e-02	genotype_quality=818.9	ks_quality_p_value=0.922326	log10_base_likelihood=-7.01108	log10_qual_likelihood_position_model=25.4311	log10_strand_likelihood_position_model=8.94825	new_cov=0/24	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=143/93	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=143/117
RA	489	.	NC_007779	4455463	0	T	G	bias_e_value=0.000901877	bias_p_value=1.94105e-10	fisher_strand_p_value=7.29376e-12	frequency=7.733822e-02	genotype_quality=668.2	ks_quality_p_value=0.998772	log10_base_likelihood=-14.7874	log10_qual_likelihood_position_model=24.8666	log10_strand_likelihood_position_model=11.137	new_cov=24/0	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=56/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=81/130
RA	490	.	NC_007779	4465551	0	T	G	bias_e_value=0.00050769	bias_p_value=1.09267e-10	fisher_strand_p_value=4.01097e-12	frequency=4.691124e-02	genotype_quality=696.0	ks_quality_p_value=1	log10_base_likelihood=-6.17869	log10_qual_likelihood_position_model=21.5345	log10_strand_likelihood_position_model=11.3968	new_cov=24/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=57/137	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=81/137
RA	491	.	NC_007779	4500576	0	C	T	bias_e_value=280049	bias_p_value=0.0602731	fisher_strand_p_value=0.249088	frequency=1.259708e-02	genotype_quality=977.1	ks_quality_p_value=0.0438627	log10_base_likelihood=-5.65853	log10_qual_likelihood_position_model=2.55596	log10_strand_likelihood_position_model=0.838491	new_cov=3/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=0.000539825	ref_cov=122/112	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=125/112
RA	492	.	NC_007779	4540870	0	T	G	bias_e_value=1.02808e-19	bias_p_value=2.21268e-26	fisher_strand_p_value=3.44463e-28	frequency=1.454954e-01	genotype_quality=720.6	ks_quality_p_value=1	log10_base_likelihood=-21.7423	log10_qual_likelihood_position_model=42.4864	log10_strand_likelihood_position_model=27.4629	new_cov=52/0	polymorphism_quality=16.5	quality=16.5	quality_position_model=Inf	ref_cov=39/150	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=91/150
RA	493	.	NC_007779	4540877	0	A	T	bias_e_value=1.9279e-06	bias_p_value=4.14929e-13	fisher_strand_p_value=1.25708e-14	frequency=1.106458e-01	genotype_quality=658.8	ks_quality_p_value=1	log10_base_likelihood=-20.1019	log10_qual_likelihood_position_model=20.7645	log10_strand_likelihood_position_model=13.9006	new_cov=27/0	polymorphism_quality=14.8	quality=14.8	quality_position_model=Inf	ref_cov=50/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=77/144
RA	494	.	NC_007779	4546535	0	T	A	frequency=1	genotype_quality=852.4	new_cov=112/94	quality=852.4	ref_cov=0/0	tot_cov=112/94
RA	495	.	NC_007779	4553745	0	C	A	bias_e_value=487.194	bias_p_value=0.000104856	fisher_strand_p_value=8.25315e-06	frequency=3.859234e-02	genotype_quality=750.4	ks_quality_p_value=1	log10_base_likelihood=-5.78001	log10_qual_likelihood_position_model=17.6789	log10_strand_likelihood_position_model=5.35223	new_cov=17/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=102/118	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/118
RA	496	.	NC_007779	4554525	1	.	T	bias_e_value=501385	bias_p_value=0.10791	fisher_strand_p_value=0.063992	frequency=1.456261e-02	genotype_quality=969.6	ks_quality_p_value=0.351769	log10_base_likelihood=-12.876	log10_qual_likelihood_position_model=3.86043	log10_strand_likelihood_position_model=1.19387	new_cov=3/0	polymorphism_quality=7.5	quality=7.5	quality_position_model=8.48094e-10	ref_cov=80/123	reject=POLYMORPHISM_STRAND	tot_cov=83/123
RA	497	.	NC_007779	4561440	1	.	T	bias_e_value=4629740	bias_p_value=0.996429	fisher_strand_p_value=1	frequency=9.174347e-03	genotype_quality=1074.2	ks_quality_p_value=0.91669	log10_base_likelihood=-8.07143	log10_qual_likelihood_position_model=2.06426	log10_strand_likelihood_position_model=0.312434	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.31949e-07	ref_cov=127/89	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=128/90
RA	498	.	NC_007779	4573184	0	T	G	bias_e_value=4.44827e-05	bias_p_value=9.57372e-12	fisher_strand_p_value=3.2164e-13	frequency=5.690670e-02	genotype_quality=876.7	ks_quality_p_value=1	log10_base_likelihood=-9.53967	log10_qual_likelihood_position_model=24.5834	log10_strand_likelihood_position_model=12.4926	new_cov=36/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=108/154	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=149/154
RA	499	.	NC_007779	4599760	0	C	A	bias_e_value=0.000455582	bias_p_value=9.8052e-11	fisher_strand_p_value=3.58451e-12	frequency=8.113480e-02	genotype_quality=849.8	ks_quality_p_value=1	log10_base_likelihood=-12.1208	log10_qual_likelihood_position_model=21.683	log10_strand_likelihood_position_model=11.4456	new_cov=32/0	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=99/147	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/147
