#=GENOME_DIFF	1.0
#=AUTHOR	breseq 0.25c 
#=CREATED	19:34:08 05 Mar 2015
#=REFSEQ	/data/savita/refseq/NC_007779.gbk
#=READSEQ	2_D2_TGACCA_L004_R2_001.fastq
SNP	1	58	NC_007779	66457	A	frequency=1
SNP	2	64	NC_007779	97880	T	frequency=1
SNP	3	77	NC_007779	167632	A	frequency=1
SNP	4	123	NC_007779	274547	G	frequency=1
DEL	5	717,727	NC_007779	274733	97240	frequency=1
SNP	6	160	NC_007779	547694	G	frequency=1
INS	7	161	NC_007779	547831	G	frequency=1	insert_position=1
SNP	8	163	NC_007779	556858	T	frequency=1
SNP	9	164	NC_007779	569996	C	frequency=1
SNP	10	192	NC_007779	749354	A	frequency=1
SNP	11	195	NC_007779	758440	A	frequency=1
SNP	12	203	NC_007779	887234	A	frequency=1
SNP	13	214	NC_007779	987574	T	frequency=1
SNP	14	224	NC_007779	1093686	C	frequency=1
SNP	15	225	NC_007779	1097580	T	frequency=1.434522e-01
SNP	16	237	NC_007779	1170573	T	frequency=1
SNP	17	251	NC_007779	1318876	A	frequency=1
DEL	18	719,741	NC_007779	1413639	23060	frequency=1
SNP	19	281	NC_007779	1483588	A	frequency=1
DEL	20	284	NC_007779	1496775	1	frequency=1
SNP	21	300	NC_007779	1615814	A	frequency=1
DEL	22	310	NC_007779	1669599	1	frequency=1
SNP	23	328	NC_007779	1844073	A	frequency=1
SNP	24	338	NC_007779	1918872	A	frequency=1
SNP	25	343	NC_007779	1973476	A	frequency=1
SNP	26	347	NC_007779	2005401	T	frequency=1
SNP	27	359	NC_007779	2170094	A	frequency=1
DEL	28	721,747	NC_007779	2320795	1336	frequency=1
SNP	29	396	NC_007779	2406075	T	frequency=1
SNP	30	400	NC_007779	2416102	A	frequency=1
SNP	31	417	NC_007779	2538628	T	frequency=1
INS	32	752	NC_007779	2865274	GCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACG	frequency=6.489018e-01
SNP	33	458	NC_007779	2866111	G	frequency=1
SNP	34	474	NC_007779	3003330	A	frequency=1
SNP	35	480	NC_007779	3048743	T	frequency=1.030116e-01
SNP	36	481	NC_007779	3049815	T	frequency=1
DEL	37	486	NC_007779	3124070	1	frequency=2.149487e-02
DEL	38	487	NC_007779	3124071	1	frequency=2.184868e-02
SNP	39	511	NC_007779	3397813	G	frequency=1
DEL	40	759	NC_007779	3456007	3	frequency=1.136976e-01
DEL	41	724,761	NC_007779	3742936	1336	frequency=1
DEL	42	542	NC_007779	3750122	1	frequency=9.642859e-01
SNP	43	543	NC_007779	3750123	T	frequency=3.556919e-02
SNP	44	571	NC_007779	3898657	G	frequency=1
DEL	45	725,768	NC_007779	3958123	34	frequency=1
SNP	46	603	NC_007779	4090749	T	frequency=1
SNP	47	613	NC_007779	4165991	C	frequency=1
DEL	48	636,637	NC_007779	4371271	2	frequency=1
SNP	49	699	NC_007779	4546535	A	frequency=1
RA	50	.	NC_007779	286	0	A	C	bias_e_value=117295	bias_p_value=0.0252446	fisher_strand_p_value=0.00384817	frequency=3.332806e-02	genotype_quality=714.6	ks_quality_p_value=1	log10_base_likelihood=-5.79996	log10_qual_likelihood_position_model=12.8011	log10_strand_likelihood_position_model=2.73944	new_cov=1/13	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=103/111	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=104/125
RA	51	.	NC_007779	11143	0	G	T	bias_e_value=0.875057	bias_p_value=1.88333e-07	fisher_strand_p_value=9.68141e-09	frequency=6.933451e-02	genotype_quality=864.6	ks_quality_p_value=1	log10_base_likelihood=-14.064	log10_qual_likelihood_position_model=22.7155	log10_strand_likelihood_position_model=8.01406	new_cov=0/24	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=131/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/125
RA	52	.	NC_007779	17050	0	A	C	bias_e_value=8.5951e-07	bias_p_value=1.84987e-13	fisher_strand_p_value=5.46649e-15	frequency=1.118078e-01	genotype_quality=382.2	ks_quality_p_value=1	log10_base_likelihood=-11.0373	log10_qual_likelihood_position_model=20.4183	log10_strand_likelihood_position_model=14.2623	new_cov=0/21	polymorphism_quality=5.6	quality=5.6	quality_position_model=Inf	ref_cov=87/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/34
RA	53	.	NC_007779	29496	0	T	A	bias_e_value=1577.1	bias_p_value=0.000339429	fisher_strand_p_value=2.97121e-05	frequency=6.491184e-02	genotype_quality=559.2	ks_quality_p_value=1	log10_base_likelihood=-9.56098	log10_qual_likelihood_position_model=17.9441	log10_strand_likelihood_position_model=4.52707	new_cov=0/12	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=96/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/75
RA	54	.	NC_007779	29503	0	T	C	bias_e_value=4.98661e-06	bias_p_value=1.07324e-12	fisher_strand_p_value=3.35105e-14	frequency=1.451769e-01	genotype_quality=526.7	ks_quality_p_value=1	log10_base_likelihood=-17.2274	log10_qual_likelihood_position_model=21.9085	log10_strand_likelihood_position_model=13.4748	new_cov=0/36	polymorphism_quality=11.9	quality=11.9	quality_position_model=Inf	ref_cov=106/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/97
RA	55	.	NC_007779	34112	0	T	.	bias_e_value=1625510	bias_p_value=0.349848	fisher_strand_p_value=0.609708	frequency=1.388073e-02	genotype_quality=860.1	ks_quality_p_value=0.178227	log10_base_likelihood=-8.39826	log10_qual_likelihood_position_model=1.92939	log10_strand_likelihood_position_model=0.441096	new_cov=1/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=5.96773e-08	ref_cov=111/102	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/104
RA	56	.	NC_007779	56379	0	T	G	bias_e_value=0.000389563	bias_p_value=8.38431e-11	fisher_strand_p_value=3.04697e-12	frequency=7.624722e-02	genotype_quality=602.8	ks_quality_p_value=1	log10_base_likelihood=-11.0525	log10_qual_likelihood_position_model=25.8534	log10_strand_likelihood_position_model=11.5161	new_cov=25/0	polymorphism_quality=5.6	quality=5.6	quality_position_model=Inf	ref_cov=49/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=74/116
RA	57	.	NC_007779	61542	0	C	G	bias_e_value=6.29839	bias_p_value=1.35556e-06	fisher_strand_p_value=7.81465e-08	frequency=6.501484e-02	genotype_quality=519.7	ks_quality_p_value=0.998884	log10_base_likelihood=-11.6487	log10_qual_likelihood_position_model=9.47929	log10_strand_likelihood_position_model=7.10709	new_cov=11/0	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=26/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=37/109
RA	58	.	NC_007779	66457	0	C	A	frequency=1	genotype_quality=956.0	new_cov=131/105	quality=956.0	ref_cov=0/0	tot_cov=131/105
RA	59	.	NC_007779	70602	0	G	T	bias_e_value=1.00026	bias_p_value=2.1528e-07	fisher_strand_p_value=1.11475e-08	frequency=8.009434e-02	genotype_quality=656.9	ks_quality_p_value=1	log10_base_likelihood=-8.44637	log10_qual_likelihood_position_model=20.2398	log10_strand_likelihood_position_model=8.25385	new_cov=0/25	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=102/77	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/102
RA	60	.	NC_007779	75074	0	T	G	bias_e_value=6.49134e-20	bias_p_value=1.39709e-26	fisher_strand_p_value=2.15925e-28	frequency=1.797895e-01	genotype_quality=541.9	ks_quality_p_value=1	log10_base_likelihood=-28.9862	log10_qual_likelihood_position_model=39.8596	log10_strand_likelihood_position_model=27.6657	new_cov=48/0	polymorphism_quality=23.8	quality=23.8	quality_position_model=Inf	ref_cov=24/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/127
RA	61	.	NC_007779	75079	0	C	T	bias_e_value=8.9064	bias_p_value=1.91687e-06	fisher_strand_p_value=1.12771e-07	frequency=5.118036e-02	genotype_quality=605.2	ks_quality_p_value=1	log10_base_likelihood=-9.46212	log10_qual_likelihood_position_model=11.6612	log10_strand_likelihood_position_model=6.9478	new_cov=9/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=22/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=31/132
RA	62	.	NC_007779	83468	0	G	T	bias_e_value=6803.75	bias_p_value=0.00146433	fisher_strand_p_value=0.000149273	frequency=3.234196e-02	genotype_quality=881.7	ks_quality_p_value=1	log10_base_likelihood=-6.60674	log10_qual_likelihood_position_model=13.9508	log10_strand_likelihood_position_model=3.82602	new_cov=0/12	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=124/108	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/120
RA	63	.	NC_007779	89555	0	G	T	bias_e_value=13.4435	bias_p_value=2.89337e-06	fisher_strand_p_value=1.85741e-07	frequency=6.650162e-02	genotype_quality=723.0	ks_quality_p_value=0.940661	log10_base_likelihood=-12.4442	log10_qual_likelihood_position_model=15.1665	log10_strand_likelihood_position_model=6.73109	new_cov=16/0	polymorphism_quality=7.1	quality=7.1	quality_position_model=Inf	ref_cov=70/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=87/128
RA	64	.	NC_007779	97880	0	C	T	frequency=1	genotype_quality=943.8	new_cov=130/102	quality=943.8	ref_cov=0/0	tot_cov=130/102
RA	65	.	NC_007779	107544	1	.	T	bias_e_value=2870440	bias_p_value=0.617785	fisher_strand_p_value=1	frequency=4.186058e-02	genotype_quality=952.2	ks_quality_p_value=0.265647	log10_base_likelihood=-43.7206	log10_qual_likelihood_position_model=4.11063	log10_strand_likelihood_position_model=0.576569	new_cov=4/5	polymorphism_quality=38.6	quality=38.6	quality_position_model=2.38011e-41	ref_cov=89/117	reject=INDEL_HOMOPOLYMER	tot_cov=93/122
RA	66	.	NC_007779	119384	0	T	G	bias_e_value=3.77092e-14	bias_p_value=8.11591e-21	fisher_strand_p_value=1.58526e-22	frequency=1.430554e-01	genotype_quality=555.1	ks_quality_p_value=1	log10_base_likelihood=-19.8238	log10_qual_likelihood_position_model=32.1258	log10_strand_likelihood_position_model=21.7999	new_cov=39/0	polymorphism_quality=14.5	quality=14.5	quality_position_model=Inf	ref_cov=29/124	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=68/124
RA	67	.	NC_007779	126147	0	T	G	bias_e_value=1964950	bias_p_value=0.422904	fisher_strand_p_value=0.504886	frequency=7.489204e-03	genotype_quality=1033.5	ks_quality_p_value=0.28505	log10_base_likelihood=-5.68706	log10_qual_likelihood_position_model=1.73678	log10_strand_likelihood_position_model=0.507945	new_cov=0/2	polymorphism_quality=0.1	quality=0.1	quality_position_model=2.97393e-05	ref_cov=118/147	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=118/149
RA	68	.	NC_007779	134366	0	G	T	bias_e_value=270.149	bias_p_value=5.81424e-05	fisher_strand_p_value=4.35731e-06	frequency=4.952431e-02	genotype_quality=863.3	ks_quality_p_value=1	log10_base_likelihood=-7.68944	log10_qual_likelihood_position_model=16.5918	log10_strand_likelihood_position_model=5.64123	new_cov=0/20	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=121/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/142
RA	69	.	NC_007779	137009	0	G	T	bias_e_value=1.447	bias_p_value=3.11429e-07	fisher_strand_p_value=1.78509e-08	frequency=6.923389e-02	genotype_quality=732.7	ks_quality_p_value=0.921984	log10_base_likelihood=-11.0512	log10_qual_likelihood_position_model=24.0083	log10_strand_likelihood_position_model=7.74834	new_cov=19/0	polymorphism_quality=5.6	quality=5.6	quality_position_model=Inf	ref_cov=75/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=94/132
RA	70	.	NC_007779	146288	0	T	G	bias_e_value=3.9213e-06	bias_p_value=8.43955e-13	fisher_strand_p_value=2.61489e-14	frequency=1.031761e-01	genotype_quality=567.4	ks_quality_p_value=1	log10_base_likelihood=-12.9276	log10_qual_likelihood_position_model=23.8519	log10_strand_likelihood_position_model=13.5825	new_cov=25/0	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=37/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=62/123
RA	71	.	NC_007779	149550	1	.	T	bias_e_value=2211550	bias_p_value=0.475978	fisher_strand_p_value=0.255701	frequency=1.249981e-02	genotype_quality=1153.4	ks_quality_p_value=0.675359	log10_base_likelihood=-12.9913	log10_qual_likelihood_position_model=2.17573	log10_strand_likelihood_position_model=0.773489	new_cov=3/0	polymorphism_quality=7.6	quality=7.6	quality_position_model=4.53088e-12	ref_cov=130/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/107
RA	72	.	NC_007779	149551	0	T	.	bias_e_value=1705540	bias_p_value=0.367073	fisher_strand_p_value=0.255581	frequency=1.238918e-02	genotype_quality=950.7	ks_quality_p_value=0.456032	log10_base_likelihood=-8.28009	log10_qual_likelihood_position_model=2.53859	log10_strand_likelihood_position_model=0.774513	new_cov=3/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=7.51294e-07	ref_cov=131/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=134/108
RA	73	.	NC_007779	151656	0	T	G	bias_e_value=1.19023e-05	bias_p_value=2.56165e-12	fisher_strand_p_value=8.22927e-14	frequency=1.110620e-01	genotype_quality=667.1	ks_quality_p_value=1	log10_base_likelihood=-14.6115	log10_qual_likelihood_position_model=28.555	log10_strand_likelihood_position_model=13.0846	new_cov=31/0	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=59/122	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=90/122
RA	74	.	NC_007779	164574	0	T	G	bias_e_value=1114.48	bias_p_value=0.000239862	fisher_strand_p_value=2.03206e-05	frequency=9.117413e-02	genotype_quality=281.2	ks_quality_p_value=1	log10_base_likelihood=-9.45805	log10_qual_likelihood_position_model=10.7046	log10_strand_likelihood_position_model=4.72678	new_cov=5/12	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=82/17	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/29
RA	75	.	NC_007779	164576	0	A	G	bias_e_value=0.000408006	bias_p_value=8.78126e-11	fisher_strand_p_value=3.1968e-12	frequency=1.247134e-01	genotype_quality=283.9	ks_quality_p_value=1	log10_base_likelihood=-10.7991	log10_qual_likelihood_position_model=15.1767	log10_strand_likelihood_position_model=11.4953	new_cov=0/16	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=84/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=84/28
RA	76	.	NC_007779	164597	1	.	C	bias_e_value=736782	bias_p_value=0.158573	fisher_strand_p_value=0.0542547	frequency=2.884674e-02	genotype_quality=428.2	ks_quality_p_value=0.679676	log10_base_likelihood=-13.3892	log10_qual_likelihood_position_model=3.38526	log10_strand_likelihood_position_model=1.26556	new_cov=3/0	polymorphism_quality=8.0	quality=8.0	quality_position_model=9.74574e-11	ref_cov=37/64	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=40/64
RA	77	.	NC_007779	167632	0	C	A	frequency=1	genotype_quality=807.3	new_cov=105/100	quality=807.3	ref_cov=0/0	tot_cov=106/100
RA	78	.	NC_007779	175694	0	T	G	bias_e_value=3.99573e-10	bias_p_value=8.59974e-17	fisher_strand_p_value=2.06114e-18	frequency=1.187086e-01	genotype_quality=540.7	ks_quality_p_value=1	log10_base_likelihood=-14.3648	log10_qual_likelihood_position_model=28.2474	log10_strand_likelihood_position_model=17.6859	new_cov=42/0	polymorphism_quality=9.0	quality=9.0	quality_position_model=Inf	ref_cov=49/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=92/113
RA	79	.	NC_007779	193480	0	C	G	bias_e_value=1.985e-07	bias_p_value=4.27219e-14	fisher_strand_p_value=1.20856e-15	frequency=1.213365e-01	genotype_quality=659.5	ks_quality_p_value=1	log10_base_likelihood=-26.7195	log10_qual_likelihood_position_model=20.9728	log10_strand_likelihood_position_model=14.9177	new_cov=26/0	polymorphism_quality=21.5	quality=21.5	quality_position_model=Inf	ref_cov=36/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=62/134
RA	80	.	NC_007779	193489	0	G	T	bias_e_value=0.205133	bias_p_value=4.41495e-08	fisher_strand_p_value=2.10444e-09	frequency=7.067204e-02	genotype_quality=680.8	ks_quality_p_value=1	log10_base_likelihood=-6.74986	log10_qual_likelihood_position_model=14.4552	log10_strand_likelihood_position_model=8.67686	new_cov=17/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=48/127	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=65/127
RA	81	.	NC_007779	193496	0	A	T	bias_e_value=2.50023e-06	bias_p_value=5.38109e-13	fisher_strand_p_value=1.64362e-14	frequency=1.231141e-01	genotype_quality=661.9	ks_quality_p_value=1	log10_base_likelihood=-37.0592	log10_qual_likelihood_position_model=27.675	log10_strand_likelihood_position_model=13.7842	new_cov=23/0	polymorphism_quality=31.9	quality=31.9	quality_position_model=Inf	ref_cov=32/129	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=55/129
RA	82	.	NC_007779	212548	0	T	G	bias_e_value=5.39872e-06	bias_p_value=1.16193e-12	fisher_strand_p_value=3.63729e-14	frequency=1.216240e-01	genotype_quality=564.9	ks_quality_p_value=1	log10_base_likelihood=-19.3021	log10_qual_likelihood_position_model=25.7522	log10_strand_likelihood_position_model=13.4392	new_cov=30/0	polymorphism_quality=14.0	quality=14.0	quality_position_model=Inf	ref_cov=49/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=81/115
RA	83	.	NC_007779	227464	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	84	.	NC_007779	227465	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	85	.	NC_007779	227466	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	86	.	NC_007779	227467	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	87	.	NC_007779	227468	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	88	.	NC_007779	227470	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	89	.	NC_007779	227472	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	90	.	NC_007779	227473	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	227474	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	227476	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	93	.	NC_007779	227477	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	227478	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	95	.	NC_007779	227479	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	227482	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	227483	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	227484	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	227486	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	100	.	NC_007779	227487	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	101	.	NC_007779	227488	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	227489	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	103	.	NC_007779	227490	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	104	.	NC_007779	227491	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	105	.	NC_007779	227492	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	106	.	NC_007779	227493	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	107	.	NC_007779	227494	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	108	.	NC_007779	227495	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	109	.	NC_007779	227496	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	110	.	NC_007779	227498	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	111	.	NC_007779	227499	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	112	.	NC_007779	227500	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	113	.	NC_007779	227501	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=2/0	reject=EVALUE	tot_cov=2/0