RA	500	.	NC_007779	4601746	1	.	T	bias_e_value=4294240	bias_p_value=0.924221	fisher_strand_p_value=1	frequency=7.518768e-03	genotype_quality=1303.2	ks_quality_p_value=0.636873	log10_base_likelihood=-8.14645	log10_qual_likelihood_position_model=1.43584	log10_strand_likelihood_position_model=0.300279	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=2.40265e-08	ref_cov=138/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=139/127
RA	501	.	NC_007779	4610781	0	A	C	bias_e_value=0.00230478	bias_p_value=4.96043e-10	fisher_strand_p_value=1.93241e-11	frequency=7.540512e-02	genotype_quality=792.4	ks_quality_p_value=1	log10_base_likelihood=-23.7158	log10_qual_likelihood_position_model=21.8155	log10_strand_likelihood_position_model=10.7139	new_cov=0/24	polymorphism_quality=18.5	quality=18.5	quality_position_model=Inf	ref_cov=151/72	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=151/98
RA	502	.	NC_007779	4635770	0	G	T	bias_e_value=61.2343	bias_p_value=1.31791e-05	fisher_strand_p_value=8.82075e-07	frequency=6.454897e-02	genotype_quality=670.6	ks_quality_p_value=1	log10_base_likelihood=-13.4881	log10_qual_likelihood_position_model=13.6697	log10_strand_likelihood_position_model=6.23195	new_cov=0/22	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=106/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/126
RA	503	.	NC_007779	4636470	0	C	G	bias_e_value=1.2716e-07	bias_p_value=2.73678e-14	fisher_strand_p_value=7.64301e-16	frequency=9.711790e-02	genotype_quality=752.2	ks_quality_p_value=1	log10_base_likelihood=-17.4988	log10_qual_likelihood_position_model=23.5979	log10_strand_likelihood_position_model=15.1167	new_cov=24/0	polymorphism_quality=12.2	quality=12.2	quality_position_model=Inf	ref_cov=35/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=59/153
MC	504	.	NC_007779	274733	371972	0	0	left_inside_cov=0	left_outside_cov=251	right_inside_cov=0	right_outside_cov=250
MC	505	.	NC_007779	654214	655412	1195	0	left_inside_cov=0	left_outside_cov=331	right_inside_cov=0	right_outside_cov=331
MC	506	.	NC_007779	1288305	1288517	77	58	left_inside_cov=177	left_outside_cov=182	right_inside_cov=180	right_outside_cov=182
MC	507	.	NC_007779	1301041	1302376	1326	0	left_inside_cov=0	left_outside_cov=284	right_inside_cov=0	right_outside_cov=278
MC	508	.	NC_007779	1413639	1436698	0	0	left_inside_cov=0	left_outside_cov=297	right_inside_cov=0	right_outside_cov=294
MC	509	.	NC_007779	2176983	2178208	0	0	left_inside_cov=0	left_outside_cov=304	right_inside_cov=0	right_outside_cov=346
MC	510	.	NC_007779	2320795	2322130	1327	0	left_inside_cov=1	left_outside_cov=247	right_inside_cov=0	right_outside_cov=244
MC	511	.	NC_007779	3128828	3147473	1170	0	left_inside_cov=178	left_outside_cov=181	right_inside_cov=0	right_outside_cov=439
MC	512	.	NC_007779	3261134	3262337	1198	0	left_inside_cov=0	left_outside_cov=263	right_inside_cov=0	right_outside_cov=268
MC	513	.	NC_007779	3742936	3744271	1325	0	left_inside_cov=0	left_outside_cov=289	right_inside_cov=1	right_outside_cov=289
MC	514	.	NC_007779	3746911	3748109	0	0	left_inside_cov=0	left_outside_cov=266	right_inside_cov=1	right_outside_cov=267
MC	515	.	NC_007779	3750591	3751789	1196	0	left_inside_cov=0	left_outside_cov=332	right_inside_cov=0	right_outside_cov=329
MC	516	.	NC_007779	3958123	3958156	0	0	left_inside_cov=0	left_outside_cov=266	right_inside_cov=0	right_outside_cov=266
MC	517	.	NC_007779	4310363	4311561	0	0	left_inside_cov=0	left_outside_cov=271	right_inside_cov=0	right_outside_cov=272
JC	518	.	NC_007779	1	1	NC_007779	4646332	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=94	coverage_plus=139	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=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.97	new_junction_frequency=1.000000e+00	new_junction_read_count=234	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=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=233
JC	519	.	NC_007779	274373	-1	NC_007779	675375	1	0	alignment_overlap=0	coverage_minus=4	coverage_plus=9	flanking_left=101	flanking_right=101	frequency=3.963415e-02	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__675375__1__0____101__101__1__0	max_left=64	max_left_minus=38	max_left_plus=64	max_min_left=38	max_min_left_minus=38	max_min_left_plus=38	max_min_right=47	max_min_right_minus=0	max_min_right_plus=47	max_pos_hash_score=180	max_right=89	max_right_minus=78	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.05	new_junction_frequency=3.963415e-02	new_junction_read_count=13	pos_hash_score=12	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=1.30	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=315	side_2_redundant=0	total_non_overlap_reads=13
JC	520	.	NC_007779	274373	-1	NC_007779	678446	1	0	alignment_overlap=0	coverage_minus=21	coverage_plus=18	flanking_left=101	flanking_right=101	frequency=1.074380e-01	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__678446__1__0____101__101__1__0	max_left=84	max_left_minus=77	max_left_plus=84	max_min_left=50	max_min_left_minus=47	max_min_left_plus=50	max_min_right=47	max_min_right_minus=47	max_min_right_plus=42	max_pos_hash_score=180	max_right=94	max_right_minus=94	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.16	new_junction_frequency=1.074380e-01	new_junction_read_count=39	pos_hash_score=37	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=1.34	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=324	side_2_redundant=0	total_non_overlap_reads=39
JC	521	.	NC_007779	274373	-1	NC_007779	679094	1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=1.572327e-02	junction_possible_overlap_registers=90	key=NC_007779__274373__-1__NC_007779__679094__1__0____101__101__1__0	max_left=69	max_left_minus=37	max_left_plus=69	max_min_left=37	max_min_left_minus=37	max_min_left_plus=29	max_min_right=39	max_min_right_minus=0	max_min_right_plus=39	max_pos_hash_score=180	max_right=84	max_right_minus=84	max_right_plus=72	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=1.572327e-02	new_junction_read_count=5	pos_hash_score=5	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.29	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=313	side_2_redundant=0	total_non_overlap_reads=5
JC	522	.	NC_007779	274732	-1	NC_007779	371973	1	0	alignment_overlap=10	coverage_minus=98	coverage_plus=92	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=80	key=NC_007779__274732__-1__NC_007779__371963__1__10____101__101__0__0	max_left=85	max_left_minus=85	max_left_plus=85	max_min_left=45	max_min_left_minus=44	max_min_left_plus=45	max_min_right=45	max_min_right_minus=43	max_min_right_plus=45	max_pos_hash_score=160	max_right=84	max_right_minus=84	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.89	new_junction_frequency=1.000000e+00	new_junction_read_count=191	pos_hash_score=113	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=10	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=80	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=190
JC	523	.	NC_007779	289856	1	NC_007779	2176982	-1	-33	alignment_overlap=-33	coverage_minus=101	coverage_plus=78	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=61	max_min_left=33	max_min_left_minus=33	max_min_left_plus=33	max_min_right=34	max_min_right_minus=34	max_min_right_plus=34	max_pos_hash_score=114	max_right=62	max_right_minus=62	max_right_plus=62	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.17	new_junction_frequency=1.000000e+00	new_junction_read_count=180	pos_hash_score=88	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=179	unique_read_sequence=CTATTGCAATACCGCATTGTGAGGCGATTCATG
JC	524	.	NC_007779	380484	1	NC_007779	381407	-1	0	alignment_overlap=0	coverage_minus=115	coverage_plus=74	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=92	max_left_minus=89	max_left_plus=92	max_min_left=50	max_min_left_minus=50	max_min_left_plus=47	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.79	new_junction_frequency=NA	new_junction_read_count=191	pos_hash_score=111	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=189
JC	525	.	NC_007779	381401	1	NC_007779	381812	-1	0	alignment_overlap=2	coverage_minus=97	coverage_plus=119	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=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=0.91	new_junction_frequency=NA	new_junction_read_count=216	pos_hash_score=121	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=216
JC	526	.	NC_007779	608570	-1	NC_007779	1305025	1	0	alignment_overlap=3	coverage_minus=103	coverage_plus=136	flanking_left=101	flanking_right=101	frequency=9.686571e-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=90	max_min_left=48	max_min_left_minus=48	max_min_left_plus=46	max_min_right=49	max_min_right_minus=48	max_min_right_plus=49	max_pos_hash_score=174	max_right=92	max_right_minus=92	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.02	new_junction_frequency=9.686571e-01	new_junction_read_count=239	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=0.03	side_2_overlap=3	side_2_possible_overlap_registers=90	side_2_read_count=8	side_2_redundant=0	total_non_overlap_reads=239
JC	527	.	NC_007779	654213	-1	NC_007779	655413	1	0	alignment_overlap=5	coverage_minus=152	coverage_plus=143	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=89	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=48	max_min_right_plus=48	max_pos_hash_score=170	max_right=90	max_right_minus=90	max_right_plus=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.29	new_junction_frequency=1.000000e+00	new_junction_read_count=296	pos_hash_score=137	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=295