RA	114	.	NC_007779	227505	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	115	.	NC_007779	227506	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	116	.	NC_007779	227508	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	117	.	NC_007779	227509	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	118	.	NC_007779	227510	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	119	.	NC_007779	227511	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	120	.	NC_007779	233118	0	T	C	bias_e_value=0.127351	bias_p_value=2.7409e-08	fisher_strand_p_value=1.27605e-09	frequency=5.532789e-02	genotype_quality=496.2	ks_quality_p_value=1	log10_base_likelihood=-6.98703	log10_qual_likelihood_position_model=11.5935	log10_strand_likelihood_position_model=8.89413	new_cov=0/8	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=122/6	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/14
RA	121	.	NC_007779	245134	0	G	T	bias_e_value=4618.31	bias_p_value=0.00099397	fisher_strand_p_value=9.95465e-05	frequency=4.321480e-02	genotype_quality=613.9	ks_quality_p_value=0.975084	log10_base_likelihood=-5.93246	log10_qual_likelihood_position_model=13.3969	log10_strand_likelihood_position_model=4.00197	new_cov=10/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=62/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/102
RA	122	.	NC_007779	252970	0	A	C	bias_e_value=4.88987e-05	bias_p_value=1.05242e-11	fisher_strand_p_value=3.54738e-13	frequency=8.027697e-02	genotype_quality=518.9	ks_quality_p_value=1	log10_base_likelihood=-6.60353	log10_qual_likelihood_position_model=21.6883	log10_strand_likelihood_position_model=12.4501	new_cov=0/32	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=98/52	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=98/85
RA	123	.	NC_007779	274547	0	A	G	frequency=1	genotype_quality=1008.1	new_cov=107/131	quality=1008.1	ref_cov=0/1	tot_cov=107/132
RA	124	.	NC_007779	289875	0	A	T	deleted=1	frequency=1	genotype_quality=0.1	new_cov=1/0	quality=0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	125	.	NC_007779	289883	0	T	G	deleted=1	frequency=1	genotype_quality=0.1	new_cov=1/0	quality=0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	126	.	NC_007779	290576	0	C	A	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	127	.	NC_007779	290623	0	A	C	deleted=1	frequency=1	genotype_quality=0.8	new_cov=0/1	quality=0.8	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	128	.	NC_007779	290626	0	G	C	deleted=1	frequency=1	genotype_quality=1.3	new_cov=0/1	quality=1.3	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	129	.	NC_007779	374799	0	T	G	bias_e_value=1.49354e-09	bias_p_value=3.21445e-16	fisher_strand_p_value=7.96212e-18	frequency=1.149802e-01	genotype_quality=495.0	ks_quality_p_value=1	log10_base_likelihood=-15.8911	log10_qual_likelihood_position_model=20.9628	log10_strand_likelihood_position_model=17.099	new_cov=23/0	polymorphism_quality=10.6	quality=10.6	quality_position_model=Inf	ref_cov=15/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=38/118
RA	130	.	NC_007779	379236	1	.	G	bias_e_value=3878520	bias_p_value=0.834748	fisher_strand_p_value=1	frequency=1.754379e-02	genotype_quality=799.5	ks_quality_p_value=0.483344	log10_base_likelihood=-13.5906	log10_qual_likelihood_position_model=2.18956	log10_strand_likelihood_position_model=0.358265	new_cov=2/1	polymorphism_quality=8.2	quality=8.2	quality_position_model=4.32148e-13	ref_cov=102/66	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/67
RA	131	.	NC_007779	379237	0	G	.	bias_e_value=3197260	bias_p_value=0.688126	fisher_strand_p_value=0.535337	frequency=5.945206e-02	genotype_quality=728.0	ks_quality_p_value=0.603528	log10_base_likelihood=-38.0291	log10_qual_likelihood_position_model=3.66745	log10_strand_likelihood_position_model=0.743459	new_cov=5/6	polymorphism_quality=32.9	quality=32.9	quality_position_model=6.6659e-36	ref_cov=100/74	reject=INDEL_HOMOPOLYMER	tot_cov=105/80
RA	132	.	NC_007779	387560	0	A	C	bias_e_value=0.000716327	bias_p_value=1.54171e-10	fisher_strand_p_value=5.73455e-12	frequency=4.294109e-02	genotype_quality=663.6	ks_quality_p_value=1	log10_base_likelihood=-5.85613	log10_qual_likelihood_position_model=20.7581	log10_strand_likelihood_position_model=11.2415	new_cov=0/28	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=120/65	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/93
RA	133	.	NC_007779	387917	0	T	G	bias_e_value=321190	bias_p_value=0.0691277	fisher_strand_p_value=0.0129244	frequency=4.349613e-02	genotype_quality=318.0	ks_quality_p_value=1	log10_base_likelihood=-6.8627	log10_qual_likelihood_position_model=9.61006	log10_strand_likelihood_position_model=1.93177	new_cov=4/4	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=88/11	reject=EVALUE,SURROUNDING_HOMOPOLYMER	tot_cov=92/15
RA	134	.	NC_007779	387919	0	A	G	bias_e_value=99.3677	bias_p_value=2.13863e-05	fisher_strand_p_value=1.48295e-06	frequency=4.920149e-02	genotype_quality=354.1	ks_quality_p_value=1	log10_base_likelihood=-6.20878	log10_qual_likelihood_position_model=7.98421	log10_strand_likelihood_position_model=5.82887	new_cov=0/6	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=95/8	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=95/14
RA	135	.	NC_007779	416826	0	A	G	bias_e_value=0.00127273	bias_p_value=2.73922e-10	fisher_strand_p_value=1.04398e-11	frequency=1.227260e-01	genotype_quality=529.2	ks_quality_p_value=0.998137	log10_base_likelihood=-15.6146	log10_qual_likelihood_position_model=21.6553	log10_strand_likelihood_position_model=10.9813	new_cov=23/0	polymorphism_quality=10.3	quality=10.3	quality_position_model=Inf	ref_cov=41/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=64/105
RA	136	.	NC_007779	432858	0	T	G	bias_e_value=1.40394e-11	bias_p_value=3.0216e-18	fisher_strand_p_value=6.69224e-20	frequency=1.683073e-01	genotype_quality=483.1	ks_quality_p_value=1	log10_base_likelihood=-16.8392	log10_qual_likelihood_position_model=35.1146	log10_strand_likelihood_position_model=19.2186	new_cov=52/0	polymorphism_quality=11.5	quality=11.5	quality_position_model=Inf	ref_cov=48/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/97
RA	137	.	NC_007779	440767	0	G	T	bias_e_value=0.0252926	bias_p_value=5.44357e-09	fisher_strand_p_value=2.34923e-10	frequency=1.002536e-01	genotype_quality=641.8	ks_quality_p_value=1	log10_base_likelihood=-19.0113	log10_qual_likelihood_position_model=19.6917	log10_strand_likelihood_position_model=9.62908	new_cov=0/24	polymorphism_quality=13.7	quality=13.7	quality_position_model=Inf	ref_cov=114/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/87
RA	138	.	NC_007779	450484	0	G	T	bias_e_value=1.90145	bias_p_value=4.09236e-07	fisher_strand_p_value=2.31515e-08	frequency=9.555006e-02	genotype_quality=550.4	ks_quality_p_value=0.948616	log10_base_likelihood=-13.2902	log10_qual_likelihood_position_model=18.795	log10_strand_likelihood_position_model=7.63542	new_cov=18/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=50/98	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=68/98
RA	139	.	NC_007779	455714	0	T	.	bias_e_value=1783000	bias_p_value=0.383744	fisher_strand_p_value=0.248762	frequency=1.280785e-02	genotype_quality=930.9	ks_quality_p_value=0.500198	log10_base_likelihood=-7.76271	log10_qual_likelihood_position_model=3.01942	log10_strand_likelihood_position_model=0.843009	new_cov=0/3	polymorphism_quality=2.3	quality=2.3	quality_position_model=9.79009e-06	ref_cov=111/120	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=111/123
RA	140	.	NC_007779	465801	0	C	A	bias_e_value=5.50612e-06	bias_p_value=1.18505e-12	fisher_strand_p_value=3.74475e-14	frequency=1.283455e-01	genotype_quality=513.1	ks_quality_p_value=0.991257	log10_base_likelihood=-25.1195	log10_qual_likelihood_position_model=23.3202	log10_strand_likelihood_position_model=13.4266	new_cov=0/22	polymorphism_quality=19.9	quality=19.9	quality_position_model=Inf	ref_cov=107/24	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/47
RA	141	.	NC_007779	467487	1	.	T	bias_e_value=4646320	bias_p_value=0.999998	fisher_strand_p_value=1	frequency=1.796341e-02	genotype_quality=792.3	ks_quality_p_value=0.99803	log10_base_likelihood=-12.4884	log10_qual_likelihood_position_model=3.12628	log10_strand_likelihood_position_model=0.359322	new_cov=1/2	polymorphism_quality=7.1	quality=7.1	quality_position_model=5.22648e-11	ref_cov=65/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=66/101
RA	142	.	NC_007779	487248	0	C	A	bias_e_value=84990.5	bias_p_value=0.018292	fisher_strand_p_value=0.00263635	frequency=4.540443e-02	genotype_quality=553.3	ks_quality_p_value=1	log10_base_likelihood=-5.79754	log10_qual_likelihood_position_model=8.70856	log10_strand_likelihood_position_model=2.60328	new_cov=1/7	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=99/46	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=100/53
RA	143	.	NC_007779	494817	0	C	G	bias_e_value=6932.15	bias_p_value=0.00149196	fisher_strand_p_value=0.000154179	frequency=4.613686e-02	genotype_quality=530.1	ks_quality_p_value=0.988548	log10_base_likelihood=-9.67713	log10_qual_likelihood_position_model=7.06925	log10_strand_likelihood_position_model=3.81197	new_cov=7/0	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=36/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=43/100
RA	144	.	NC_007779	494823	0	T	G	bias_e_value=2.39254e-06	bias_p_value=5.1493e-13	fisher_strand_p_value=1.57064e-14	frequency=9.117556e-02	genotype_quality=463.8	ks_quality_p_value=1	log10_base_likelihood=-10.469	log10_qual_likelihood_position_model=21.6923	log10_strand_likelihood_position_model=13.8039	new_cov=19/0	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=15/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=34/105
RA	145	.	NC_007779	497098	0	A	G	bias_e_value=10342.1	bias_p_value=0.00222586	fisher_strand_p_value=0.00023826	frequency=3.979778e-02	genotype_quality=521.3	ks_quality_p_value=1	log10_base_likelihood=-6.04763	log10_qual_likelihood_position_model=9.4761	log10_strand_likelihood_position_model=3.62295	new_cov=0/8	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=100/50	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/58
RA	146	.	NC_007779	497102	1	.	A	bias_e_value=275571	bias_p_value=0.0593095	fisher_strand_p_value=0.0107305	frequency=3.164291e-02	genotype_quality=704.1	ks_quality_p_value=0.998347	log10_base_likelihood=-17.9826	log10_qual_likelihood_position_model=6.71026	log10_strand_likelihood_position_model=1.96938	new_cov=0/5	polymorphism_quality=12.7	quality=12.7	quality_position_model=2.57766e-11	ref_cov=93/60	reject=POLYMORPHISM_STRAND	tot_cov=93/65
RA	147	.	NC_007779	500788	0	A	C	bias_e_value=6.98984e-11	bias_p_value=1.50438e-17	fisher_strand_p_value=3.45766e-19	frequency=9.052467e-02	genotype_quality=676.6	ks_quality_p_value=1	log10_base_likelihood=-16.9059	log10_qual_likelihood_position_model=29.0228	log10_strand_likelihood_position_model=18.4612	new_cov=0/31	polymorphism_quality=11.6	quality=11.6	quality_position_model=Inf	ref_cov=147/35	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/66
RA	148	.	NC_007779	500796	0	A	C	bias_e_value=4.99401e-07	bias_p_value=1.07483e-13	fisher_strand_p_value=3.12455e-15	frequency=4.533386e-02	genotype_quality=677.5	ks_quality_p_value=1	log10_base_likelihood=-5.9093	log10_qual_likelihood_position_model=22.8812	log10_strand_likelihood_position_model=14.5052	new_cov=0/25	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=144/39	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=144/64
RA	149	.	NC_007779	500799	0	A	C	bias_e_value=5.30988e-15	bias_p_value=1.14281e-21	fisher_strand_p_value=2.14835e-23	frequency=1.052704e-01	genotype_quality=632.4	ks_quality_p_value=1	log10_base_likelihood=-12.6326	log10_qual_likelihood_position_model=35.3529	log10_strand_likelihood_position_model=22.6679	new_cov=0/37	polymorphism_quality=7.2	quality=7.2	quality_position_model=Inf	ref_cov=144/29	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=144/66
RA	150	.	NC_007779	500804	0	A	C	bias_e_value=1.24122e-15	bias_p_value=2.6714e-22	fisher_strand_p_value=4.88591e-24	frequency=1.097679e-01	genotype_quality=645.1	ks_quality_p_value=1	log10_base_likelihood=-17.6881	log10_qual_likelihood_position_model=32.5091	log10_strand_likelihood_position_model=23.313	new_cov=1/39	polymorphism_quality=12.4	quality=12.4	quality_position_model=Inf	ref_cov=150/27	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=151/67
RA	151	.	NC_007779	503058	0	T	C	bias_e_value=0.0835809	bias_p_value=1.79886e-08	fisher_strand_p_value=8.20611e-10	frequency=9.799814e-02	genotype_quality=516.9	ks_quality_p_value=1	log10_base_likelihood=-10.688	log10_qual_likelihood_position_model=20.3025	log10_strand_likelihood_position_model=9.08586	new_cov=0/20	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=98/43	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/63
RA	152	.	NC_007779	513848	0	A	C	bias_e_value=9.26509e-05	bias_p_value=1.99407e-11	fisher_strand_p_value=6.87473e-13	frequency=6.713629e-02	genotype_quality=556.3	ks_quality_p_value=1	log10_base_likelihood=-10.5992	log10_qual_likelihood_position_model=19.5422	log10_strand_likelihood_position_model=12.1627	new_cov=0/20	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=116/28	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/48
RA	153	.	NC_007779	519615	0	T	G	bias_e_value=1.41883	bias_p_value=3.05365e-07	fisher_strand_p_value=1.61201e-08	frequency=6.956148e-02	genotype_quality=555.3	ks_quality_p_value=1	log10_base_likelihood=-6.027	log10_qual_likelihood_position_model=19.5107	log10_strand_likelihood_position_model=7.79263	new_cov=16/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=43/106	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=59/106
RA	154	.	NC_007779	522430	1	.	T	bias_e_value=4646330	bias_p_value=1	fisher_strand_p_value=1	frequency=2.424145e-02	genotype_quality=779.0	ks_quality_p_value=1	log10_base_likelihood=-16.9823	log10_qual_likelihood_position_model=3.79394	log10_strand_likelihood_position_model=0.420688	new_cov=2/2	polymorphism_quality=11.7	quality=11.7	quality_position_model=7.59059e-15	ref_cov=81/80	reject=INDEL_HOMOPOLYMER	tot_cov=83/82
RA	155	.	NC_007779	524490	0	T	G	bias_e_value=5.11694e-05	bias_p_value=1.10129e-11	fisher_strand_p_value=3.718e-13	frequency=1.136618e-01	genotype_quality=459.5	ks_quality_p_value=1	log10_base_likelihood=-18.1966	log10_qual_likelihood_position_model=18.8312	log10_strand_likelihood_position_model=12.4297	new_cov=18/0	polymorphism_quality=12.9	quality=12.9	quality_position_model=Inf	ref_cov=18/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=36/105
RA	156	.	NC_007779	527270	0	A	C	bias_e_value=0.0437191	bias_p_value=9.40938e-09	fisher_strand_p_value=4.16354e-10	frequency=7.997704e-02	genotype_quality=534.0	ks_quality_p_value=1	log10_base_likelihood=-5.84304	log10_qual_likelihood_position_model=21.7196	log10_strand_likelihood_position_model=9.38054	new_cov=0/18	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=107/37	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=107/55
RA	157	.	NC_007779	535125	0	T	G	bias_e_value=3.57339e-08	bias_p_value=7.69077e-15	fisher_strand_p_value=2.07227e-16	frequency=9.003019e-02	genotype_quality=498.5	ks_quality_p_value=1	log10_base_likelihood=-9.3326	log10_qual_likelihood_position_model=25.1704	log10_strand_likelihood_position_model=15.6836	new_cov=33/0	polymorphism_quality=3.9	quality=3.9	quality_position_model=Inf	ref_cov=36/103	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=69/103
RA	158	.	NC_007779	535142	0	A	G	bias_e_value=8.65298	bias_p_value=1.86233e-06	fisher_strand_p_value=1.09365e-07	frequency=7.374668e-02	genotype_quality=501.7	ks_quality_p_value=1	log10_base_likelihood=-6.19896	log10_qual_likelihood_position_model=11.7045	log10_strand_likelihood_position_model=6.96112	new_cov=15/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=43/97	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=58/97
RA	159	.	NC_007779	547463	0	C	A	bias_e_value=9821.67	bias_p_value=0.00211386	fisher_strand_p_value=0.000226664	frequency=3.981781e-02	genotype_quality=813.2	ks_quality_p_value=0.992127	log10_base_likelihood=-5.69884	log10_qual_likelihood_position_model=14.5695	log10_strand_likelihood_position_model=3.7224	new_cov=13/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=112/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/111
RA	160	.	NC_007779	547694	0	A	G	frequency=1	genotype_quality=882.0	new_cov=111/104	quality=882.0	ref_cov=0/0	tot_cov=111/104
RA	161	.	NC_007779	547831	1	.	G	frequency=1	genotype_quality=777.3	new_cov=101/83	quality=777.3	ref_cov=0/1	tot_cov=101/84
RA	162	.	NC_007779	556653	0	A	C	bias_e_value=2.19329e-06	bias_p_value=4.72048e-13	fisher_strand_p_value=1.43591e-14	frequency=6.989956e-02	genotype_quality=573.1	ks_quality_p_value=1	log10_base_likelihood=-10.8027	log10_qual_likelihood_position_model=22.2704	log10_strand_likelihood_position_model=13.8429	new_cov=0/20	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=125/22	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/42
RA	163	.	NC_007779	556858	0	A	T	frequency=1	genotype_quality=846.8	new_cov=110/98	quality=846.8	ref_cov=0/0	tot_cov=110/98
RA	164	.	NC_007779	569996	0	G	C	frequency=1	genotype_quality=843.8	new_cov=99/96	quality=843.8	ref_cov=0/0	tot_cov=99/96
RA	165	.	NC_007779	582979	0	A	.	bias_e_value=3520600	bias_p_value=0.757716	fisher_strand_p_value=0.503808	frequency=1.850796e-02	genotype_quality=445.7	ks_quality_p_value=0.775136	log10_base_likelihood=-5.66448	log10_qual_likelihood_position_model=1.69359	log10_strand_likelihood_position_model=0.499326	new_cov=2/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=2.76978e-05	ref_cov=59/47	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=61/47
RA	166	.	NC_007779	589153	0	A	G	bias_e_value=4.14936	bias_p_value=8.93039e-07	fisher_strand_p_value=5.01474e-08	frequency=6.582928e-02	genotype_quality=577.1	ks_quality_p_value=1	log10_base_likelihood=-6.57889	log10_qual_likelihood_position_model=12.671	log10_strand_likelihood_position_model=7.29975	new_cov=18/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=62/110	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=80/110