JC	528	.	NC_007779	674753	1	NC_007779	689467	-1	0	alignment_overlap=0	coverage_minus=4	coverage_plus=9	flanking_left=101	flanking_right=101	frequency=4.498270e-02	junction_possible_overlap_registers=90	key=NC_007779__674753__1__NC_007779__689467__-1__0____101__101__0__1	max_left=89	max_left_minus=89	max_left_plus=86	max_min_left=29	max_min_left_minus=23	max_min_left_plus=29	max_min_right=42	max_min_right_minus=20	max_min_right_plus=42	max_pos_hash_score=180	max_right=78	max_right_minus=78	max_right_plus=78	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.05	new_junction_frequency=4.498270e-02	new_junction_read_count=13	pos_hash_score=11	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.14	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=276	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=13
JC	529	.	NC_007779	674958	1	NC_007779	689466	-1	0	alignment_overlap=1	coverage_minus=3	coverage_plus=1	flanking_left=101	flanking_right=101	frequency=1.399417e-02	junction_possible_overlap_registers=89	key=NC_007779__674958__1__NC_007779__689467__-1__1____101__101__0__1	max_left=72	max_left_minus=65	max_left_plus=72	max_min_left=20	max_min_left_minus=20	max_min_left_plus=0	max_min_right=45	max_min_right_minus=45	max_min_right_plus=28	max_pos_hash_score=178	max_right=80	max_right_minus=80	max_right_plus=28	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.02	new_junction_frequency=1.399417e-02	new_junction_read_count=4	pos_hash_score=4	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.18	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=285	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=4
JC	530	.	NC_007779	1209367	1	NC_007779	1211196	1	0	alignment_overlap=16	coverage_minus=27	coverage_plus=29	flanking_left=101	flanking_right=101	frequency=3.106126e-01	junction_possible_overlap_registers=74	key=NC_007779__1209367__1__NC_007779__1211180__1__16____101__101__0__0	max_left=79	max_left_minus=75	max_left_plus=79	max_min_left=40	max_min_left_minus=40	max_min_left_plus=40	max_min_right=41	max_min_right_minus=39	max_min_right_plus=41	max_pos_hash_score=148	max_right=79	max_right_minus=74	max_right_plus=79	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.28	new_junction_frequency=3.106126e-01	new_junction_read_count=56	pos_hash_score=46	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.59	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=143	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.66	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=131	side_2_redundant=0	total_non_overlap_reads=56
JC	531	.	NC_007779	1209382	-1	NC_007779	1211179	-1	0	alignment_overlap=16	coverage_minus=38	coverage_plus=14	flanking_left=101	flanking_right=101	frequency=2.970486e-01	junction_possible_overlap_registers=74	key=NC_007779__1209382__-1__NC_007779__1211195__-1__16____101__101__0__0	max_left=77	max_left_minus=77	max_left_plus=77	max_min_left=41	max_min_left_minus=41	max_min_left_plus=40	max_min_right=40	max_min_right_minus=39	max_min_right_plus=40	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=0.26	new_junction_frequency=2.970486e-01	new_junction_read_count=52	pos_hash_score=37	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.58	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=140	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.66	side_2_overlap=0	side_2_possible_overlap_registers=74	side_2_read_count=131	side_2_redundant=0	total_non_overlap_reads=52
JC	532	.	NC_007779	1221489	1	NC_007779	1301041	1	0	alignment_overlap=2	coverage_minus=116	coverage_plus=131	flanking_left=101	flanking_right=101	frequency=9.657321e-01	junction_possible_overlap_registers=88	key=NC_007779__1221489__1__NC_007779__1301039__1__2____101__101__0__1	max_left=93	max_left_minus=92	max_left_plus=93	max_min_left=49	max_min_left_minus=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=92	max_right_minus=91	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=9.657321e-01	new_junction_read_count=248	pos_hash_score=133	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.04	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=9	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=247
JC	533	.	NC_007779	1221495	-1	NC_007779	1302369	-1	0	alignment_overlap=0	coverage_minus=100	coverage_plus=78	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=47	max_min_right_plus=50	max_pos_hash_score=180	max_right=90	max_right_minus=88	max_right_plus=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.74	new_junction_frequency=1.000000e+00	new_junction_read_count=179	pos_hash_score=105	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=178
JC	534	.	NC_007779	1301040	-1	NC_007779	1302377	1	0	alignment_overlap=7	coverage_minus=109	coverage_plus=133	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=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.08	new_junction_frequency=1.000000e+00	new_junction_read_count=242	pos_hash_score=123	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=242
JC	535	.	NC_007779	1305037	-1	NC_007779	2519723	1	0	alignment_overlap=4	coverage_minus=129	coverage_plus=149	flanking_left=101	flanking_right=101	frequency=9.797932e-01	junction_possible_overlap_registers=86	key=NC_007779__1305037__-1__NC_007779__2519719__1__4____101__101__0__1	max_left=91	max_left_minus=91	max_left_plus=89	max_min_left=48	max_min_left_minus=48	max_min_left_plus=47	max_min_right=48	max_min_right_minus=48	max_min_right_plus=48	max_pos_hash_score=172	max_right=90	max_right_minus=90	max_right_plus=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.20	new_junction_frequency=9.797932e-01	new_junction_read_count=278	pos_hash_score=129	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=6	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=278
JC	536	.	NC_007779	1397758	1	NC_007779	1672777	1	0	alignment_overlap=0	coverage_minus=116	coverage_plus=119	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1397758__1__NC_007779__1672777__1__0____101__101__1__0	max_left=95	max_left_minus=94	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=47	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.97	new_junction_frequency=1.000000e+00	new_junction_read_count=235	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=235
JC	537	.	NC_007779	1413638	-1	NC_007779	1436699	1	0	alignment_overlap=26	coverage_minus=88	coverage_plus=95	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=64	key=NC_007779__1413638__-1__NC_007779__1436673__1__26____101__101__0__0	max_left=69	max_left_minus=69	max_left_plus=69	max_min_left=37	max_min_left_minus=34	max_min_left_plus=37	max_min_right=37	max_min_right_minus=35	max_min_right_plus=37	max_pos_hash_score=128	max_right=68	max_right_minus=68	max_right_plus=67	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.06	new_junction_frequency=1.000000e+00	new_junction_read_count=183	pos_hash_score=92	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=183
JC	538	.	NC_007779	1672780	-1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=105	coverage_plus=125	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1672780__-1__NC_007779__1980209__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=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=85	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.95	new_junction_frequency=1.000000e+00	new_junction_read_count=230	pos_hash_score=119	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=230
JC	539	.	NC_007779	1724326	-1	NC_007779	1724330	1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=1.206875e-01	junction_possible_overlap_registers=90	key=NC_007779__1724326__-1__NC_007779__1724330__1__0____101__101__0__0	max_left=73	max_left_minus=60	max_left_plus=73	max_min_left=39	max_min_left_minus=0	max_min_left_plus=39	max_min_right=41	max_min_right_minus=41	max_min_right_plus=28	max_pos_hash_score=158	max_right=74	max_right_minus=41	max_right_plus=74	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.12	new_junction_frequency=1.206875e-01	new_junction_read_count=30	pos_hash_score=4	side_1_annotate_key=gene	side_1_continuation=11	side_1_coverage=0.92	side_1_overlap=0	side_1_possible_overlap_registers=79	side_1_read_count=195	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.89	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=215	side_2_redundant=0	total_non_overlap_reads=4
JC	540	.	NC_007779	1907280	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=89	coverage_plus=93	flanking_left=101	flanking_right=101	frequency=9.238579e-01	junction_possible_overlap_registers=90	key=NC_007779__1907280__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	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=0.75	new_junction_frequency=9.238579e-01	new_junction_read_count=182	pos_hash_score=109	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.06	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=15	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=182
JC	541	.	NC_007779	1907288	-1	NC_007779	2411458	1	0	alignment_overlap=0	coverage_minus=114	coverage_plus=113	flanking_left=101	flanking_right=101	frequency=9.500000e-01	junction_possible_overlap_registers=90	key=NC_007779__1907288__-1__NC_007779__2411458__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.94	new_junction_frequency=9.500000e-01	new_junction_read_count=228	pos_hash_score=132	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=12	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
JC	542	.	NC_007779	1980091	1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=131	coverage_plus=39	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1980091__1__NC_007779__1980209__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=39	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.71	new_junction_frequency=1.000000e+00	new_junction_read_count=172	pos_hash_score=93	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=170
JC	543	.	NC_007779	1980095	-1	NC_007779	2176984	1	0	alignment_overlap=1	coverage_minus=131	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=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=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=0.99	new_junction_frequency=1.000000e+00	new_junction_read_count=236	pos_hash_score=138	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=236