RA	167	.	NC_007779	589157	0	T	G	bias_e_value=4.17128e-13	bias_p_value=8.97758e-20	fisher_strand_p_value=1.8418e-21	frequency=1.475320e-01	genotype_quality=479.2	ks_quality_p_value=1	log10_base_likelihood=-14.0314	log10_qual_likelihood_position_model=34.8284	log10_strand_likelihood_position_model=20.7348	new_cov=41/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=29/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=71/106
RA	168	.	NC_007779	593216	0	T	G	bias_e_value=2.93513e-05	bias_p_value=6.3171e-12	fisher_strand_p_value=2.09207e-13	frequency=1.048527e-01	genotype_quality=420.1	ks_quality_p_value=1	log10_base_likelihood=-16.6667	log10_qual_likelihood_position_model=18.1134	log10_strand_likelihood_position_model=12.6794	new_cov=16/0	polymorphism_quality=11.3	quality=11.3	quality_position_model=Inf	ref_cov=11/98	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=27/98
RA	169	.	NC_007779	595481	0	T	G	bias_e_value=7.42359e-07	bias_p_value=1.59773e-13	fisher_strand_p_value=4.70044e-15	frequency=9.346581e-02	genotype_quality=540.2	ks_quality_p_value=1	log10_base_likelihood=-5.87909	log10_qual_likelihood_position_model=26.2805	log10_strand_likelihood_position_model=14.6289	new_cov=41/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=58/99	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/99
RA	170	.	NC_007779	598799	0	T	G	bias_e_value=9.40987e-10	bias_p_value=2.02522e-16	fisher_strand_p_value=4.95826e-18	frequency=1.591477e-01	genotype_quality=403.8	ks_quality_p_value=1	log10_base_likelihood=-23.4459	log10_qual_likelihood_position_model=24.783	log10_strand_likelihood_position_model=17.3047	new_cov=25/0	polymorphism_quality=18.2	quality=18.2	quality_position_model=Inf	ref_cov=13/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=38/97
RA	171	.	NC_007779	598802	0	T	G	bias_e_value=3.77113e-05	bias_p_value=8.11637e-12	fisher_strand_p_value=2.71122e-13	frequency=7.832527e-02	genotype_quality=441.0	ks_quality_p_value=1	log10_base_likelihood=-6.05079	log10_qual_likelihood_position_model=19.5796	log10_strand_likelihood_position_model=12.5668	new_cov=19/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=18/98	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=37/98
RA	172	.	NC_007779	606687	1	.	T	bias_e_value=3424330	bias_p_value=0.736997	fisher_strand_p_value=1	frequency=1.941776e-02	genotype_quality=981.2	ks_quality_p_value=0.369119	log10_base_likelihood=-18.2724	log10_qual_likelihood_position_model=3.0958	log10_strand_likelihood_position_model=0.431784	new_cov=2/2	polymorphism_quality=13.0	quality=13.0	quality_position_model=7.46093e-17	ref_cov=112/90	reject=INDEL_HOMOPOLYMER	tot_cov=114/92
RA	173	.	NC_007779	606911	1	.	G	bias_e_value=1627590	bias_p_value=0.350295	fisher_strand_p_value=0.143713	frequency=1.190472e-02	genotype_quality=825.2	ks_quality_p_value=0.757538	log10_base_likelihood=-8.69542	log10_qual_likelihood_position_model=1.03979	log10_strand_likelihood_position_model=0.842505	new_cov=2/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=9.23459e-09	ref_cov=62/104	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=64/104
RA	174	.	NC_007779	606915	0	T	G	bias_e_value=5.45993	bias_p_value=1.17511e-06	fisher_strand_p_value=6.71592e-08	frequency=6.128454e-02	genotype_quality=471.9	ks_quality_p_value=0.998856	log10_base_likelihood=-14.6725	log10_qual_likelihood_position_model=9.74946	log10_strand_likelihood_position_model=7.17627	new_cov=8/1	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=8/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=16/114
RA	175	.	NC_007779	612991	0	C	G	bias_e_value=5.27625e-07	bias_p_value=1.13557e-13	fisher_strand_p_value=3.33683e-15	frequency=1.264067e-01	genotype_quality=455.5	ks_quality_p_value=0.990935	log10_base_likelihood=-33.1185	log10_qual_likelihood_position_model=16.3079	log10_strand_likelihood_position_model=14.4767	new_cov=0/17	polymorphism_quality=27.9	quality=27.9	quality_position_model=0.000453613	ref_cov=105/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/26
RA	176	.	NC_007779	615779	0	T	G	bias_e_value=76.5609	bias_p_value=1.64777e-05	fisher_strand_p_value=1.12082e-06	frequency=3.818417e-02	genotype_quality=464.7	ks_quality_p_value=1	log10_base_likelihood=-7.39079	log10_qual_likelihood_position_model=8.87172	log10_strand_likelihood_position_model=5.95046	new_cov=6/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=9/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=15/109
RA	177	.	NC_007779	616029	0	C	A	bias_e_value=141.011	bias_p_value=3.03489e-05	fisher_strand_p_value=2.16251e-06	frequency=4.400158e-02	genotype_quality=563.2	ks_quality_p_value=0.999226	log10_base_likelihood=-8.34365	log10_qual_likelihood_position_model=12.3695	log10_strand_likelihood_position_model=5.66504	new_cov=0/9	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=117/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/40
RA	178	.	NC_007779	645484	0	A	C	bias_e_value=8.69427e-05	bias_p_value=1.87121e-11	fisher_strand_p_value=6.43656e-13	frequency=9.838200e-02	genotype_quality=654.5	ks_quality_p_value=1	log10_base_likelihood=-8.41752	log10_qual_likelihood_position_model=25.3915	log10_strand_likelihood_position_model=12.1913	new_cov=0/30	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=119/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/94
RA	179	.	NC_007779	645970	0	T	G	bias_e_value=2.32003e-18	bias_p_value=4.99325e-25	fisher_strand_p_value=8.17647e-27	frequency=2.620540e-01	genotype_quality=340.5	ks_quality_p_value=1	log10_base_likelihood=-65.9122	log10_qual_likelihood_position_model=30.8434	log10_strand_likelihood_position_model=26.0874	new_cov=40/0	polymorphism_quality=60.9	quality=60.9	quality_position_model=5.49703e-11	ref_cov=10/96	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=50/96
RA	180	.	NC_007779	645983	0	T	C	bias_e_value=4.97427	bias_p_value=1.07058e-06	fisher_strand_p_value=6.07728e-08	frequency=9.019852e-02	genotype_quality=485.9	ks_quality_p_value=1	log10_base_likelihood=-11.4762	log10_qual_likelihood_position_model=15.5534	log10_strand_likelihood_position_model=7.21629	new_cov=17/0	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=45/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=62/89
RA	181	.	NC_007779	646433	0	A	C	bias_e_value=3086.73	bias_p_value=0.000664336	fisher_strand_p_value=6.21929e-05	frequency=2.115440e-02	genotype_quality=581.4	ks_quality_p_value=0.999649	log10_base_likelihood=-6.50807	log10_qual_likelihood_position_model=4.89423	log10_strand_likelihood_position_model=4.20626	new_cov=0/4	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=138/11	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=138/15
RA	182	.	NC_007779	646440	0	C	A	bias_e_value=9.63447e-06	bias_p_value=2.07356e-12	fisher_strand_p_value=7.31982e-14	frequency=7.190371e-02	genotype_quality=583.2	ks_quality_p_value=0.903697	log10_base_likelihood=-31.6589	log10_qual_likelihood_position_model=8.41323	log10_strand_likelihood_position_model=13.1355	new_cov=0/11	polymorphism_quality=26.5	quality=26.5	quality_position_model=3.86081e-12	ref_cov=138/4	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/15
RA	183	.	NC_007779	649677	0	T	G	bias_e_value=1.45182e-09	bias_p_value=3.12467e-16	fisher_strand_p_value=7.73416e-18	frequency=9.635162e-02	genotype_quality=544.0	ks_quality_p_value=1	log10_base_likelihood=-10.4145	log10_qual_likelihood_position_model=25.5195	log10_strand_likelihood_position_model=17.1116	new_cov=30/0	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=29/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=59/118
RA	184	.	NC_007779	650004	0	C	T	bias_e_value=1977.81	bias_p_value=0.000425672	fisher_strand_p_value=3.80895e-05	frequency=4.856300e-02	genotype_quality=721.2	ks_quality_p_value=1	log10_base_likelihood=-6.50738	log10_qual_likelihood_position_model=12.5753	log10_strand_likelihood_position_model=4.41919	new_cov=12/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=79/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=91/114
RA	185	.	NC_007779	660356	0	T	G	bias_e_value=9.70953e-12	bias_p_value=2.08972e-18	fisher_strand_p_value=4.58998e-20	frequency=1.583142e-01	genotype_quality=449.3	ks_quality_p_value=1	log10_base_likelihood=-23.3445	log10_qual_likelihood_position_model=29.1126	log10_strand_likelihood_position_model=19.3382	new_cov=33/0	polymorphism_quality=18.1	quality=18.1	quality_position_model=Inf	ref_cov=21/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=54/104
RA	186	.	NC_007779	665062	0	C	A	bias_e_value=333.767	bias_p_value=7.18345e-05	fisher_strand_p_value=5.70991e-06	frequency=9.416294e-02	genotype_quality=459.2	ks_quality_p_value=0.959265	log10_base_likelihood=-12.058	log10_qual_likelihood_position_model=18.455	log10_strand_likelihood_position_model=5.25681	new_cov=1/14	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=86/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/55
RA	187	.	NC_007779	686495	0	A	C	bias_e_value=1.83057e-09	bias_p_value=3.93982e-16	fisher_strand_p_value=9.80954e-18	frequency=1.039329e-01	genotype_quality=534.7	ks_quality_p_value=1	log10_base_likelihood=-15.9922	log10_qual_likelihood_position_model=23.4069	log10_strand_likelihood_position_model=17.0084	new_cov=0/19	polymorphism_quality=10.7	quality=10.7	quality_position_model=Inf	ref_cov=131/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/29
RA	188	.	NC_007779	706278	1	.	G	bias_e_value=960528	bias_p_value=0.206728	fisher_strand_p_value=0.0595182	frequency=1.369858e-02	genotype_quality=707.6	ks_quality_p_value=0.879313	log10_base_likelihood=-8.72517	log10_qual_likelihood_position_model=2.17959	log10_strand_likelihood_position_model=1.22535	new_cov=2/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=3.22632e-07	ref_cov=34/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=36/110
RA	189	.	NC_007779	706385	1	.	T	bias_e_value=3757570	bias_p_value=0.808717	fisher_strand_p_value=0.60998	frequency=1.363659e-02	genotype_quality=1061.3	ks_quality_p_value=0.736476	log10_base_likelihood=-12.5584	log10_qual_likelihood_position_model=2.29948	log10_strand_likelihood_position_model=0.440802	new_cov=1/2	polymorphism_quality=7.2	quality=7.2	quality_position_model=7.67087e-12	ref_cov=113/104	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/106
RA	190	.	NC_007779	710864	0	T	G	bias_e_value=2.48535	bias_p_value=5.34906e-07	fisher_strand_p_value=2.91488e-08	frequency=7.145882e-02	genotype_quality=403.4	ks_quality_p_value=1	log10_base_likelihood=-18.037	log10_qual_likelihood_position_model=8.39332	log10_strand_likelihood_position_model=7.53538	new_cov=8/0	polymorphism_quality=12.7	quality=12.7	quality_position_model=0.000797049	ref_cov=8/95	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=16/95
RA	191	.	NC_007779	731759	0	A	C	bias_e_value=481586	bias_p_value=0.103649	fisher_strand_p_value=0.209753	frequency=1.080894e-02	genotype_quality=682.3	ks_quality_p_value=0.101999	log10_base_likelihood=-6.03341	log10_qual_likelihood_position_model=2.09742	log10_strand_likelihood_position_model=0.678291	new_cov=2/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=4.66383e-05	ref_cov=83/100	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=85/100
RA	192	.	NC_007779	749354	0	C	A	frequency=1	genotype_quality=950.1	new_cov=116/117	quality=950.1	ref_cov=0/0	tot_cov=116/117
RA	193	.	NC_007779	752693	0	A	C	bias_e_value=2.90919e-17	bias_p_value=6.26126e-24	fisher_strand_p_value=1.07036e-25	frequency=1.858902e-01	genotype_quality=571.7	ks_quality_p_value=1	log10_base_likelihood=-31.2534	log10_qual_likelihood_position_model=39.1953	log10_strand_likelihood_position_model=24.9705	new_cov=0/47	polymorphism_quality=26.1	quality=26.1	quality_position_model=Inf	ref_cov=129/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=129/80
RA	194	.	NC_007779	753547	0	T	A	bias_e_value=0.185779	bias_p_value=3.99841e-08	fisher_strand_p_value=1.89649e-09	frequency=8.109617e-02	genotype_quality=625.8	ks_quality_p_value=1	log10_base_likelihood=-12.8473	log10_qual_likelihood_position_model=20.2613	log10_strand_likelihood_position_model=8.72205	new_cov=0/16	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=126/42	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/58
RA	195	.	NC_007779	758440	0	C	A	frequency=1	genotype_quality=961.8	new_cov=108/127	quality=961.8	ref_cov=0/0	tot_cov=108/127
RA	196	.	NC_007779	759019	0	C	G	bias_e_value=0.000915047	bias_p_value=1.9694e-10	fisher_strand_p_value=7.47111e-12	frequency=7.565641e-02	genotype_quality=580.2	ks_quality_p_value=0.989861	log10_base_likelihood=-23.6113	log10_qual_likelihood_position_model=13.704	log10_strand_likelihood_position_model=11.1266	new_cov=0/11	polymorphism_quality=18.4	quality=18.4	quality_position_model=Inf	ref_cov=126/8	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/19
RA	197	.	NC_007779	824398	0	A	C	bias_e_value=0.000705209	bias_p_value=1.51778e-10	fisher_strand_p_value=5.64213e-12	frequency=5.911446e-02	genotype_quality=622.0	ks_quality_p_value=1	log10_base_likelihood=-7.76986	log10_qual_likelihood_position_model=21.1097	log10_strand_likelihood_position_model=11.2486	new_cov=0/23	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=124/48	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=124/71
RA	198	.	NC_007779	827921	0	T	G	bias_e_value=1.03522e-16	bias_p_value=2.22803e-23	fisher_strand_p_value=3.89481e-25	frequency=1.602240e-01	genotype_quality=547.1	ks_quality_p_value=1	log10_base_likelihood=-18.6975	log10_qual_likelihood_position_model=36.8935	log10_strand_likelihood_position_model=24.4095	new_cov=54/0	polymorphism_quality=13.4	quality=13.4	quality_position_model=Inf	ref_cov=40/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=94/119
RA	199	.	NC_007779	829585	0	G	T	bias_e_value=348.004	bias_p_value=7.48986e-05	fisher_strand_p_value=6.26406e-06	frequency=6.150246e-02	genotype_quality=536.1	ks_quality_p_value=0.914857	log10_base_likelihood=-14.1104	log10_qual_likelihood_position_model=14.2148	log10_strand_likelihood_position_model=5.20314	new_cov=10/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=40/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=50/105
RA	200	.	NC_007779	847616	0	T	C	bias_e_value=5.40288	bias_p_value=1.16283e-06	fisher_strand_p_value=6.63393e-08	frequency=6.188631e-02	genotype_quality=560.5	ks_quality_p_value=1	log10_base_likelihood=-8.31792	log10_qual_likelihood_position_model=19.2229	log10_strand_likelihood_position_model=7.17823	new_cov=14/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=45/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=59/118
RA	201	.	NC_007779	853114	0	C	G	bias_e_value=0.0028123	bias_p_value=6.05273e-10	fisher_strand_p_value=2.37711e-11	frequency=9.177971e-02	genotype_quality=497.6	ks_quality_p_value=1	log10_base_likelihood=-17.6204	log10_qual_likelihood_position_model=14.4649	log10_strand_likelihood_position_model=10.624	new_cov=0/13	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=109/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=109/26
RA	202	.	NC_007779	861592	0	G	T	bias_e_value=4577.19	bias_p_value=0.000985119	fisher_strand_p_value=9.61697e-05	frequency=4.480076e-02	genotype_quality=666.0	ks_quality_p_value=0.999368	log10_base_likelihood=-6.73049	log10_qual_likelihood_position_model=10.6996	log10_strand_likelihood_position_model=4.01696	new_cov=12/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=84/105	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/105
RA	203	.	NC_007779	887234	0	C	A	frequency=1	genotype_quality=610.7	new_cov=99/61	quality=610.7	ref_cov=0/0	tot_cov=99/61
RA	204	.	NC_007779	888436	0	T	G	bias_e_value=6.94025e-05	bias_p_value=1.4937e-11	fisher_strand_p_value=5.09711e-13	frequency=6.466103e-02	genotype_quality=630.2	ks_quality_p_value=1	log10_base_likelihood=-8.34661	log10_qual_likelihood_position_model=20.1064	log10_strand_likelihood_position_model=12.2927	new_cov=27/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=Inf	ref_cov=53/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=80/123
RA	205	.	NC_007779	889984	0	A	.	bias_e_value=2561070	bias_p_value=0.551202	fisher_strand_p_value=0.24784	frequency=1.356220e-02	genotype_quality=887.6	ks_quality_p_value=0.882599	log10_base_likelihood=-7.83064	log10_qual_likelihood_position_model=3.3269	log10_strand_likelihood_position_model=0.856578	new_cov=0/3	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.80781e-05	ref_cov=106/112	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=106/115
RA	206	.	NC_007779	894943	0	T	G	bias_e_value=3.13567e-11	bias_p_value=6.7487e-18	fisher_strand_p_value=1.52242e-19	frequency=1.341395e-01	genotype_quality=420.1	ks_quality_p_value=1	log10_base_likelihood=-9.71739	log10_qual_likelihood_position_model=28.5585	log10_strand_likelihood_position_model=18.8175	new_cov=30/0	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=16/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=46/97
RA	207	.	NC_007779	901814	0	A	C	bias_e_value=208.558	bias_p_value=4.48866e-05	fisher_strand_p_value=3.29488e-06	frequency=5.601788e-02	genotype_quality=626.4	ks_quality_p_value=1	log10_base_likelihood=-6.80767	log10_qual_likelihood_position_model=16.8434	log10_strand_likelihood_position_model=5.48216	new_cov=0/17	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=100/82	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/99
RA	208	.	NC_007779	904838	0	C	A	bias_e_value=0.000127112	bias_p_value=2.73575e-11	fisher_strand_p_value=9.9899e-13	frequency=9.825087e-02	genotype_quality=745.4	ks_quality_p_value=0.954913	log10_base_likelihood=-14.074	log10_qual_likelihood_position_model=27.8755	log10_strand_likelihood_position_model=12.0004	new_cov=31/0	polymorphism_quality=8.7	quality=8.7	quality_position_model=Inf	ref_cov=75/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/130
RA	209	.	NC_007779	911333	0	T	G	bias_e_value=0.0653251	bias_p_value=1.40595e-08	fisher_strand_p_value=6.33907e-10	frequency=8.334017e-02	genotype_quality=456.4	ks_quality_p_value=1	log10_base_likelihood=-15.3178	log10_qual_likelihood_position_model=15.5972	log10_strand_likelihood_position_model=9.20201	new_cov=13/1	polymorphism_quality=10.0	quality=10.0	quality_position_model=Inf	ref_cov=14/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=27/107