JC	544	.	NC_007779	2178209	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=136	coverage_plus=135	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=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=1.12	new_junction_frequency=1.000000e+00	new_junction_read_count=271	pos_hash_score=131	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=271
JC	545	.	NC_007779	2320794	-1	NC_007779	2322131	1	0	alignment_overlap=6	coverage_minus=107	coverage_plus=105	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__2320794__-1__NC_007779__2322125__1__6____101__101__0__0	max_left=89	max_left_minus=89	max_left_plus=88	max_min_left=47	max_min_left_minus=47	max_min_left_plus=44	max_min_right=47	max_min_right_minus=47	max_min_right_plus=46	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.94	new_junction_frequency=1.000000e+00	new_junction_read_count=213	pos_hash_score=121	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=212
JC	546	.	NC_007779	2320794	1	NC_007779	2589834	-1	0	alignment_overlap=0	coverage_minus=98	coverage_plus=161	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2320794__1__NC_007779__2589834__-1__0____101__101__1__0	max_left=95	max_left_minus=95	max_left_plus=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=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=259	pos_hash_score=127	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=259
JC	547	.	NC_007779	2322124	-1	NC_007779	2589830	1	0	alignment_overlap=0	coverage_minus=144	coverage_plus=168	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=1.29	new_junction_frequency=1.000000e+00	new_junction_read_count=313	pos_hash_score=150	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=312
JC	548	.	NC_007779	2411458	1	NC_007779	2985055	-1	0	alignment_overlap=0	coverage_minus=106	coverage_plus=126	flanking_left=101	flanking_right=101	frequency=9.549180e-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=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.96	new_junction_frequency=9.549180e-01	new_junction_read_count=233	pos_hash_score=121	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.05	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=11	side_2_redundant=0	total_non_overlap_reads=232
JC	549	.	NC_007779	2412225	-1	NC_007779	2985047	1	0	alignment_overlap=0	coverage_minus=97	coverage_plus=103	flanking_left=101	flanking_right=101	frequency=9.756098e-01	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2985047__1__0____101__101__1__0	max_left=89	max_left_minus=88	max_left_plus=89	max_min_left=50	max_min_left_minus=48	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.83	new_junction_frequency=9.756098e-01	new_junction_read_count=200	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=0.02	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=5	side_2_redundant=0	total_non_overlap_reads=200
JC	550	.	NC_007779	2865229	1	NC_007779	2865274	-1	0	alignment_overlap=4	coverage_minus=122	coverage_plus=130	flanking_left=101	flanking_right=101	frequency=6.948428e-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=90	max_left_plus=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=47	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.09	new_junction_frequency=6.948428e-01	new_junction_read_count=253	pos_hash_score=118	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.54	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=130	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.42	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=98	side_2_redundant=0	total_non_overlap_reads=252
JC	551	.	NC_007779	3147474	1	NC_007779	3262328	-1	0	alignment_overlap=0	coverage_minus=146	coverage_plus=147	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3147474__1__NC_007779__3262328__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.21	new_junction_frequency=1.000000e+00	new_junction_read_count=293	pos_hash_score=149	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=293
JC	552	.	NC_007779	3186081	-1	NC_007779	3512753	1	0	alignment_overlap=1	coverage_minus=119	coverage_plus=90	flanking_left=101	flanking_right=101	frequency=9.860041e-01	junction_possible_overlap_registers=89	key=NC_007779__3186082__-1__NC_007779__3512753__1__1____101__101__1__0	max_left=84	max_left_minus=84	max_left_plus=81	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=0.87	new_junction_frequency=9.860041e-01	new_junction_read_count=209	pos_hash_score=111	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.01	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=3	side_2_redundant=0	total_non_overlap_reads=209
JC	553	.	NC_007779	3261133	-1	NC_007779	3748109	-1	-6	alignment_overlap=-6	coverage_minus=127	coverage_plus=102	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=88	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=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=229	pos_hash_score=132	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=229	unique_read_sequence=CTTTGC