RA	210	.	NC_007779	940808	0	G	C	bias_e_value=9.07432	bias_p_value=1.95301e-06	fisher_strand_p_value=1.15031e-07	frequency=5.564070e-02	genotype_quality=741.6	ks_quality_p_value=1	log10_base_likelihood=-6.8138	log10_qual_likelihood_position_model=18.7263	log10_strand_likelihood_position_model=6.93918	new_cov=0/19	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=121/82	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/101
RA	211	.	NC_007779	954820	0	A	C	bias_e_value=1.52291e-09	bias_p_value=3.27767e-16	fisher_strand_p_value=8.12272e-18	frequency=1.479764e-01	genotype_quality=486.6	ks_quality_p_value=1	log10_base_likelihood=-22.5874	log10_qual_likelihood_position_model=29.8787	log10_strand_likelihood_position_model=17.0903	new_cov=0/42	polymorphism_quality=17.3	quality=17.3	quality_position_model=Inf	ref_cov=96/42	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/84
RA	212	.	NC_007779	960579	1	.	T	bias_e_value=3916330	bias_p_value=0.842887	fisher_strand_p_value=0.508956	frequency=1.047039e-02	genotype_quality=924.3	ks_quality_p_value=0.972032	log10_base_likelihood=-7.90917	log10_qual_likelihood_position_model=2.63551	log10_strand_likelihood_position_model=0.480968	new_cov=0/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=1.141e-06	ref_cov=81/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=81/110
RA	213	.	NC_007779	987436	0	A	C	bias_e_value=0.600282	bias_p_value=1.29195e-07	fisher_strand_p_value=6.5085e-09	frequency=1.205244e-01	genotype_quality=442.3	ks_quality_p_value=1	log10_base_likelihood=-11.4647	log10_qual_likelihood_position_model=24.0399	log10_strand_likelihood_position_model=8.44527	new_cov=0/32	polymorphism_quality=6.1	quality=6.1	quality_position_model=Inf	ref_cov=70/68	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=70/100
RA	214	.	NC_007779	987574	0	G	T	frequency=1	genotype_quality=774.0	new_cov=58/132	quality=774.0	ref_cov=0/0	tot_cov=58/132
RA	215	.	NC_007779	987916	0	T	G	bias_e_value=0.863849	bias_p_value=1.85921e-07	fisher_strand_p_value=9.55073e-09	frequency=6.573153e-02	genotype_quality=449.9	ks_quality_p_value=1	log10_base_likelihood=-11.36	log10_qual_likelihood_position_model=12.2074	log10_strand_likelihood_position_model=8.01996	new_cov=9/0	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=10/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=19/100
RA	216	.	NC_007779	1002413	0	T	G	bias_e_value=3.03915e-07	bias_p_value=6.54097e-14	fisher_strand_p_value=1.87362e-15	frequency=1.231666e-01	genotype_quality=587.5	ks_quality_p_value=1	log10_base_likelihood=-17.6571	log10_qual_likelihood_position_model=27.4276	log10_strand_likelihood_position_model=14.7273	new_cov=38/0	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=60/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/113
RA	217	.	NC_007779	1012726	0	T	.	bias_e_value=4158410	bias_p_value=0.894988	fisher_strand_p_value=0.613439	frequency=1.553345e-02	genotype_quality=768.7	ks_quality_p_value=0.942643	log10_base_likelihood=-8.25754	log10_qual_likelihood_position_model=3.41373	log10_strand_likelihood_position_model=0.435525	new_cov=1/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=2.8737e-06	ref_cov=98/92	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=99/94
RA	218	.	NC_007779	1013042	0	G	C	bias_e_value=0.846952	bias_p_value=1.82284e-07	fisher_strand_p_value=9.3539e-09	frequency=6.729269e-02	genotype_quality=549.6	ks_quality_p_value=1	log10_base_likelihood=-11.3514	log10_qual_likelihood_position_model=11.2789	log10_strand_likelihood_position_model=8.02901	new_cov=0/11	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=117/21	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/32
RA	219	.	NC_007779	1019391	0	A	.	bias_e_value=3546890	bias_p_value=0.763375	fisher_strand_p_value=1	frequency=1.586246e-02	genotype_quality=1006.9	ks_quality_p_value=0.396587	log10_base_likelihood=-11.0335	log10_qual_likelihood_position_model=2.89807	log10_strand_likelihood_position_model=0.425208	new_cov=2/2	polymorphism_quality=5.6	quality=5.6	quality_position_model=1.10376e-09	ref_cov=117/131	reject=INDEL_HOMOPOLYMER	tot_cov=119/133
RA	220	.	NC_007779	1037604	0	C	G	bias_e_value=4.52862e-08	bias_p_value=9.74666e-15	fisher_strand_p_value=2.64358e-16	frequency=1.338549e-01	genotype_quality=472.0	ks_quality_p_value=1	log10_base_likelihood=-24.786	log10_qual_likelihood_position_model=19.7791	log10_strand_likelihood_position_model=15.5778	new_cov=19/0	polymorphism_quality=19.5	quality=19.5	quality_position_model=Inf	ref_cov=10/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=29/107
RA	221	.	NC_007779	1066678	0	G	A	bias_e_value=2849220	bias_p_value=0.61322	fisher_strand_p_value=0.35266	frequency=1.492310e-02	genotype_quality=1101.9	ks_quality_p_value=0.743548	log10_base_likelihood=-7.79206	log10_qual_likelihood_position_model=2.32853	log10_strand_likelihood_position_model=0.639784	new_cov=3/1	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.0591e-06	ref_cov=125/138	reject=POLYMORPHISM_STRAND	tot_cov=128/139
RA	222	.	NC_007779	1077331	0	A	C	bias_e_value=0.00260167	bias_p_value=5.59941e-10	fisher_strand_p_value=2.1921e-11	frequency=4.984283e-02	genotype_quality=664.6	ks_quality_p_value=1	log10_base_likelihood=-5.59017	log10_qual_likelihood_position_model=27.4678	log10_strand_likelihood_position_model=10.6591	new_cov=0/23	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=125/54	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/77
RA	223	.	NC_007779	1086017	0	A	C	bias_e_value=7.25046e-07	bias_p_value=1.56047e-13	fisher_strand_p_value=4.58753e-15	frequency=1.283665e-01	genotype_quality=593.1	ks_quality_p_value=1	log10_base_likelihood=-20.5143	log10_qual_likelihood_position_model=30.1134	log10_strand_likelihood_position_model=14.3384	new_cov=0/39	polymorphism_quality=15.2	quality=15.2	quality_position_model=Inf	ref_cov=105/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/99
RA	224	.	NC_007779	1093686	0	T	C	frequency=1	genotype_quality=1004.8	new_cov=116/113	quality=1004.8	ref_cov=0/0	tot_cov=116/113
RA	225	.	NC_007779	1097580	0	C	T	bias_e_value=1033000	bias_p_value=0.222326	fisher_strand_p_value=0.407514	frequency=1.434522e-01	genotype_quality=794.8	ks_quality_p_value=0.141622	log10_base_likelihood=-107.427	log10_qual_likelihood_position_model=16.8155	log10_strand_likelihood_position_model=1.07172	new_cov=22/21	polymorphism_quality=102.5	quality=102.5	quality_position_model=4.91251e-92	ref_cov=110/143	tot_cov=132/164
RA	226	.	NC_007779	1097764	1	.	A	bias_e_value=4087210	bias_p_value=0.879663	fisher_strand_p_value=0.569366	frequency=6.423950e-03	genotype_quality=1869.7	ks_quality_p_value=0.968498	log10_base_likelihood=-11.8694	log10_qual_likelihood_position_model=2.38471	log10_strand_likelihood_position_model=0.530339	new_cov=2/1	polymorphism_quality=6.5	quality=6.5	quality_position_model=5.85831e-11	ref_cov=188/276	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=190/277
RA	227	.	NC_007779	1097765	0	A	.	bias_e_value=1573200	bias_p_value=0.338589	fisher_strand_p_value=0.274048	frequency=6.361961e-03	genotype_quality=1706.8	ks_quality_p_value=0.378206	log10_base_likelihood=-7.48029	log10_qual_likelihood_position_model=1.2153	log10_strand_likelihood_position_model=0.684163	new_cov=0/3	polymorphism_quality=2.0	quality=2.0	quality_position_model=1.73149e-07	ref_cov=192/276	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=192/279
RA	228	.	NC_007779	1105181	1	.	T	bias_e_value=3100840	bias_p_value=0.667375	fisher_strand_p_value=1	frequency=8.096695e-03	genotype_quality=1208.7	ks_quality_p_value=0.305172	log10_base_likelihood=-7.88869	log10_qual_likelihood_position_model=2.07436	log10_strand_likelihood_position_model=0.300873	new_cov=1/1	polymorphism_quality=2.4	quality=2.4	quality_position_model=2.03355e-07	ref_cov=130/115	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/116
RA	229	.	NC_007779	1115091	0	C	A	bias_e_value=558.494	bias_p_value=0.000120201	fisher_strand_p_value=9.57274e-06	frequency=6.118870e-02	genotype_quality=616.8	ks_quality_p_value=1	log10_base_likelihood=-7.50646	log10_qual_likelihood_position_model=12.8169	log10_strand_likelihood_position_model=5.03146	new_cov=1/11	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=116/41	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/52
RA	230	.	NC_007779	1115100	0	C	G	bias_e_value=52135.4	bias_p_value=0.0112208	fisher_strand_p_value=0.00163731	frequency=3.113651e-02	genotype_quality=688.4	ks_quality_p_value=0.913069	log10_base_likelihood=-5.84274	log10_qual_likelihood_position_model=10.7903	log10_strand_likelihood_position_model=2.78587	new_cov=0/8	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=110/85	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=110/94
RA	231	.	NC_007779	1116582	0	G	C	bias_e_value=4.81184e-11	bias_p_value=1.03562e-17	fisher_strand_p_value=2.38144e-19	frequency=1.251392e-01	genotype_quality=412.2	ks_quality_p_value=0.990807	log10_base_likelihood=-36.3562	log10_qual_likelihood_position_model=12.4704	log10_strand_likelihood_position_model=18.6232	new_cov=0/16	polymorphism_quality=31.2	quality=31.2	quality_position_model=3.70224e-07	ref_cov=109/1	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=109/17
RA	232	.	NC_007779	1151485	0	C	A	bias_e_value=2252.55	bias_p_value=0.000484801	fisher_strand_p_value=4.39425e-05	frequency=4.846573e-02	genotype_quality=767.2	ks_quality_p_value=1	log10_base_likelihood=-8.64271	log10_qual_likelihood_position_model=13.2675	log10_strand_likelihood_position_model=4.46283	new_cov=17/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=114/102	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/102
RA	233	.	NC_007779	1153490	1	.	T	bias_e_value=1403480	bias_p_value=0.302062	fisher_strand_p_value=1	frequency=9.346008e-03	genotype_quality=1036.4	ks_quality_p_value=0.0880761	log10_base_likelihood=-8.36505	log10_qual_likelihood_position_model=1.60037	log10_strand_likelihood_position_model=0.310099	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.1629e-08	ref_cov=89/123	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=90/124
RA	234	.	NC_007779	1158848	0	T	G	bias_e_value=1.63452e-14	bias_p_value=3.51787e-21	fisher_strand_p_value=6.75882e-23	frequency=1.938186e-01	genotype_quality=499.1	ks_quality_p_value=1	log10_base_likelihood=-26.0438	log10_qual_likelihood_position_model=34.2222	log10_strand_likelihood_position_model=22.1701	new_cov=51/0	polymorphism_quality=20.8	quality=20.8	quality_position_model=Inf	ref_cov=38/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=90/106
RA	235	.	NC_007779	1163018	0	T	G	bias_e_value=4.01504e-07	bias_p_value=8.64131e-14	fisher_strand_p_value=2.49574e-15	frequency=1.586723e-01	genotype_quality=584.6	ks_quality_p_value=1	log10_base_likelihood=-32.4643	log10_qual_likelihood_position_model=29.8711	log10_strand_likelihood_position_model=14.6028	new_cov=38/0	polymorphism_quality=27.3	quality=27.3	quality_position_model=Inf	ref_cov=61/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/113
RA	236	.	NC_007779	1164334	0	C	G	bias_e_value=31.3819	bias_p_value=6.75413e-06	fisher_strand_p_value=4.31402e-07	frequency=5.038929e-02	genotype_quality=434.0	ks_quality_p_value=1	log10_base_likelihood=-6.15635	log10_qual_likelihood_position_model=9.33079	log10_strand_likelihood_position_model=6.36512	new_cov=0/6	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=98/6	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/12
RA	237	.	NC_007779	1170573	0	C	T	frequency=1	genotype_quality=834.0	new_cov=112/91	quality=834.0	ref_cov=0/0	tot_cov=112/91
RA	238	.	NC_007779	1177683	0	A	G	bias_e_value=1.57032e-06	bias_p_value=3.37969e-13	fisher_strand_p_value=1.0174e-14	frequency=1.241369e-01	genotype_quality=440.2	ks_quality_p_value=1	log10_base_likelihood=-19.1642	log10_qual_likelihood_position_model=20.9389	log10_strand_likelihood_position_model=13.9925	new_cov=19/0	polymorphism_quality=13.9	quality=13.9	quality_position_model=Inf	ref_cov=15/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=34/108
RA	239	.	NC_007779	1215933	0	C	A	bias_e_value=1.95547	bias_p_value=4.20862e-07	fisher_strand_p_value=2.39247e-08	frequency=6.100702e-02	genotype_quality=650.1	ks_quality_p_value=0.945539	log10_base_likelihood=-10.0132	log10_qual_likelihood_position_model=18.6969	log10_strand_likelihood_position_model=7.62115	new_cov=0/13	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=128/38	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/51
RA	240	.	NC_007779	1223826	0	T	C	bias_e_value=3.56527	bias_p_value=7.67329e-07	fisher_strand_p_value=4.27029e-08	frequency=7.437706e-02	genotype_quality=406.2	ks_quality_p_value=1	log10_base_likelihood=-5.94831	log10_qual_likelihood_position_model=11.5464	log10_strand_likelihood_position_model=7.36954	new_cov=0/13	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=88/26	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=88/39
RA	241	.	NC_007779	1224173	0	G	A	bias_e_value=2.42431e-05	bias_p_value=5.21768e-12	fisher_strand_p_value=1.71673e-13	frequency=1.468067e-01	genotype_quality=554.6	ks_quality_p_value=1	log10_base_likelihood=-28.4433	log10_qual_likelihood_position_model=24.8411	log10_strand_likelihood_position_model=12.7653	new_cov=0/31	polymorphism_quality=23.2	quality=23.2	quality_position_model=Inf	ref_cov=111/55	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/86
RA	242	.	NC_007779	1262472	0	A	C	bias_e_value=0.000577199	bias_p_value=1.24227e-10	fisher_strand_p_value=4.58253e-12	frequency=8.382177e-02	genotype_quality=590.6	ks_quality_p_value=1	log10_base_likelihood=-9.64859	log10_qual_likelihood_position_model=24.429	log10_strand_likelihood_position_model=11.6399	new_cov=0/34	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=104/70	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/106
RA	243	.	NC_007779	1273395	1	.	G	bias_e_value=1721120	bias_p_value=0.370426	fisher_strand_p_value=0.154765	frequency=8.771896e-03	genotype_quality=1123.5	ks_quality_p_value=0.76321	log10_base_likelihood=-8.39664	log10_qual_likelihood_position_model=1.3064	log10_strand_likelihood_position_model=0.810328	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=3.27578e-08	ref_cov=88/138	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=90/138
RA	244	.	NC_007779	1273399	0	T	G	bias_e_value=6.26319e-25	bias_p_value=1.34799e-31	fisher_strand_p_value=1.76397e-33	frequency=2.020359e-01	genotype_quality=571.4	ks_quality_p_value=1	log10_base_likelihood=-44.5511	log10_qual_likelihood_position_model=43.7003	log10_strand_likelihood_position_model=32.7535	new_cov=55/0	polymorphism_quality=39.4	quality=39.4	quality_position_model=Inf	ref_cov=22/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=77/137
RA	245	.	NC_007779	1288364	0	G	A	deleted=1	frequency=1	genotype_quality=60.5	new_cov=6/14	quality=60.5	ref_cov=1/0	tot_cov=7/14
RA	246	.	NC_007779	1288370	0	A	G	deleted=1	frequency=1	genotype_quality=22.0	new_cov=3/6	quality=22.0	ref_cov=0/0	tot_cov=3/6
RA	247	.	NC_007779	1288373	0	T	C	deleted=1	frequency=1	genotype_quality=1.9	new_cov=1/0	quality=1.9	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	248	.	NC_007779	1288462	0	T	C	deleted=1	frequency=1	genotype_quality=32.3	new_cov=11/3	quality=32.3	ref_cov=0/0	tot_cov=11/3
RA	249	.	NC_007779	1289980	0	G	T	bias_e_value=7252.61	bias_p_value=0.00156093	fisher_strand_p_value=0.000160283	frequency=4.482174e-02	genotype_quality=645.6	ks_quality_p_value=1	log10_base_likelihood=-6.83782	log10_qual_likelihood_position_model=10.7176	log10_strand_likelihood_position_model=4.06665	new_cov=0/13	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=98/86	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/99
RA	250	.	NC_007779	1302323	0	A	.	frequency=1	genotype_quality=-0.0	new_cov=1/0	quality=-0.0	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	251	.	NC_007779	1318876	0	G	A	frequency=1	genotype_quality=885.1	new_cov=113/103	quality=885.1	ref_cov=0/0	tot_cov=113/103
RA	252	.	NC_007779	1324190	0	T	C	bias_e_value=0.00715355	bias_p_value=1.53961e-09	fisher_strand_p_value=6.28669e-11	frequency=8.768368e-02	genotype_quality=596.3	ks_quality_p_value=1	log10_base_likelihood=-9.62907	log10_qual_likelihood_position_model=17.812	log10_strand_likelihood_position_model=10.2016	new_cov=0/24	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=118/59	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/83
RA	253	.	NC_007779	1330179	0	T	G	bias_e_value=0.000343274	bias_p_value=7.38807e-11	fisher_strand_p_value=2.67218e-12	frequency=7.558250e-02	genotype_quality=663.4	ks_quality_p_value=1	log10_base_likelihood=-13.6149	log10_qual_likelihood_position_model=24.9144	log10_strand_likelihood_position_model=11.5731	new_cov=26/0	polymorphism_quality=8.2	quality=8.2	quality_position_model=Inf	ref_cov=57/125	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=83/125
RA	254	.	NC_007779	1336531	0	G	T	bias_e_value=4545.72	bias_p_value=0.000978345	fisher_strand_p_value=9.53769e-05	frequency=5.073214e-02	genotype_quality=700.4	ks_quality_p_value=1	log10_base_likelihood=-9.53523	log10_qual_likelihood_position_model=12.5553	log10_strand_likelihood_position_model=4.11416	new_cov=0/14	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=100/96	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/110
RA	255	.	NC_007779	1337405	0	T	G	bias_e_value=0.039482	bias_p_value=8.49745e-09	fisher_strand_p_value=3.74236e-10	frequency=5.419159e-02	genotype_quality=548.7	ks_quality_p_value=1	log10_base_likelihood=-5.97137	log10_qual_likelihood_position_model=18.685	log10_strand_likelihood_position_model=9.42685	new_cov=22/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=49/101	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=71/101
RA	256	.	NC_007779	1352913	1	.	T	bias_e_value=867993	bias_p_value=0.186813	fisher_strand_p_value=0.0722508	frequency=1.428604e-02	genotype_quality=665.8	ks_quality_p_value=0.632959	log10_base_likelihood=-8.8371	log10_qual_likelihood_position_model=0.992478	log10_strand_likelihood_position_model=1.14116	new_cov=2/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=1.19787e-08	ref_cov=36/102	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=38/102
RA	257	.	NC_007779	1352918	0	C	T	bias_e_value=0.402391	bias_p_value=8.6604e-08	fisher_strand_p_value=4.2772e-09	frequency=6.243706e-02	genotype_quality=494.7	ks_quality_p_value=0.998851	log10_base_likelihood=-6.54774	log10_qual_likelihood_position_model=12.26	log10_strand_likelihood_position_model=8.36884	new_cov=10/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=14/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=24/113
RA	258	.	NC_007779	1352922	0	T	C	bias_e_value=15.5656	bias_p_value=3.35009e-06	fisher_strand_p_value=2.06921e-07	frequency=4.701710e-02	genotype_quality=425.2	ks_quality_p_value=0.986964	log10_base_likelihood=-8.06881	log10_qual_likelihood_position_model=7.20271	log10_strand_likelihood_position_model=6.6842	new_cov=6/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=6/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=13/112
RA	259	.	NC_007779	1352924	0	A	C	bias_e_value=418.979	bias_p_value=9.01741e-05	fisher_strand_p_value=7.5671e-06	frequency=3.772736e-02	genotype_quality=422.7	ks_quality_p_value=0.926024	log10_base_likelihood=-6.59322	log10_qual_likelihood_position_model=6.91738	log10_strand_likelihood_position_model=5.12107	new_cov=5/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=9/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=14/114
RA	260	.	NC_007779	1371749	1	.	T	bias_e_value=4642880	bias_p_value=0.999257	fisher_strand_p_value=1	frequency=1.731586e-02	genotype_quality=1095.0	ks_quality_p_value=0.961696	log10_base_likelihood=-17.2666	log10_qual_likelihood_position_model=3.28129	log10_strand_likelihood_position_model=0.422332	new_cov=2/2	polymorphism_quality=11.9	quality=11.9	quality_position_model=1.181e-15	ref_cov=115/112	reject=INDEL_HOMOPOLYMER	tot_cov=117/114
RA	261	.	NC_007779	1375289	0	G	T	bias_e_value=8553.36	bias_p_value=0.00184089	fisher_strand_p_value=0.000192672	frequency=4.168892e-02	genotype_quality=739.1	ks_quality_p_value=1	log10_base_likelihood=-5.72665	log10_qual_likelihood_position_model=13.0784	log10_strand_likelihood_position_model=3.83763	new_cov=0/13	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=106/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/115
RA	262	.	NC_007779	1378219	0	A	C	bias_e_value=8.9454e-06	bias_p_value=1.92526e-12	fisher_strand_p_value=6.12682e-14	frequency=8.642626e-02	genotype_quality=535.6	ks_quality_p_value=1	log10_base_likelihood=-9.05959	log10_qual_likelihood_position_model=25.6635	log10_strand_likelihood_position_model=13.2128	new_cov=0/23	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=111/29	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/52
RA	263	.	NC_007779	1378854	0	A	C	bias_e_value=7.06382e-07	bias_p_value=1.5203e-13	fisher_strand_p_value=4.46592e-15	frequency=9.961319e-02	genotype_quality=518.8	ks_quality_p_value=1	log10_base_likelihood=-9.81693	log10_qual_likelihood_position_model=25.8865	log10_strand_likelihood_position_model=14.3501	new_cov=0/39	polymorphism_quality=4.4	quality=4.4	quality_position_model=Inf	ref_cov=97/54	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/94
RA	264	.	NC_007779	1386502	0	T	G	bias_e_value=1.7571e-05	bias_p_value=3.78169e-12	fisher_strand_p_value=1.23078e-13	frequency=8.784723e-02	genotype_quality=546.3	ks_quality_p_value=1	log10_base_likelihood=-11.2596	log10_qual_likelihood_position_model=24.4218	log10_strand_likelihood_position_model=12.9098	new_cov=26/0	polymorphism_quality=5.8	quality=5.8	quality_position_model=Inf	ref_cov=41/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=67/115
RA	265	.	NC_007779	1405508	0	G	T	bias_e_value=0.000564926	bias_p_value=1.21585e-10	fisher_strand_p_value=4.60632e-12	frequency=8.835554e-02	genotype_quality=415.0	ks_quality_p_value=0.972881	log10_base_likelihood=-25.0627	log10_qual_likelihood_position_model=10.2947	log10_strand_likelihood_position_model=11.3366	new_cov=10/0	polymorphism_quality=19.8	quality=19.8	quality_position_model=3.05447e-05	ref_cov=3/100	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=13/100
RA	266	.	NC_007779	1409137	0	G	T	bias_e_value=0.00470264	bias_p_value=1.01212e-09	fisher_strand_p_value=4.0603e-11	frequency=1.169691e-01	genotype_quality=604.0	ks_quality_p_value=1	log10_base_likelihood=-20.8577	log10_qual_likelihood_position_model=17.2476	log10_strand_likelihood_position_model=10.3914	new_cov=0/30	polymorphism_quality=15.6	quality=15.6	quality_position_model=Inf	ref_cov=106/72	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/102
RA	267	.	NC_007779	1410956	1	.	T	bias_e_value=4062480	bias_p_value=0.874342	fisher_strand_p_value=1	frequency=8.196831e-03	genotype_quality=1176.1	ks_quality_p_value=0.542609	log10_base_likelihood=-8.39867	log10_qual_likelihood_position_model=1.26893	log10_strand_likelihood_position_model=0.299276	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=8.86267e-09	ref_cov=120/122	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=121/123
RA	268	.	NC_007779	1429441	0	C	A	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	269	.	NC_007779	1429442	0	T	A	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	270	.	NC_007779	1429451	0	T	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	271	.	NC_007779	1429452	0	T	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	272	.	NC_007779	1429455	0	G	A	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	273	.	NC_007779	1429463	0	C	G	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	274	.	NC_007779	1429497	0	A	G	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	275	.	NC_007779	1429517	0	G	C	deleted=1	frequency=1	genotype_quality=-0.1	new_cov=0/1	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	276	.	NC_007779	1430350	0	T	G	deleted=1	frequency=1	genotype_quality=1.2	new_cov=0/1	quality=1.2	ref_cov=0/0	reject=EVALUE	tot_cov=0/1
RA	277	.	NC_007779	1434371	0	A	G	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	278	.	NC_007779	1437441	0	G	A	bias_e_value=31.31	bias_p_value=6.73865e-06	fisher_strand_p_value=4.31643e-07	frequency=4.914618e-02	genotype_quality=539.6	ks_quality_p_value=0.996997	log10_base_likelihood=-9.65901	log10_qual_likelihood_position_model=9.39696	log10_strand_likelihood_position_model=6.36488	new_cov=0/7	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=120/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=120/20
RA	279	.	NC_007779	1437447	0	G	C	bias_e_value=2.38679e-12	bias_p_value=5.13692e-19	fisher_strand_p_value=1.09385e-20	frequency=1.572552e-01	genotype_quality=545.5	ks_quality_p_value=1	log10_base_likelihood=-31.5312	log10_qual_likelihood_position_model=27.6042	log10_strand_likelihood_position_model=19.961	new_cov=0/33	polymorphism_quality=26.3	quality=26.3	quality_position_model=Inf	ref_cov=126/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/59
RA	280	.	NC_007779	1476017	0	T	.	bias_e_value=1462050	bias_p_value=0.314668	fisher_strand_p_value=0.119925	frequency=1.355362e-02	genotype_quality=803.9	ks_quality_p_value=0.778219	log10_base_likelihood=-7.52406	log10_qual_likelihood_position_model=2.13057	log10_strand_likelihood_position_model=0.921089	new_cov=0/3	polymorphism_quality=2.0	quality=2.0	quality_position_model=2.46285e-06	ref_cov=111/106	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/109
RA	281	.	NC_007779	1483588	0	G	A	frequency=1	genotype_quality=553.5	new_cov=116/25	quality=553.5	ref_cov=0/0	tot_cov=116/25
RA	282	.	NC_007779	1483616	0	C	G	bias_e_value=3.11466e-08	bias_p_value=6.70348e-15	fisher_strand_p_value=1.7994e-16	frequency=1.093159e-01	genotype_quality=472.4	ks_quality_p_value=1	log10_base_likelihood=-25.6379	log10_qual_likelihood_position_model=15.5728	log10_strand_likelihood_position_model=15.7449	new_cov=0/15	polymorphism_quality=20.4	quality=20.4	quality_position_model=Inf	ref_cov=113/4	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/19
RA	283	.	NC_007779	1493621	0	T	C	bias_e_value=46.9321	bias_p_value=1.01009e-05	fisher_strand_p_value=6.63402e-07	frequency=5.657864e-02	genotype_quality=662.9	ks_quality_p_value=1	log10_base_likelihood=-5.72585	log10_qual_likelihood_position_model=16.603	log10_strand_likelihood_position_model=6.17822	new_cov=0/17	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=111/76	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/93
RA	284	.	NC_007779	1496775	0	T	.	frequency=1	genotype_quality=966.8	new_cov=97/98	quality=966.8	ref_cov=0/0	tot_cov=97/98
RA	285	.	NC_007779	1512930	0	T	C	bias_e_value=8.51237e-05	bias_p_value=1.83206e-11	fisher_strand_p_value=6.29715e-13	frequency=1.214452e-01	genotype_quality=560.8	ks_quality_p_value=1	log10_base_likelihood=-13.9496	log10_qual_likelihood_position_model=19.927	log10_strand_likelihood_position_model=12.2009	new_cov=0/31	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=111/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=112/91
RA	286	.	NC_007779	1515709	0	A	G	bias_e_value=1.04586e-08	bias_p_value=2.25094e-15	fisher_strand_p_value=5.86566e-17	frequency=2.073770e-01	genotype_quality=422.3	ks_quality_p_value=1	log10_base_likelihood=-49.8533	log10_qual_likelihood_position_model=34.1323	log10_strand_likelihood_position_model=16.2317	new_cov=40/0	polymorphism_quality=44.8	quality=44.8	quality_position_model=Inf	ref_cov=45/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=85/99
RA	287	.	NC_007779	1515714	0	A	T	bias_e_value=1.94113	bias_p_value=4.17777e-07	fisher_strand_p_value=2.24465e-08	frequency=1.122627e-01	genotype_quality=513.2	ks_quality_p_value=1	log10_base_likelihood=-18.6474	log10_qual_likelihood_position_model=20.041	log10_strand_likelihood_position_model=7.64885	new_cov=20/0	polymorphism_quality=13.3	quality=13.3	quality_position_model=Inf	ref_cov=55/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=75/92
RA	288	.	NC_007779	1527466	0	T	A	bias_e_value=576.803	bias_p_value=0.000124141	fisher_strand_p_value=9.91423e-06	frequency=6.301928e-02	genotype_quality=616.4	ks_quality_p_value=1	log10_base_likelihood=-13.245	log10_qual_likelihood_position_model=15.5036	log10_strand_likelihood_position_model=5.00374	new_cov=0/12	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=107/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=107/72
RA	289	.	NC_007779	1527474	0	G	A	bias_e_value=1.31667e-08	bias_p_value=2.83378e-15	fisher_strand_p_value=7.43025e-17	frequency=1.891642e-01	genotype_quality=517.9	ks_quality_p_value=1	log10_base_likelihood=-46.8104	log10_qual_likelihood_position_model=33.4706	log10_strand_likelihood_position_model=16.129	new_cov=0/39	polymorphism_quality=41.7	quality=41.7	quality_position_model=Inf	ref_cov=111/51	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/90
RA	290	.	NC_007779	1527479	0	C	A	bias_e_value=32.1074	bias_p_value=6.91026e-06	fisher_strand_p_value=4.8247e-07	frequency=9.481335e-02	genotype_quality=678.5	ks_quality_p_value=0.916252	log10_base_likelihood=-28.0084	log10_qual_likelihood_position_model=23.7523	log10_strand_likelihood_position_model=6.32975	new_cov=1/20	polymorphism_quality=22.8	quality=22.8	quality_position_model=Inf	ref_cov=113/74	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/94
RA	291	.	NC_007779	1531018	0	A	C	bias_e_value=0.000180964	bias_p_value=3.89478e-11	fisher_strand_p_value=1.37566e-12	frequency=1.063967e-01	genotype_quality=462.9	ks_quality_p_value=1	log10_base_likelihood=-17.9928	log10_qual_likelihood_position_model=17.4948	log10_strand_likelihood_position_model=11.8615	new_cov=0/18	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=103/20	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/38
RA	292	.	NC_007779	1537499	0	A	G	bias_e_value=4.09542e-06	bias_p_value=8.8143e-13	fisher_strand_p_value=2.7348e-14	frequency=1.386166e-01	genotype_quality=513.4	ks_quality_p_value=1	log10_base_likelihood=-18.9705	log10_qual_likelihood_position_model=22.1694	log10_strand_likelihood_position_model=13.5631	new_cov=31/0	polymorphism_quality=13.7	quality=13.7	quality_position_model=Inf	ref_cov=47/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=78/108
RA	293	.	NC_007779	1552367	0	G	T	bias_e_value=0.0108999	bias_p_value=2.34591e-09	fisher_strand_p_value=9.75402e-11	frequency=6.856823e-02	genotype_quality=621.4	ks_quality_p_value=1	log10_base_likelihood=-5.99459	log10_qual_likelihood_position_model=17.6052	log10_strand_likelihood_position_model=10.0108	new_cov=0/20	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=115/43	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/63
RA	294	.	NC_007779	1552377	0	A	C	bias_e_value=8.61146e-15	bias_p_value=1.85339e-21	fisher_strand_p_value=3.51674e-23	frequency=2.059546e-01	genotype_quality=443.0	ks_quality_p_value=1	log10_base_likelihood=-36.5147	log10_qual_likelihood_position_model=32.9917	log10_strand_likelihood_position_model=22.4539	new_cov=0/42	polymorphism_quality=31.4	quality=31.4	quality_position_model=Inf	ref_cov=105/24	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=105/66
RA	295	.	NC_007779	1562465	0	T	G	bias_e_value=12.9934	bias_p_value=2.79648e-06	fisher_strand_p_value=1.685e-07	frequency=1.288457e-01	genotype_quality=351.0	ks_quality_p_value=1	log10_base_likelihood=-14.9321	log10_qual_likelihood_position_model=15.9472	log10_strand_likelihood_position_model=6.89514	new_cov=21/0	polymorphism_quality=9.6	quality=9.6	quality_position_model=Inf	ref_cov=47/65	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=68/66
RA	296	.	NC_007779	1562518	0	A	C	bias_e_value=0.150325	bias_p_value=3.23535e-08	fisher_strand_p_value=1.51855e-09	frequency=9.586096e-02	genotype_quality=329.6	ks_quality_p_value=1	log10_base_likelihood=-8.99878	log10_qual_likelihood_position_model=14.6494	log10_strand_likelihood_position_model=8.81857	new_cov=0/18	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=71/25	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=71/43
RA	297	.	NC_007779	1564550	0	G	T	bias_e_value=7382.1	bias_p_value=0.0015888	fisher_strand_p_value=0.000165791	frequency=4.465771e-02	genotype_quality=505.9	ks_quality_p_value=0.986039	log10_base_likelihood=-8.19491	log10_qual_likelihood_position_model=10.8474	log10_strand_likelihood_position_model=3.79355	new_cov=7/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=26/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=33/106
RA	298	.	NC_007779	1578837	0	A	C	bias_e_value=2.41983e-07	bias_p_value=5.20804e-14	fisher_strand_p_value=1.48185e-15	frequency=7.342434e-02	genotype_quality=671.0	ks_quality_p_value=1	log10_base_likelihood=-8.09304	log10_qual_likelihood_position_model=24.6248	log10_strand_likelihood_position_model=14.8292	new_cov=0/32	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=129/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/84
RA	299	.	NC_007779	1602599	0	C	A	bias_e_value=1498.51	bias_p_value=0.000322515	fisher_strand_p_value=2.80937e-05	frequency=5.939579e-02	genotype_quality=704.0	ks_quality_p_value=1	log10_base_likelihood=-8.82935	log10_qual_likelihood_position_model=14.9612	log10_strand_likelihood_position_model=4.79347	new_cov=19/0	polymorphism_quality=3.4	quality=3.4	quality_position_model=Inf	ref_cov=107/92	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/92
RA	300	.	NC_007779	1615814	0	C	A	frequency=1	genotype_quality=757.7	new_cov=99/98	quality=757.7	ref_cov=0/0	tot_cov=99/98
RA	301	.	NC_007779	1621489	0	C	A	bias_e_value=2961.88	bias_p_value=0.000637466	fisher_strand_p_value=5.94032e-05	frequency=3.949451e-02	genotype_quality=639.7	ks_quality_p_value=1	log10_base_likelihood=-6.33144	log10_qual_likelihood_position_model=11.2462	log10_strand_likelihood_position_model=4.22619	new_cov=0/9	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=107/50	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/59
RA	302	.	NC_007779	1624530	1	.	A	bias_e_value=482950	bias_p_value=0.103942	fisher_strand_p_value=0.139123	frequency=9.132385e-03	genotype_quality=1011.4	ks_quality_p_value=0.154331	log10_base_likelihood=-8.70641	log10_qual_likelihood_position_model=2.08561	log10_strand_likelihood_position_model=0.856602	new_cov=2/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=1.11813e-07	ref_cov=80/137	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=82/137
RA	303	.	NC_007779	1626063	1	.	T	bias_e_value=4571520	bias_p_value=0.983899	fisher_strand_p_value=1	frequency=9.259224e-03	genotype_quality=1058.9	ks_quality_p_value=0.826004	log10_base_likelihood=-8.36428	log10_qual_likelihood_position_model=1.64323	log10_strand_likelihood_position_model=0.300843	new_cov=1/1	polymorphism_quality=2.9	quality=2.9	quality_position_model=2.34694e-08	ref_cov=114/100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=115/101
RA	304	.	NC_007779	1628027	0	G	T	bias_e_value=0.00407762	bias_p_value=8.776e-10	fisher_strand_p_value=3.60735e-11	frequency=2.335329e-01	genotype_quality=228.4	ks_quality_p_value=0.970187	log10_base_likelihood=-54.079	log10_qual_likelihood_position_model=13.858	log10_strand_likelihood_position_model=10.4428	new_cov=19/0	polymorphism_quality=49.0	quality=49.0	quality_position_model=4.89616e-32	ref_cov=11/51	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=30/51
RA	305	.	NC_007779	1628337	0	T	.	bias_e_value=174138	bias_p_value=0.0374786	fisher_strand_p_value=0.111609	frequency=1.578045e-02	genotype_quality=750.2	ks_quality_p_value=0.0551333	log10_base_likelihood=-8.4254	log10_qual_likelihood_position_model=2.67101	log10_strand_likelihood_position_model=0.952302	new_cov=0/3	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.11558e-06	ref_cov=98/89	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/92
RA	306	.	NC_007779	1641154	1	.	T	bias_e_value=4621190	bias_p_value=0.994589	fisher_strand_p_value=1	frequency=9.901047e-03	genotype_quality=981.1	ks_quality_p_value=0.897788	log10_base_likelihood=-8.28245	log10_qual_likelihood_position_model=1.4436	log10_strand_likelihood_position_model=0.30041	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.77231e-08	ref_cov=106/94	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=107/95
RA	307	.	NC_007779	1646737	0	T	A	bias_e_value=724.773	bias_p_value=0.000155988	fisher_strand_p_value=1.27097e-05	frequency=5.857134e-02	genotype_quality=772.0	ks_quality_p_value=1	log10_base_likelihood=-11.8733	log10_qual_likelihood_position_model=21.6701	log10_strand_likelihood_position_model=4.89586	new_cov=0/14	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=118/88	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/102