JC	554	.	NC_007779	3261134	1	NC_007779	3265774	1	0	alignment_overlap=0	coverage_minus=96	coverage_plus=82	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3261134__1__NC_007779__3265774__1__0____101__101__1__0	max_left=85	max_left_minus=84	max_left_plus=85	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.74	new_junction_frequency=1.000000e+00	new_junction_read_count=179	pos_hash_score=99	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=178
JC	555	.	NC_007779	3261135	1	NC_007779	3262338	1	0	alignment_overlap=1	coverage_minus=125	coverage_plus=93	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=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.91	new_junction_frequency=1.000000e+00	new_junction_read_count=219	pos_hash_score=128	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=218
JC	556	.	NC_007779	3265777	-1	NC_007779	3365411	1	0	alignment_overlap=0	coverage_minus=143	coverage_plus=138	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=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.16	new_junction_frequency=1.000000e+00	new_junction_read_count=282	pos_hash_score=140	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=281
JC	557	.	NC_007779	3512759	-1	NC_007779	3744262	-1	0	alignment_overlap=1	coverage_minus=115	coverage_plus=118	flanking_left=101	flanking_right=101	frequency=9.916188e-01	junction_possible_overlap_registers=89	key=NC_007779__3512759__-1__NC_007779__3744263__-1__1____101__101__0__1	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=47	max_min_right_plus=50	max_pos_hash_score=178	max_right=84	max_right_minus=84	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=9.916188e-01	new_junction_read_count=234	pos_hash_score=121	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=2	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=233
JC	558	.	NC_007779	3742935	-1	NC_007779	3744272	1	0	alignment_overlap=8	coverage_minus=124	coverage_plus=110	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=82	key=NC_007779__3742935__-1__NC_007779__3744264__1__8____101__101__0__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=46	max_min_left_minus=45	max_min_left_plus=46	max_min_right=46	max_min_right_minus=46	max_min_right_plus=46	max_pos_hash_score=164	max_right=87	max_right_minus=87	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.06	new_junction_frequency=1.000000e+00	new_junction_read_count=234	pos_hash_score=123	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=234
JC	559	.	NC_007779	3744263	-1	NC_007779	3903274	1	0	alignment_overlap=0	coverage_minus=135	coverage_plus=127	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=92	max_left_minus=88	max_left_plus=92	max_min_left=50	max_min_left_minus=50	max_min_left_plus=48	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.09	new_junction_frequency=1.000000e+00	new_junction_read_count=263	pos_hash_score=132	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=262
JC	560	.	NC_007779	3746910	-1	NC_007779	3748110	1	0	alignment_overlap=4	coverage_minus=107	coverage_plus=111	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3746910__-1__NC_007779__3748106__1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=90	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=46	max_pos_hash_score=172	max_right=91	max_right_minus=90	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.96	new_junction_frequency=1.000000e+00	new_junction_read_count=222	pos_hash_score=120	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=218
JC	561	.	NC_007779	3746911	1	NC_007779	3748646	-1	0	alignment_overlap=0	coverage_minus=136	coverage_plus=103	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3746911__1__NC_007779__3748646__-1__0____101__101__1__0	max_left=91	max_left_minus=91	max_left_plus=91	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=1.000000e+00	new_junction_read_count=255	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=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=239
JC	562	.	NC_007779	3748105	-1	NC_007779	3748643	1	0	alignment_overlap=0	coverage_minus=135	coverage_plus=133	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=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.12	new_junction_frequency=1.000000e+00	new_junction_read_count=272	pos_hash_score=137	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=268
JC	563	.	NC_007779	3750590	-1	NC_007779	3751790	1	0	alignment_overlap=4	coverage_minus=128	coverage_plus=153	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=90	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.22	new_junction_frequency=1.000000e+00	new_junction_read_count=283	pos_hash_score=146	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=281