RA	308	.	NC_007779	1651009	0	T	G	bias_e_value=3.85885e-09	bias_p_value=8.30514e-16	fisher_strand_p_value=2.108e-17	frequency=1.514602e-01	genotype_quality=434.6	ks_quality_p_value=1	log10_base_likelihood=-32.7901	log10_qual_likelihood_position_model=21.8256	log10_strand_likelihood_position_model=16.6761	new_cov=23/0	polymorphism_quality=27.6	quality=27.6	quality_position_model=Inf	ref_cov=13/103	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=36/103
RA	309	.	NC_007779	1660545	0	G	T	bias_e_value=1898.58	bias_p_value=0.00040862	fisher_strand_p_value=3.64174e-05	frequency=4.547119e-02	genotype_quality=746.0	ks_quality_p_value=1	log10_base_likelihood=-9.73431	log10_qual_likelihood_position_model=12.9562	log10_strand_likelihood_position_model=4.73972	new_cov=0/15	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=109/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/109
RA	310	.	NC_007779	1669599	0	C	.	frequency=1	genotype_quality=795.7	new_cov=73/87	quality=795.7	ref_cov=0/0	tot_cov=73/87
RA	311	.	NC_007779	1671093	0	G	T	bias_e_value=421.37	bias_p_value=9.06888e-05	fisher_strand_p_value=7.11054e-06	frequency=5.801058e-02	genotype_quality=651.1	ks_quality_p_value=0.991584	log10_base_likelihood=-6.85011	log10_qual_likelihood_position_model=15.6724	log10_strand_likelihood_position_model=5.17165	new_cov=0/18	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=95/92	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=95/110
RA	312	.	NC_007779	1681026	0	A	C	bias_e_value=6.6047e-05	bias_p_value=1.42149e-11	fisher_strand_p_value=4.8422e-13	frequency=7.441378e-02	genotype_quality=550.2	ks_quality_p_value=1	log10_base_likelihood=-5.94689	log10_qual_likelihood_position_model=24.8583	log10_strand_likelihood_position_model=12.315	new_cov=0/31	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=102/53	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=102/84
RA	313	.	NC_007779	1681402	0	T	G	bias_e_value=1.46851e-06	bias_p_value=3.16059e-13	fisher_strand_p_value=9.49467e-15	frequency=1.126518e-01	genotype_quality=604.3	ks_quality_p_value=1	log10_base_likelihood=-27.3456	log10_qual_likelihood_position_model=24.3037	log10_strand_likelihood_position_model=14.0225	new_cov=29/0	polymorphism_quality=22.1	quality=22.1	quality_position_model=Inf	ref_cov=44/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=73/119
RA	314	.	NC_007779	1686463	0	A	C	bias_e_value=3.12449e-06	bias_p_value=6.72463e-13	fisher_strand_p_value=2.06852e-14	frequency=1.091509e-01	genotype_quality=478.4	ks_quality_p_value=1	log10_base_likelihood=-9.7814	log10_qual_likelihood_position_model=20.8763	log10_strand_likelihood_position_model=13.6843	new_cov=0/31	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=97/40	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/71
RA	315	.	NC_007779	1703335	0	G	C	bias_e_value=1.03915e-07	bias_p_value=2.2365e-14	fisher_strand_p_value=6.20986e-16	frequency=1.364908e-01	genotype_quality=464.3	ks_quality_p_value=1	log10_base_likelihood=-36.2942	log10_qual_likelihood_position_model=16.4815	log10_strand_likelihood_position_model=15.2069	new_cov=19/0	polymorphism_quality=31.1	quality=31.1	quality_position_model=1.78712e-06	ref_cov=11/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=30/107
RA	316	.	NC_007779	1713510	0	A	C	bias_e_value=1.45811e-07	bias_p_value=3.1382e-14	fisher_strand_p_value=8.79867e-16	frequency=1.371279e-01	genotype_quality=570.5	ks_quality_p_value=1	log10_base_likelihood=-25.1604	log10_qual_likelihood_position_model=36.1883	log10_strand_likelihood_position_model=15.0556	new_cov=0/41	polymorphism_quality=19.9	quality=19.9	quality_position_model=Inf	ref_cov=106/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/101
RA	317	.	NC_007779	1759411	1	.	T	bias_e_value=4557770	bias_p_value=0.98094	fisher_strand_p_value=1	frequency=8.928299e-03	genotype_quality=1081.0	ks_quality_p_value=0.811218	log10_base_likelihood=-8.0515	log10_qual_likelihood_position_model=2.30061	log10_strand_likelihood_position_model=0.299641	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=2.35919e-07	ref_cov=107/115	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/116
RA	318	.	NC_007779	1763744	0	C	A	bias_e_value=136.92	bias_p_value=2.94684e-05	fisher_strand_p_value=2.09341e-06	frequency=4.125786e-02	genotype_quality=716.7	ks_quality_p_value=1	log10_base_likelihood=-6.38276	log10_qual_likelihood_position_model=12.3134	log10_strand_likelihood_position_model=5.67915	new_cov=15/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=82/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=97/125
RA	319	.	NC_007779	1784304	0	A	C	bias_e_value=899.402	bias_p_value=0.000193573	fisher_strand_p_value=1.60802e-05	frequency=6.279659e-02	genotype_quality=648.4	ks_quality_p_value=1	log10_base_likelihood=-6.74378	log10_qual_likelihood_position_model=18.5847	log10_strand_likelihood_position_model=4.83759	new_cov=1/18	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=102/83	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/101
RA	320	.	NC_007779	1790245	0	A	C	bias_e_value=30.4901	bias_p_value=6.56219e-06	fisher_strand_p_value=4.1832e-07	frequency=6.302547e-02	genotype_quality=612.2	ks_quality_p_value=1	log10_base_likelihood=-6.82183	log10_qual_likelihood_position_model=16.7634	log10_strand_likelihood_position_model=6.37849	new_cov=0/19	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=100/76	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/95
RA	321	.	NC_007779	1801410	0	C	A	bias_e_value=47759.7	bias_p_value=0.010279	fisher_strand_p_value=0.00135132	frequency=3.462410e-02	genotype_quality=709.1	ks_quality_p_value=1	log10_base_likelihood=-6.68252	log10_qual_likelihood_position_model=7.72422	log10_strand_likelihood_position_model=2.86924	new_cov=0/8	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=102/75	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=103/83
RA	322	.	NC_007779	1801443	0	A	C	bias_e_value=4.34915e-08	bias_p_value=9.3604e-15	fisher_strand_p_value=2.53595e-16	frequency=1.199355e-01	genotype_quality=483.0	ks_quality_p_value=1	log10_base_likelihood=-6.18986	log10_qual_likelihood_position_model=28.9324	log10_strand_likelihood_position_model=15.5959	new_cov=0/33	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=96/33	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/66
RA	323	.	NC_007779	1801448	0	G	T	bias_e_value=10692	bias_p_value=0.00230118	fisher_strand_p_value=0.000247309	frequency=3.820705e-02	genotype_quality=655.3	ks_quality_p_value=1	log10_base_likelihood=-5.82286	log10_qual_likelihood_position_model=9.54112	log10_strand_likelihood_position_model=3.60676	new_cov=0/9	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=103/63	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/72
RA	324	.	NC_007779	1801456	0	C	G	bias_e_value=43.0648	bias_p_value=9.26856e-06	fisher_strand_p_value=6.24324e-07	frequency=9.057808e-02	genotype_quality=572.6	ks_quality_p_value=0.969177	log10_base_likelihood=-14.3041	log10_qual_likelihood_position_model=17.8171	log10_strand_likelihood_position_model=6.45732	new_cov=0/20	polymorphism_quality=8.9	quality=8.9	quality_position_model=Inf	ref_cov=94/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=94/96
RA	325	.	NC_007779	1820086	0	A	C	bias_e_value=1.72194e-06	bias_p_value=3.70603e-13	fisher_strand_p_value=1.11884e-14	frequency=6.341505e-02	genotype_quality=675.8	ks_quality_p_value=1	log10_base_likelihood=-5.66206	log10_qual_likelihood_position_model=32.7436	log10_strand_likelihood_position_model=13.9512	new_cov=0/30	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=128/52	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=128/82
RA	326	.	NC_007779	1820099	0	A	C	bias_e_value=2.97373e-09	bias_p_value=6.40017e-16	fisher_strand_p_value=1.61354e-17	frequency=1.453099e-01	genotype_quality=614.2	ks_quality_p_value=1	log10_base_likelihood=-23.2179	log10_qual_likelihood_position_model=31.7767	log10_strand_likelihood_position_model=16.7922	new_cov=0/35	polymorphism_quality=18.0	quality=18.0	quality_position_model=Inf	ref_cov=127/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/82
RA	327	.	NC_007779	1837206	0	G	T	bias_e_value=9.09918e-06	bias_p_value=1.95836e-12	fisher_strand_p_value=6.27079e-14	frequency=1.049266e-01	genotype_quality=622.6	ks_quality_p_value=0.994394	log10_base_likelihood=-26.891	log10_qual_likelihood_position_model=22.9669	log10_strand_likelihood_position_model=13.2027	new_cov=20/0	polymorphism_quality=21.7	quality=21.7	quality_position_model=Inf	ref_cov=27/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=47/132
RA	328	.	NC_007779	1844073	0	G	A	frequency=1	genotype_quality=811.5	new_cov=97/103	quality=811.5	ref_cov=0/0	tot_cov=97/103
RA	329	.	NC_007779	1844628	0	A	G	bias_e_value=624.154	bias_p_value=0.000134333	fisher_strand_p_value=1.09107e-05	frequency=3.794289e-02	genotype_quality=484.6	ks_quality_p_value=0.990047	log10_base_likelihood=-7.1169	log10_qual_likelihood_position_model=7.36052	log10_strand_likelihood_position_model=4.96215	new_cov=5/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=10/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=15/115
RA	330	.	NC_007779	1879404	0	A	C	bias_e_value=4.18656e-08	bias_p_value=9.01045e-15	fisher_strand_p_value=2.43856e-16	frequency=8.381414e-02	genotype_quality=573.1	ks_quality_p_value=1	log10_base_likelihood=-12.8568	log10_qual_likelihood_position_model=23.8271	log10_strand_likelihood_position_model=15.6129	new_cov=0/19	polymorphism_quality=7.5	quality=7.5	quality_position_model=Inf	ref_cov=131/14	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/33
RA	331	.	NC_007779	1879996	0	G	T	bias_e_value=25979.2	bias_p_value=0.00559133	fisher_strand_p_value=0.000673396	frequency=3.462410e-02	genotype_quality=736.5	ks_quality_p_value=1	log10_base_likelihood=-5.7656	log10_qual_likelihood_position_model=8.57246	log10_strand_likelihood_position_model=3.17173	new_cov=8/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=76/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=84/120
RA	332	.	NC_007779	1896056	0	A	.	bias_e_value=4421090	bias_p_value=0.951523	fisher_strand_p_value=1	frequency=1.858807e-02	genotype_quality=869.5	ks_quality_p_value=0.705244	log10_base_likelihood=-10.7322	log10_qual_likelihood_position_model=3.34562	log10_strand_likelihood_position_model=0.445452	new_cov=2/2	polymorphism_quality=5.3	quality=5.3	quality_position_model=6.81717e-09	ref_cov=88/123	reject=INDEL_HOMOPOLYMER	tot_cov=90/125
RA	333	.	NC_007779	1905959	0	T	G	bias_e_value=7092.66	bias_p_value=0.00152651	fisher_strand_p_value=0.00015635	frequency=4.381180e-02	genotype_quality=631.7	ks_quality_p_value=1	log10_base_likelihood=-7.54377	log10_qual_likelihood_position_model=12.9397	log10_strand_likelihood_position_model=3.8059	new_cov=11/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=77/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=88/101
RA	334	.	NC_007779	1906475	1	.	C	bias_e_value=1752360	bias_p_value=0.377149	fisher_strand_p_value=0.209631	frequency=9.091377e-03	genotype_quality=1063.2	ks_quality_p_value=0.578564	log10_base_likelihood=-9.0725	log10_qual_likelihood_position_model=1.47335	log10_strand_likelihood_position_model=0.678545	new_cov=2/0	polymorphism_quality=3.6	quality=3.6	quality_position_model=7.15702e-09	ref_cov=99/119	reject=POLYMORPHISM_STRAND	tot_cov=101/119
RA	335	.	NC_007779	1906477	1	.	G	bias_e_value=1096960	bias_p_value=0.236091	fisher_strand_p_value=0.0634812	frequency=1.587296e-02	genotype_quality=902.2	ks_quality_p_value=0.98627	log10_base_likelihood=-11.9743	log10_qual_likelihood_position_model=5.26616	log10_strand_likelihood_position_model=1.19735	new_cov=3/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=2.04655e-07	ref_cov=73/113	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=76/113
RA	336	.	NC_007779	1906488	0	G	T	bias_e_value=38.2208	bias_p_value=8.22602e-06	fisher_strand_p_value=5.32583e-07	frequency=6.211805e-02	genotype_quality=681.1	ks_quality_p_value=1	log10_base_likelihood=-12.6794	log10_qual_likelihood_position_model=12.7121	log10_strand_likelihood_position_model=6.27361	new_cov=14/0	polymorphism_quality=7.3	quality=7.3	quality_position_model=Inf	ref_cov=58/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=72/118
RA	337	.	NC_007779	1913464	0	T	G	bias_e_value=5.98624e-13	bias_p_value=1.28838e-19	fisher_strand_p_value=2.66333e-21	frequency=1.535387e-01	genotype_quality=511.1	ks_quality_p_value=1	log10_base_likelihood=-13.9064	log10_qual_likelihood_position_model=32.5791	log10_strand_likelihood_position_model=20.5746	new_cov=52/0	polymorphism_quality=8.5	quality=8.5	quality_position_model=Inf	ref_cov=47/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/106
RA	338	.	NC_007779	1918872	0	T	A	frequency=1	genotype_quality=890.9	new_cov=120/110	quality=890.9	ref_cov=0/0	tot_cov=120/110
RA	339	.	NC_007779	1920746	0	G	T	bias_e_value=14.5138	bias_p_value=3.12372e-06	fisher_strand_p_value=1.89563e-07	frequency=5.205917e-02	genotype_quality=736.3	ks_quality_p_value=1	log10_base_likelihood=-7.61843	log10_qual_likelihood_position_model=16.7845	log10_strand_likelihood_position_model=6.72225	new_cov=0/19	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=118/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/104
RA	340	.	NC_007779	1949857	0	A	C	bias_e_value=6.46769e-07	bias_p_value=1.392e-13	fisher_strand_p_value=4.07815e-15	frequency=8.316326e-02	genotype_quality=711.0	ks_quality_p_value=1	log10_base_likelihood=-10.4795	log10_qual_likelihood_position_model=35.0643	log10_strand_likelihood_position_model=14.3895	new_cov=0/33	polymorphism_quality=5.1	quality=5.1	quality_position_model=Inf	ref_cov=130/59	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/93
RA	341	.	NC_007779	1956118	0	C	A	bias_e_value=44.1838	bias_p_value=9.50939e-06	fisher_strand_p_value=6.66282e-07	frequency=4.442406e-02	genotype_quality=536.2	ks_quality_p_value=0.933414	log10_base_likelihood=-15.4547	log10_qual_likelihood_position_model=6.46077	log10_strand_likelihood_position_model=6.17634	new_cov=0/6	polymorphism_quality=10.1	quality=10.1	quality_position_model=0.000137085	ref_cov=120/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=120/15
RA	342	.	NC_007779	1971508	0	A	C	bias_e_value=7.5997e-08	bias_p_value=1.63563e-14	fisher_strand_p_value=4.50129e-16	frequency=1.060743e-01	genotype_quality=455.8	ks_quality_p_value=1	log10_base_likelihood=-21.0273	log10_qual_likelihood_position_model=19.3984	log10_strand_likelihood_position_model=15.3467	new_cov=0/17	polymorphism_quality=15.8	quality=15.8	quality_position_model=Inf	ref_cov=113/8	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/25
RA	343	.	NC_007779	1973476	0	G	A	frequency=1	genotype_quality=862.4	new_cov=107/112	quality=862.4	ref_cov=0/0	tot_cov=107/112
RA	344	.	NC_007779	1993891	0	A	C	bias_e_value=338.881	bias_p_value=7.29352e-05	fisher_strand_p_value=5.56824e-06	frequency=4.916000e-02	genotype_quality=726.5	ks_quality_p_value=1	log10_base_likelihood=-10.7577	log10_qual_likelihood_position_model=14.5322	log10_strand_likelihood_position_model=5.25428	new_cov=0/16	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=110/89	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/105
RA	345	.	NC_007779	1993894	0	A	C	bias_e_value=0.543897	bias_p_value=1.1706e-07	fisher_strand_p_value=5.86647e-09	frequency=8.613110e-02	genotype_quality=710.4	ks_quality_p_value=1	log10_base_likelihood=-24.1821	log10_qual_likelihood_position_model=22.2676	log10_strand_likelihood_position_model=8.53265	new_cov=0/26	polymorphism_quality=18.9	quality=18.9	quality_position_model=Inf	ref_cov=113/87	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/113
RA	346	.	NC_007779	2004055	0	A	C	bias_e_value=3.83363e-19	bias_p_value=8.25087e-26	fisher_strand_p_value=1.31178e-27	frequency=2.347980e-01	genotype_quality=489.8	ks_quality_p_value=1	log10_base_likelihood=-40.5084	log10_qual_likelihood_position_model=44.522	log10_strand_likelihood_position_model=26.8821	new_cov=0/61	polymorphism_quality=35.4	quality=35.4	quality_position_model=Inf	ref_cov=112/36	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/97
RA	347	.	NC_007779	2005401	0	C	T	frequency=1	genotype_quality=903.8	new_cov=102/116	quality=903.8	ref_cov=0/0	tot_cov=102/116
RA	348	.	NC_007779	2020389	1	.	A	bias_e_value=4173720	bias_p_value=0.898283	fisher_strand_p_value=0.589463	frequency=1.421738e-02	genotype_quality=1012.5	ks_quality_p_value=0.991289	log10_base_likelihood=-12.0752	log10_qual_likelihood_position_model=3.60417	log10_strand_likelihood_position_model=0.474217	new_cov=1/2	polymorphism_quality=6.7	quality=6.7	quality_position_model=5.60716e-10	ref_cov=115/93	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=116/95
RA	349	.	NC_007779	2032185	0	G	C	bias_e_value=66.8377	bias_p_value=1.43851e-05	fisher_strand_p_value=9.68878e-07	frequency=3.654289e-02	genotype_quality=435.2	ks_quality_p_value=1	log10_base_likelihood=-5.99974	log10_qual_likelihood_position_model=5.93455	log10_strand_likelihood_position_model=6.01373	new_cov=4/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=1/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=5/102
RA	350	.	NC_007779	2036123	1	.	T	bias_e_value=379992	bias_p_value=0.0817832	fisher_strand_p_value=0.104245	frequency=1.249981e-02	genotype_quality=785.3	ks_quality_p_value=0.152605	log10_base_likelihood=-8.74791	log10_qual_likelihood_position_model=0.998977	log10_strand_likelihood_position_model=0.981944	new_cov=0/2	polymorphism_quality=3.3	quality=3.3	quality_position_model=1.03027e-08	ref_cov=108/50	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=108/52
RA	351	.	NC_007779	2047441	1	.	A	bias_e_value=2616150	bias_p_value=0.563057	fisher_strand_p_value=0.241828	frequency=9.389877e-03	genotype_quality=1026.6	ks_quality_p_value=0.937178	log10_base_likelihood=-8.14522	log10_qual_likelihood_position_model=1.93871	log10_strand_likelihood_position_model=0.616493	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.69394e-07	ref_cov=103/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=105/108
RA	352	.	NC_007779	2076214	0	A	C	bias_e_value=8.1549e-05	bias_p_value=1.75513e-11	fisher_strand_p_value=6.02351e-13	frequency=9.851551e-02	genotype_quality=500.7	ks_quality_p_value=1	log10_base_likelihood=-10.0416	log10_qual_likelihood_position_model=20.3269	log10_strand_likelihood_position_model=12.2202	new_cov=0/26	polymorphism_quality=4.6	quality=4.6	quality_position_model=Inf	ref_cov=103/40	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/66
RA	353	.	NC_007779	2079936	0	G	T	bias_e_value=15496.2	bias_p_value=0.00333516	fisher_strand_p_value=0.000375246	frequency=3.626156e-02	genotype_quality=752.6	ks_quality_p_value=1	log10_base_likelihood=-5.6401	log10_qual_likelihood_position_model=15.4845	log10_strand_likelihood_position_model=3.60224	new_cov=0/12	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=107/101	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/113
RA	354	.	NC_007779	2098223	0	T	G	bias_e_value=2.12935e-07	bias_p_value=4.58287e-14	fisher_strand_p_value=1.2991e-15	frequency=9.123898e-02	genotype_quality=566.8	ks_quality_p_value=1	log10_base_likelihood=-9.4264	log10_qual_likelihood_position_model=25.7805	log10_strand_likelihood_position_model=14.8864	new_cov=34/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=49/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=84/114
RA	355	.	NC_007779	2107010	1	.	A	bias_e_value=154682	bias_p_value=0.0332912	fisher_strand_p_value=0.159403	frequency=2.192974e-02	genotype_quality=1063.7	ks_quality_p_value=0.0335114	log10_base_likelihood=-22.9919	log10_qual_likelihood_position_model=3.17486	log10_strand_likelihood_position_model=1.05554	new_cov=5/0	polymorphism_quality=17.7	quality=17.7	quality_position_model=6.3838e-21	ref_cov=136/87	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=141/87
RA	356	.	NC_007779	2107011	0	A	.	bias_e_value=4608670	bias_p_value=0.991894	fisher_strand_p_value=1	frequency=1.241589e-02	genotype_quality=977.5	ks_quality_p_value=0.875403	log10_base_likelihood=-7.09239	log10_qual_likelihood_position_model=3.98226	log10_strand_likelihood_position_model=0.364654	new_cov=2/1	polymorphism_quality=1.6	quality=1.6	quality_position_model=0.000163717	ref_cov=141/97	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=143/98
RA	357	.	NC_007779	2141731	0	A	C	bias_e_value=3799.27	bias_p_value=0.000817692	fisher_strand_p_value=7.82015e-05	frequency=4.450035e-02	genotype_quality=715.2	ks_quality_p_value=1	log10_base_likelihood=-9.55997	log10_qual_likelihood_position_model=17.9773	log10_strand_likelihood_position_model=4.40781	new_cov=0/14	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=109/95	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=109/110
RA	358	.	NC_007779	2156661	0	C	A	bias_e_value=51026.9	bias_p_value=0.0109822	fisher_strand_p_value=0.00145837	frequency=3.050995e-02	genotype_quality=837.6	ks_quality_p_value=1	log10_base_likelihood=-6.45974	log10_qual_likelihood_position_model=11.5573	log10_strand_likelihood_position_model=3.0389	new_cov=12/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=130/108	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=142/108
RA	359	.	NC_007779	2170094	0	C	A	frequency=1	genotype_quality=1036.9	new_cov=104/149	quality=1036.9	ref_cov=0/0	tot_cov=104/149
RA	360	.	NC_007779	2174678	0	C	G	bias_e_value=4.48494e-10	bias_p_value=9.65266e-17	fisher_strand_p_value=2.32581e-18	frequency=1.627045e-01	genotype_quality=520.4	ks_quality_p_value=0.997534	log10_base_likelihood=-48.2954	log10_qual_likelihood_position_model=23.8457	log10_strand_likelihood_position_model=17.6334	new_cov=0/27	polymorphism_quality=43.2	quality=43.2	quality_position_model=9.1668e-09	ref_cov=115/20	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/47
RA	361	.	NC_007779	2199432	0	G	C	bias_e_value=1.25038e-17	bias_p_value=2.69111e-24	fisher_strand_p_value=4.54643e-26	frequency=1.888142e-01	genotype_quality=514.8	ks_quality_p_value=0.99724	log10_base_likelihood=-74.3497	log10_qual_likelihood_position_model=28.3551	log10_strand_likelihood_position_model=25.3423	new_cov=0/32	polymorphism_quality=69.3	quality=69.3	quality_position_model=7.83222e-23	ref_cov=127/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=127/43
RA	362	.	NC_007779	2203514	0	A	G	bias_e_value=0.207125	bias_p_value=4.45781e-08	fisher_strand_p_value=2.1259e-09	frequency=7.266903e-02	genotype_quality=564.5	ks_quality_p_value=1	log10_base_likelihood=-6.09089	log10_qual_likelihood_position_model=24.5594	log10_strand_likelihood_position_model=8.67246	new_cov=19/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=50/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=69/111
RA	363	.	NC_007779	2203780	1	.	A	bias_e_value=1689600	bias_p_value=0.363641	fisher_strand_p_value=0.23266	frequency=9.389877e-03	genotype_quality=1044.8	ks_quality_p_value=0.494118	log10_base_likelihood=-8.21462	log10_qual_likelihood_position_model=2.32026	log10_strand_likelihood_position_model=0.633278	new_cov=0/2	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.71632e-07	ref_cov=110/101	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=110/103
RA	364	.	NC_007779	2211749	0	G	C	bias_e_value=0.0067758	bias_p_value=1.45831e-09	fisher_strand_p_value=5.941e-11	frequency=9.906816e-02	genotype_quality=466.1	ks_quality_p_value=1	log10_base_likelihood=-18.8724	log10_qual_likelihood_position_model=14.5772	log10_strand_likelihood_position_model=10.2261	new_cov=14/0	polymorphism_quality=13.6	quality=13.6	quality_position_model=Inf	ref_cov=16/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=30/101
RA	365	.	NC_007779	2212417	0	G	T	bias_e_value=2.29986	bias_p_value=4.94983e-07	fisher_strand_p_value=2.70712e-08	frequency=4.092598e-02	genotype_quality=671.4	ks_quality_p_value=0.991949	log10_base_likelihood=-15.0277	log10_qual_likelihood_position_model=8.756	log10_strand_likelihood_position_model=7.56749	new_cov=7/0	polymorphism_quality=9.7	quality=9.7	quality_position_model=Inf	ref_cov=10/153	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=17/153
RA	366	.	NC_007779	2213136	0	G	T	bias_e_value=7.45884e-11	bias_p_value=1.60532e-17	fisher_strand_p_value=4.12241e-19	frequency=2.167873e-01	genotype_quality=383.5	ks_quality_p_value=0.896394	log10_base_likelihood=-68.7285	log10_qual_likelihood_position_model=21.9555	log10_strand_likelihood_position_model=18.3848	new_cov=28/0	polymorphism_quality=63.7	quality=63.7	quality_position_model=1.23058e-30	ref_cov=12/88	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=40/88
RA	367	.	NC_007779	2213138	0	C	G	bias_e_value=0.0469358	bias_p_value=1.01017e-08	fisher_strand_p_value=4.48462e-10	frequency=1.063309e-01	genotype_quality=386.8	ks_quality_p_value=1	log10_base_likelihood=-11.9494	log10_qual_likelihood_position_model=13.337	log10_strand_likelihood_position_model=9.34827	new_cov=14/0	polymorphism_quality=6.6	quality=6.6	quality_position_model=Inf	ref_cov=17/88	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=31/88
RA	368	.	NC_007779	2222886	0	T	G	bias_e_value=2037.97	bias_p_value=0.000438618	fisher_strand_p_value=3.93639e-05	frequency=2.728367e-02	genotype_quality=578.2	ks_quality_p_value=1	log10_base_likelihood=-8.57125	log10_qual_likelihood_position_model=6.65715	log10_strand_likelihood_position_model=4.4049	new_cov=4/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=9/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=13/133
RA	369	.	NC_007779	2225700	0	T	G	bias_e_value=2.11169	bias_p_value=4.54485e-07	fisher_strand_p_value=2.45361e-08	frequency=3.766346e-02	genotype_quality=594.0	ks_quality_p_value=1	log10_base_likelihood=-10.1854	log10_qual_likelihood_position_model=9.79356	log10_strand_likelihood_position_model=7.61019	new_cov=7/0	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=9/144	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=16/144
RA	370	.	NC_007779	2226336	0	A	.	bias_e_value=426316	bias_p_value=0.0917533	fisher_strand_p_value=0.336944	frequency=1.738262e-02	genotype_quality=924.7	ks_quality_p_value=0.0544881	log10_base_likelihood=-11.4611	log10_qual_likelihood_position_model=2.85919	log10_strand_likelihood_position_model=0.676514	new_cov=1/3	polymorphism_quality=6.1	quality=6.1	quality_position_model=6.63773e-10	ref_cov=123/103	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=124/106
RA	371	.	NC_007779	2226744	0	T	G	bias_e_value=8.65278e-07	bias_p_value=1.86228e-13	fisher_strand_p_value=5.50429e-15	frequency=1.272206e-01	genotype_quality=650.0	ks_quality_p_value=1	log10_base_likelihood=-18.4276	log10_qual_likelihood_position_model=30.944	log10_strand_likelihood_position_model=14.2593	new_cov=36/0	polymorphism_quality=13.1	quality=13.1	quality_position_model=Inf	ref_cov=65/123	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=102/123
RA	372	.	NC_007779	2227297	1	.	C	bias_e_value=2017700	bias_p_value=0.434258	fisher_strand_p_value=0.191526	frequency=9.049416e-03	genotype_quality=1081.4	ks_quality_p_value=0.782329	log10_base_likelihood=-8.58848	log10_qual_likelihood_position_model=2.76254	log10_strand_likelihood_position_model=0.717772	new_cov=2/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=5.35768e-07	ref_cov=95/124	reject=POLYMORPHISM_STRAND	tot_cov=97/124
RA	373	.	NC_007779	2227306	0	A	C	bias_e_value=2264.22	bias_p_value=0.000487313	fisher_strand_p_value=4.41929e-05	frequency=2.820492e-02	genotype_quality=909.8	ks_quality_p_value=1	log10_base_likelihood=-5.75812	log10_qual_likelihood_position_model=15.0421	log10_strand_likelihood_position_model=4.35465	new_cov=12/0	polymorphism_quality=0.2	quality=0.2	quality_position_model=Inf	ref_cov=100/139	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/139
RA	374	.	NC_007779	2232610	0	T	G	bias_e_value=16715.8	bias_p_value=0.00359763	fisher_strand_p_value=0.000408705	frequency=3.416729e-02	genotype_quality=401.6	ks_quality_p_value=1	log10_base_likelihood=-6.83485	log10_qual_likelihood_position_model=6.45831	log10_strand_likelihood_position_model=3.38859	new_cov=6/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=31/92	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=37/92
RA	375	.	NC_007779	2245262	0	G	C	bias_e_value=2.53256	bias_p_value=5.45066e-07	fisher_strand_p_value=2.99186e-08	frequency=9.160376e-02	genotype_quality=484.2	ks_quality_p_value=0.993857	log10_base_likelihood=-17.3833	log10_qual_likelihood_position_model=11.4391	log10_strand_likelihood_position_model=7.52406	new_cov=0/14	polymorphism_quality=12.1	quality=12.1	quality_position_model=Inf	ref_cov=96/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/46
RA	376	.	NC_007779	2249963	0	T	G	bias_e_value=4.99605e-14	bias_p_value=1.07527e-20	fisher_strand_p_value=2.11213e-22	frequency=2.105565e-01	genotype_quality=485.8	ks_quality_p_value=1	log10_base_likelihood=-33.6953	log10_qual_likelihood_position_model=40.0671	log10_strand_likelihood_position_model=21.6753	new_cov=51/0	polymorphism_quality=28.5	quality=28.5	quality_position_model=Inf	ref_cov=39/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=91/104
RA	377	.	NC_007779	2264335	0	A	C	bias_e_value=1.93724e-07	bias_p_value=4.1694e-14	fisher_strand_p_value=1.17865e-15	frequency=1.215053e-01	genotype_quality=647.6	ks_quality_p_value=1	log10_base_likelihood=-17.6068	log10_qual_likelihood_position_model=33.2917	log10_strand_likelihood_position_model=14.9286	new_cov=0/41	polymorphism_quality=12.3	quality=12.3	quality_position_model=Inf	ref_cov=114/67	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/108
RA	378	.	NC_007779	2264339	0	A	C	bias_e_value=0.0114632	bias_p_value=2.46716e-09	fisher_strand_p_value=1.02806e-10	frequency=1.021881e-01	genotype_quality=708.9	ks_quality_p_value=1	log10_base_likelihood=-15.8584	log10_qual_likelihood_position_model=26.8331	log10_strand_likelihood_position_model=10.0949	new_cov=0/31	polymorphism_quality=10.5	quality=10.5	quality_position_model=Inf	ref_cov=111/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/115
RA	379	.	NC_007779	2268985	0	A	C	bias_e_value=15163	bias_p_value=0.00326344	fisher_strand_p_value=0.000396536	frequency=2.434826e-02	genotype_quality=476.0	ks_quality_p_value=0.923417	log10_base_likelihood=-6.842	log10_qual_likelihood_position_model=2.70275	log10_strand_likelihood_position_model=3.40172	new_cov=0/3	polymorphism_quality=1.3	quality=1.3	quality_position_model=0.0293445	ref_cov=113/7	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/10
RA	380	.	NC_007779	2278884	0	T	G	bias_e_value=2.00333e-05	bias_p_value=4.31163e-12	fisher_strand_p_value=1.40947e-13	frequency=6.949854e-02	genotype_quality=629.9	ks_quality_p_value=1	log10_base_likelihood=-6.23956	log10_qual_likelihood_position_model=33.1024	log10_strand_likelihood_position_model=12.8509	new_cov=30/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=56/119	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=86/119
RA	381	.	NC_007779	2287114	0	C	A	bias_e_value=0.000875987	bias_p_value=1.88533e-10	fisher_strand_p_value=7.54954e-12	frequency=9.894037e-02	genotype_quality=780.1	ks_quality_p_value=0.93617	log10_base_likelihood=-23.1247	log10_qual_likelihood_position_model=29.8773	log10_strand_likelihood_position_model=11.1221	new_cov=0/26	polymorphism_quality=17.9	quality=17.9	quality_position_model=Inf	ref_cov=141/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=141/97
RA	382	.	NC_007779	2306988	1	.	G	bias_e_value=1826690	bias_p_value=0.393146	fisher_strand_p_value=0.145915	frequency=9.708405e-03	genotype_quality=1017.4	ks_quality_p_value=0.883947	log10_base_likelihood=-8.20231	log10_qual_likelihood_position_model=1.10632	log10_strand_likelihood_position_model=0.835899	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=3.43384e-08	ref_cov=77/127	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=79/127
RA	383	.	NC_007779	2307309	0	T	C	bias_e_value=0.0268484	bias_p_value=5.77841e-09	fisher_strand_p_value=2.50046e-10	frequency=6.615973e-02	genotype_quality=565.3	ks_quality_p_value=1	log10_base_likelihood=-12.0492	log10_qual_likelihood_position_model=14.514	log10_strand_likelihood_position_model=9.60198	new_cov=0/12	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=134/19	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=135/31
RA	384	.	NC_007779	2316502	1	.	T	bias_e_value=3638200	bias_p_value=0.783027	fisher_strand_p_value=1	frequency=9.478569e-03	genotype_quality=1034.9	ks_quality_p_value=0.418478	log10_base_likelihood=-8.20936	log10_qual_likelihood_position_model=1.9109	log10_strand_likelihood_position_model=0.305107	new_cov=1/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=6.47742e-08	ref_cov=117/92	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=118/93
RA	385	.	NC_007779	2331120	0	T	G	bias_e_value=4.38604e-19	bias_p_value=9.43979e-26	fisher_strand_p_value=1.50407e-27	frequency=2.218103e-01	genotype_quality=456.5	ks_quality_p_value=1	log10_base_likelihood=-43.2061	log10_qual_likelihood_position_model=39.6297	log10_strand_likelihood_position_model=26.8227	new_cov=57/0	polymorphism_quality=38.1	quality=38.1	quality_position_model=Inf	ref_cov=30/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=87/109
RA	386	.	NC_007779	2332580	0	A	C	bias_e_value=5.43796e-12	bias_p_value=1.17038e-18	fisher_strand_p_value=2.53765e-20	frequency=1.084919e-01	genotype_quality=563.2	ks_quality_p_value=1	log10_base_likelihood=-9.60116	log10_qual_likelihood_position_model=29.1019	log10_strand_likelihood_position_model=19.5956	new_cov=0/40	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=119/38	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/78
RA	387	.	NC_007779	2337256	0	G	C	bias_e_value=2.94875	bias_p_value=6.3464e-07	fisher_strand_p_value=3.49546e-08	frequency=5.178261e-02	genotype_quality=610.4	ks_quality_p_value=0.999236	log10_base_likelihood=-8.72248	log10_qual_likelihood_position_model=11.8721	log10_strand_likelihood_position_model=7.4565	new_cov=9/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=18/131	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=27/131
RA	388	.	NC_007779	2337493	0	A	G	bias_e_value=2.36316	bias_p_value=5.08608e-07	fisher_strand_p_value=2.76355e-08	frequency=5.604362e-02	genotype_quality=651.7	ks_quality_p_value=1	log10_base_likelihood=-6.1757	log10_qual_likelihood_position_model=14.0314	log10_strand_likelihood_position_model=7.55853	new_cov=15/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=52/131	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=67/131
RA	389	.	NC_007779	2342393	0	A	C	bias_e_value=1.19571e-06	bias_p_value=2.57345e-13	fisher_strand_p_value=7.68196e-15	frequency=1.677799e-01	genotype_quality=484.5	ks_quality_p_value=1	log10_base_likelihood=-17.3824	log10_qual_likelihood_position_model=27.4691	log10_strand_likelihood_position_model=14.4156	new_cov=0/40	polymorphism_quality=12.1	quality=12.1	quality_position_model=Inf	ref_cov=92/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=92/92
RA	390	.	NC_007779	2347976	0	A	C	bias_e_value=5.87331e-10	bias_p_value=1.26407e-16	fisher_strand_p_value=3.0586e-18	frequency=1.024690e-01	genotype_quality=640.5	ks_quality_p_value=1	log10_base_likelihood=-16.1514	log10_qual_likelihood_position_model=26.084	log10_strand_likelihood_position_model=17.5145	new_cov=0/36	polymorphism_quality=10.8	quality=10.8	quality_position_model=Inf	ref_cov=133/47	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=133/83
RA	391	.	NC_007779	2353815	0	A	C	bias_e_value=0.00172288	bias_p_value=3.70804e-10	fisher_strand_p_value=1.42769e-11	frequency=4.512310e-02	genotype_quality=510.0	ks_quality_p_value=1	log10_base_likelihood=-7.30307	log10_qual_likelihood_position_model=14.4685	log10_strand_likelihood_position_model=10.8454	new_cov=0/11	polymorphism_quality=1.8	quality=1.8	quality_position_model=Inf	ref_cov=118/8	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/19
RA	392	.	NC_007779	2354291	0	A	C	bias_e_value=1.78911e-14	bias_p_value=3.85059e-21	fisher_strand_p_value=7.41118e-23	frequency=2.031722e-01	genotype_quality=559.7	ks_quality_p_value=1	log10_base_likelihood=-41.4822	log10_qual_likelihood_position_model=36.4532	log10_strand_likelihood_position_model=22.1301	new_cov=0/50	polymorphism_quality=36.4	quality=36.4	quality_position_model=Inf	ref_cov=123/46	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=123/96