JC	564	.	NC_007779	3903279	-1	NC_007779	4504190	-1	0	alignment_overlap=1	coverage_minus=143	coverage_plus=111	flanking_left=101	flanking_right=101	frequency=9.885883e-01	junction_possible_overlap_registers=89	key=NC_007779__3903279__-1__NC_007779__4504191__-1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=48	max_min_right_plus=50	max_pos_hash_score=178	max_right=92	max_right_minus=92	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=9.885883e-01	new_junction_read_count=257	pos_hash_score=126	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=254
JC	565	.	NC_007779	3958122	-1	NC_007779	3958157	1	0	alignment_overlap=2	coverage_minus=128	coverage_plus=104	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=90	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=47	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=0.99	new_junction_frequency=1.000000e+00	new_junction_read_count=234	pos_hash_score=124	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	566	.	NC_007779	3987186	1	NC_007779	4009203	-1	0	alignment_overlap=1	coverage_minus=111	coverage_plus=126	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=48	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=1.000000e+00	new_junction_read_count=238	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=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=237
JC	567	.	NC_007779	3988379	-1	NC_007779	4009199	1	0	alignment_overlap=0	coverage_minus=139	coverage_plus=114	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3988379__-1__NC_007779__4009199__1__0____101__101__1__0	max_left=86	max_left_minus=85	max_left_plus=86	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=95	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=254	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=0	side_2_redundant=0	total_non_overlap_reads=253
JC	568	.	NC_007779	4310362	-1	NC_007779	4311562	1	0	alignment_overlap=4	coverage_minus=115	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=48	max_min_left_plus=47	max_min_right=48	max_min_right_minus=47	max_min_right_plus=48	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.00	new_junction_frequency=1.000000e+00	new_junction_read_count=232	pos_hash_score=122	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=231
JC	569	.	NC_007779	4310363	1	NC_007779	4353540	1	0	alignment_overlap=0	coverage_minus=149	coverage_plus=124	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=93	max_left_minus=93	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=48	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=1.14	new_junction_frequency=1.000000e+00	new_junction_read_count=277	pos_hash_score=128	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=273
JC	570	.	NC_007779	4311557	-1	NC_007779	4353543	-1	0	alignment_overlap=0	coverage_minus=106	coverage_plus=132	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4311557__-1__NC_007779__4353543__-1__0____101__101__1__0	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=245	pos_hash_score=133	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=238
JC	571	.	NC_007779	4355060	1	NC_007779	4502861	1	0	alignment_overlap=0	coverage_minus=112	coverage_plus=132	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4355060__1__NC_007779__4502861__1__0____101__101__0__1	max_left=95	max_left_minus=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=88	max_right_minus=88	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=244	pos_hash_score=121	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=244
JC	572	.	NC_007779	4355066	-1	NC_007779	4504189	-1	0	alignment_overlap=2	coverage_minus=107	coverage_plus=114	flanking_left=101	flanking_right=101	frequency=9.912681e-01	junction_possible_overlap_registers=88	key=NC_007779__4355066__-1__NC_007779__4504191__-1__2____101__101__0__1	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=47	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.94	new_junction_frequency=9.912681e-01	new_junction_read_count=222	pos_hash_score=120	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.01	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=2	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=221
JC	573	.	NC_007779	4547362	1	NC_007779	4547676	1	0	alignment_overlap=9	coverage_minus=6	coverage_plus=3	flanking_left=101	flanking_right=101	frequency=4.584819e-02	junction_possible_overlap_registers=81	key=NC_007779__4547362__1__NC_007779__4547667__1__9____101__101__0__0	max_left=78	max_left_minus=78	max_left_plus=78	max_min_left=32	max_min_left_minus=32	max_min_left_plus=32	max_min_right=38	max_min_right_minus=38	max_min_right_plus=14	max_pos_hash_score=162	max_right=76	max_right_minus=71	max_right_plus=76	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.04	new_junction_frequency=4.584819e-02	new_junction_read_count=9	pos_hash_score=9	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.80	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=194	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.92	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=200	side_2_redundant=0	total_non_overlap_reads=9
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