RA	393	.	NC_007779	2374921	0	T	G	bias_e_value=6.08524e-05	bias_p_value=1.30969e-11	fisher_strand_p_value=4.44851e-13	frequency=8.700800e-02	genotype_quality=546.5	ks_quality_p_value=1	log10_base_likelihood=-10.7985	log10_qual_likelihood_position_model=23.079	log10_strand_likelihood_position_model=12.3518	new_cov=19/0	polymorphism_quality=5.4	quality=5.4	quality_position_model=Inf	ref_cov=24/116	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=43/116
RA	394	.	NC_007779	2385358	1	.	A	bias_e_value=3456300	bias_p_value=0.743877	fisher_strand_p_value=1	frequency=1.104927e-02	genotype_quality=881.0	ks_quality_p_value=0.376088	log10_base_likelihood=-8.29376	log10_qual_likelihood_position_model=1.62086	log10_strand_likelihood_position_model=0.298955	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=2.61964e-08	ref_cov=87/92	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=88/93
RA	395	.	NC_007779	2387486	1	.	A	bias_e_value=3948860	bias_p_value=0.849887	fisher_strand_p_value=0.508173	frequency=9.007454e-03	genotype_quality=1092.7	ks_quality_p_value=0.993388	log10_base_likelihood=-7.11318	log10_qual_likelihood_position_model=2.94256	log10_strand_likelihood_position_model=0.486571	new_cov=0/2	polymorphism_quality=1.6	quality=1.6	quality_position_model=1.65302e-05	ref_cov=95/125	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=95/127
RA	396	.	NC_007779	2406075	0	C	T	frequency=1	genotype_quality=878.5	new_cov=103/115	quality=878.5	ref_cov=0/0	tot_cov=103/115
RA	397	.	NC_007779	2409404	0	A	C	bias_e_value=1.55168e-10	bias_p_value=3.33958e-17	fisher_strand_p_value=7.84428e-19	frequency=1.774421e-01	genotype_quality=527.0	ks_quality_p_value=0.997219	log10_base_likelihood=-25.5555	log10_qual_likelihood_position_model=36.3834	log10_strand_likelihood_position_model=18.1054	new_cov=0/39	polymorphism_quality=20.3	quality=20.3	quality_position_model=Inf	ref_cov=110/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/78
RA	398	.	NC_007779	2409820	1	.	A	bias_e_value=4599480	bias_p_value=0.989917	fisher_strand_p_value=1	frequency=8.546829e-03	genotype_quality=1153.9	ks_quality_p_value=0.861393	log10_base_likelihood=-7.73627	log10_qual_likelihood_position_model=2.40212	log10_strand_likelihood_position_model=0.300314	new_cov=1/1	polymorphism_quality=2.2	quality=2.2	quality_position_model=6.40127e-07	ref_cov=122/110	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/111
RA	399	.	NC_007779	2410316	0	A	C	bias_e_value=5.63365e-05	bias_p_value=1.21249e-11	fisher_strand_p_value=4.10725e-13	frequency=1.094112e-01	genotype_quality=660.3	ks_quality_p_value=1	log10_base_likelihood=-22.6437	log10_qual_likelihood_position_model=28.2731	log10_strand_likelihood_position_model=12.4141	new_cov=0/38	polymorphism_quality=17.4	quality=17.4	quality_position_model=Inf	ref_cov=114/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/123
RA	400	.	NC_007779	2416102	0	G	A	frequency=1	genotype_quality=804.5	new_cov=95/105	quality=804.5	ref_cov=0/0	tot_cov=95/105
RA	401	.	NC_007779	2417605	0	C	A	bias_e_value=44.7984	bias_p_value=9.64168e-06	fisher_strand_p_value=9.9747e-07	frequency=7.013655e-02	genotype_quality=707.3	ks_quality_p_value=0.632779	log10_base_likelihood=-10.659	log10_qual_likelihood_position_model=25.4377	log10_strand_likelihood_position_model=6.09695	new_cov=22/0	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=103/102	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=126/102
RA	402	.	NC_007779	2419465	0	A	C	bias_e_value=11359.7	bias_p_value=0.00244487	fisher_strand_p_value=0.000264943	frequency=4.490852e-02	genotype_quality=505.9	ks_quality_p_value=0.999015	log10_base_likelihood=-6.08449	log10_qual_likelihood_position_model=10.9412	log10_strand_likelihood_position_model=3.57685	new_cov=0/11	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=79/65	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=79/76
RA	403	.	NC_007779	2420902	0	G	C	bias_e_value=17.4134	bias_p_value=3.74777e-06	fisher_strand_p_value=2.41831e-07	frequency=6.692743e-02	genotype_quality=569.1	ks_quality_p_value=0.95167	log10_base_likelihood=-10.2375	log10_qual_likelihood_position_model=15.4616	log10_strand_likelihood_position_model=6.61649	new_cov=13/0	polymorphism_quality=4.8	quality=4.8	quality_position_model=Inf	ref_cov=43/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=56/111
RA	404	.	NC_007779	2426889	0	A	C	bias_e_value=250.544	bias_p_value=5.3923e-05	fisher_strand_p_value=4.01857e-06	frequency=3.133297e-02	genotype_quality=560.0	ks_quality_p_value=0.999508	log10_base_likelihood=-8.70328	log10_qual_likelihood_position_model=7.31718	log10_strand_likelihood_position_model=5.39593	new_cov=0/5	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=131/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=131/15
RA	405	.	NC_007779	2446437	0	A	C	bias_e_value=0.000453151	bias_p_value=9.75287e-11	fisher_strand_p_value=3.56465e-12	frequency=9.899569e-02	genotype_quality=573.8	ks_quality_p_value=1	log10_base_likelihood=-11.7473	log10_qual_likelihood_position_model=23.5052	log10_strand_likelihood_position_model=11.448	new_cov=0/25	polymorphism_quality=6.3	quality=6.3	quality_position_model=Inf	ref_cov=113/48	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/73
RA	406	.	NC_007779	2446456	0	C	A	bias_e_value=26333.4	bias_p_value=0.00566758	fisher_strand_p_value=0.000708825	frequency=4.087543e-02	genotype_quality=599.1	ks_quality_p_value=0.964763	log10_base_likelihood=-7.88242	log10_qual_likelihood_position_model=11.9722	log10_strand_likelihood_position_model=3.14946	new_cov=0/8	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=101/64	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/72
RA	407	.	NC_007779	2458860	0	T	G	bias_e_value=373.094	bias_p_value=8.02987e-05	fisher_strand_p_value=6.17955e-06	frequency=3.747749e-02	genotype_quality=424.1	ks_quality_p_value=1	log10_base_likelihood=-9.51993	log10_qual_likelihood_position_model=5.80674	log10_strand_likelihood_position_model=5.20904	new_cov=5/0	polymorphism_quality=4.1	quality=4.1	quality_position_model=Inf	ref_cov=7/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=12/99
RA	408	.	NC_007779	2459733	1	.	T	bias_e_value=4611470	bias_p_value=0.992497	fisher_strand_p_value=1	frequency=9.614944e-03	genotype_quality=1012.6	ks_quality_p_value=0.880029	log10_base_likelihood=-8.10526	log10_qual_likelihood_position_model=2.14548	log10_strand_likelihood_position_model=0.299098	new_cov=1/1	polymorphism_quality=2.6	quality=2.6	quality_position_model=1.43115e-07	ref_cov=105/101	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=106/102
RA	409	.	NC_007779	2465370	0	C	A	bias_e_value=5.04093e-10	bias_p_value=1.08493e-16	fisher_strand_p_value=2.61522e-18	frequency=1.399512e-01	genotype_quality=446.5	ks_quality_p_value=1	log10_base_likelihood=-38.2645	log10_qual_likelihood_position_model=17.8112	log10_strand_likelihood_position_model=17.5825	new_cov=0/18	polymorphism_quality=33.1	quality=33.1	quality_position_model=0.000120278	ref_cov=104/4	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=104/22
RA	410	.	NC_007779	2468327	0	C	.	bias_e_value=1320080	bias_p_value=0.284112	fisher_strand_p_value=0.420125	frequency=3.296089e-02	genotype_quality=753.2	ks_quality_p_value=0.192359	log10_base_likelihood=-19.8425	log10_qual_likelihood_position_model=2.71794	log10_strand_likelihood_position_model=0.692544	new_cov=4/2	polymorphism_quality=14.6	quality=14.6	quality_position_model=1.45438e-18	ref_cov=81/95	reject=INDEL_HOMOPOLYMER	tot_cov=85/97
RA	411	.	NC_007779	2473141	0	T	G	bias_e_value=4.54452e-09	bias_p_value=9.78088e-16	fisher_strand_p_value=2.49319e-17	frequency=7.344437e-02	genotype_quality=608.1	ks_quality_p_value=1	log10_base_likelihood=-8.50957	log10_qual_likelihood_position_model=31.6076	log10_strand_likelihood_position_model=16.6032	new_cov=29/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=32/126	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=62/126
RA	412	.	NC_007779	2494629	0	A	.	bias_e_value=1123700	bias_p_value=0.241846	fisher_strand_p_value=0.120701	frequency=1.153088e-02	genotype_quality=1065.5	ks_quality_p_value=0.53603	log10_base_likelihood=-8.18125	log10_qual_likelihood_position_model=2.25708	log10_strand_likelihood_position_model=0.918289	new_cov=0/3	polymorphism_quality=2.7	quality=2.7	quality_position_model=6.84456e-07	ref_cov=131/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=131/129
RA	413	.	NC_007779	2517218	0	A	C	bias_e_value=1.51708e-05	bias_p_value=3.26512e-12	fisher_strand_p_value=1.05743e-13	frequency=9.951210e-02	genotype_quality=429.9	ks_quality_p_value=1	log10_base_likelihood=-8.49587	log10_qual_likelihood_position_model=23.1909	log10_strand_likelihood_position_model=12.9757	new_cov=0/21	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=92/19	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=92/40
RA	414	.	NC_007779	2519319	0	T	G	bias_e_value=2.51137	bias_p_value=5.40507e-07	fisher_strand_p_value=2.94717e-08	frequency=6.739807e-02	genotype_quality=729.8	ks_quality_p_value=1	log10_base_likelihood=-8.52519	log10_qual_likelihood_position_model=21.948	log10_strand_likelihood_position_model=7.53059	new_cov=21/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=82/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=103/119
RA	415	.	NC_007779	2522930	0	T	G	bias_e_value=7.71174	bias_p_value=1.65975e-06	fisher_strand_p_value=9.67732e-08	frequency=6.576252e-02	genotype_quality=739.6	ks_quality_p_value=1	log10_base_likelihood=-9.60592	log10_qual_likelihood_position_model=20.2672	log10_strand_likelihood_position_model=7.10687	new_cov=23/0	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=104/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=127/120
RA	416	.	NC_007779	2536601	0	T	G	bias_e_value=2.74219e-06	bias_p_value=5.90184e-13	fisher_strand_p_value=1.80794e-14	frequency=1.555939e-01	genotype_quality=527.0	ks_quality_p_value=1	log10_base_likelihood=-25.124	log10_qual_likelihood_position_model=27.0044	log10_strand_likelihood_position_model=13.7428	new_cov=33/0	polymorphism_quality=19.9	quality=19.9	quality_position_model=Inf	ref_cov=48/103	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/103
RA	417	.	NC_007779	2538628	0	C	T	frequency=1	genotype_quality=879.1	new_cov=111/108	quality=879.1	ref_cov=0/0	tot_cov=111/108
RA	418	.	NC_007779	2540926	0	A	C	bias_e_value=1018.74	bias_p_value=0.000219258	fisher_strand_p_value=1.8422e-05	frequency=7.112503e-02	genotype_quality=653.2	ks_quality_p_value=1	log10_base_likelihood=-7.21386	log10_qual_likelihood_position_model=22.1466	log10_strand_likelihood_position_model=4.8398	new_cov=1/21	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=93/93	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=94/114
RA	419	.	NC_007779	2553184	1	.	G	bias_e_value=3019950	bias_p_value=0.649964	fisher_strand_p_value=0.501675	frequency=1.020432e-02	genotype_quality=954.5	ks_quality_p_value=0.579645	log10_base_likelihood=-8.24575	log10_qual_likelihood_position_model=0.949833	log10_strand_likelihood_position_model=0.527601	new_cov=2/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.02703e-08	ref_cov=105/89	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=107/89
RA	420	.	NC_007779	2556426	0	G	T	bias_e_value=0.00216582	bias_p_value=4.66136e-10	fisher_strand_p_value=2.42156e-11	frequency=1.057582e-01	genotype_quality=709.4	ks_quality_p_value=0.748003	log10_base_likelihood=-22.9224	log10_qual_likelihood_position_model=26.7103	log10_strand_likelihood_position_model=10.6159	new_cov=0/29	polymorphism_quality=17.7	quality=17.7	quality_position_model=Inf	ref_cov=121/77	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/106
RA	421	.	NC_007779	2574745	1	.	A	bias_e_value=3211570	bias_p_value=0.691206	fisher_strand_p_value=0.508176	frequency=1.249981e-02	genotype_quality=772.3	ks_quality_p_value=0.641169	log10_base_likelihood=-8.5612	log10_qual_likelihood_position_model=1.63173	log10_strand_likelihood_position_model=0.482688	new_cov=2/0	polymorphism_quality=3.1	quality=3.1	quality_position_model=2.20336e-08	ref_cov=90/68	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=92/68
RA	422	.	NC_007779	2589737	0	A	.	bias_e_value=4133590	bias_p_value=0.889645	fisher_strand_p_value=0.56896	frequency=1.423931e-02	genotype_quality=859.0	ks_quality_p_value=0.999448	log10_base_likelihood=-6.76584	log10_qual_likelihood_position_model=4.78434	log10_strand_likelihood_position_model=0.525969	new_cov=2/1	polymorphism_quality=1.2	quality=1.2	quality_position_model=0.00420041	ref_cov=84/123	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=86/124
RA	423	.	NC_007779	2593271	0	A	C	bias_e_value=0.127436	bias_p_value=2.74272e-08	fisher_strand_p_value=1.27694e-09	frequency=7.015944e-02	genotype_quality=483.1	ks_quality_p_value=1	log10_base_likelihood=-7.62959	log10_qual_likelihood_position_model=27.0471	log10_strand_likelihood_position_model=8.89383	new_cov=0/25	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=83/53	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=83/78
RA	424	.	NC_007779	2593281	0	A	C	bias_e_value=7275.06	bias_p_value=0.00156576	fisher_strand_p_value=0.000160837	frequency=5.504990e-02	genotype_quality=527.6	ks_quality_p_value=1	log10_base_likelihood=-6.83932	log10_qual_likelihood_position_model=13.2858	log10_strand_likelihood_position_model=3.95215	new_cov=0/13	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=83/75	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=83/88
RA	425	.	NC_007779	2595934	0	T	G	bias_e_value=5436.34	bias_p_value=0.00117003	fisher_strand_p_value=0.000121857	frequency=3.329468e-02	genotype_quality=460.2	ks_quality_p_value=0.954515	log10_base_likelihood=-10.1267	log10_qual_likelihood_position_model=4.10301	log10_strand_likelihood_position_model=3.91415	new_cov=4/0	polymorphism_quality=4.7	quality=4.7	quality_position_model=0.000794578	ref_cov=10/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=14/106
RA	426	.	NC_007779	2600440	0	A	G	bias_e_value=0.00120717	bias_p_value=2.59811e-10	fisher_strand_p_value=9.8629e-12	frequency=1.342187e-01	genotype_quality=472.3	ks_quality_p_value=1	log10_base_likelihood=-16.9049	log10_qual_likelihood_position_model=20.6848	log10_strand_likelihood_position_model=11.006	new_cov=27/0	polymorphism_quality=11.6	quality=11.6	quality_position_model=Inf	ref_cov=49/97	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=76/97
RA	427	.	NC_007779	2604001	0	T	G	bias_e_value=0.00288682	bias_p_value=6.21312e-10	fisher_strand_p_value=2.44271e-11	frequency=8.112860e-02	genotype_quality=557.1	ks_quality_p_value=1	log10_base_likelihood=-11.8856	log10_qual_likelihood_position_model=19.7573	log10_strand_likelihood_position_model=10.6121	new_cov=21/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=39/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=60/109
RA	428	.	NC_007779	2616347	0	A	C	bias_e_value=5.59267e-07	bias_p_value=1.20367e-13	fisher_strand_p_value=3.51101e-15	frequency=7.428980e-02	genotype_quality=477.0	ks_quality_p_value=1	log10_base_likelihood=-11.3365	log10_qual_likelihood_position_model=20.4265	log10_strand_likelihood_position_model=14.4546	new_cov=0/17	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=111/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=111/27
RA	429	.	NC_007779	2623159	0	T	G	bias_e_value=1.70037e-18	bias_p_value=3.6596e-25	fisher_strand_p_value=5.96177e-27	frequency=2.635798e-01	genotype_quality=399.8	ks_quality_p_value=1	log10_base_likelihood=-46.9143	log10_qual_likelihood_position_model=39.5194	log10_strand_likelihood_position_model=26.2246	new_cov=57/0	polymorphism_quality=41.8	quality=41.8	quality_position_model=Inf	ref_cov=27/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=84/99
RA	430	.	NC_007779	2623170	0	A	T	bias_e_value=3.8773	bias_p_value=8.34485e-07	fisher_strand_p_value=4.66711e-08	frequency=9.758759e-02	genotype_quality=564.0	ks_quality_p_value=1	log10_base_likelihood=-13.1526	log10_qual_likelihood_position_model=13.7491	log10_strand_likelihood_position_model=7.33095	new_cov=20/0	polymorphism_quality=7.8	quality=7.8	quality_position_model=Inf	ref_cov=66/101	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=86/101
RA	431	.	NC_007779	2623173	0	G	T	bias_e_value=0.180261	bias_p_value=3.87964e-08	fisher_strand_p_value=1.8374e-09	frequency=1.301870e-01	genotype_quality=618.9	ks_quality_p_value=1	log10_base_likelihood=-21.5854	log10_qual_likelihood_position_model=18.795	log10_strand_likelihood_position_model=8.74504	new_cov=26/1	polymorphism_quality=16.3	quality=16.3	quality_position_model=Inf	ref_cov=61/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=87/105
RA	432	.	NC_007779	2640922	0	T	G	bias_e_value=1.71325e-05	bias_p_value=3.68732e-12	fisher_strand_p_value=1.19905e-13	frequency=1.205444e-01	genotype_quality=474.1	ks_quality_p_value=1	log10_base_likelihood=-13.5001	log10_qual_likelihood_position_model=31.5006	log10_strand_likelihood_position_model=12.9212	new_cov=34/0	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=50/93	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=84/93
RA	433	.	NC_007779	2646804	0	A	C	bias_e_value=1.4002e-06	bias_p_value=3.01355e-13	fisher_strand_p_value=9.03962e-15	frequency=1.387625e-01	genotype_quality=534.8	ks_quality_p_value=1	log10_base_likelihood=-17.7295	log10_qual_likelihood_position_model=36.2189	log10_strand_likelihood_position_model=14.0728	new_cov=0/41	polymorphism_quality=12.4	quality=12.4	quality_position_model=Inf	ref_cov=96/60	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/102
RA	434	.	NC_007779	2648595	0	A	C	bias_e_value=2.07644e-05	bias_p_value=4.46899e-12	fisher_strand_p_value=1.46268e-13	frequency=7.875776e-02	genotype_quality=462.4	ks_quality_p_value=1	log10_base_likelihood=-8.57401	log10_qual_likelihood_position_model=17.8626	log10_strand_likelihood_position_model=12.8348	new_cov=0/14	polymorphism_quality=3.1	quality=3.1	quality_position_model=Inf	ref_cov=108/8	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/22
RA	435	.	NC_007779	2672817	0	A	C	bias_e_value=1.11584e-07	bias_p_value=2.40156e-14	fisher_strand_p_value=6.68176e-16	frequency=2.019467e-01	genotype_quality=370.1	ks_quality_p_value=1	log10_base_likelihood=-33.9048	log10_qual_likelihood_position_model=27.7142	log10_strand_likelihood_position_model=15.1751	new_cov=0/36	polymorphism_quality=28.7	quality=28.7	quality_position_model=Inf	ref_cov=82/33	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=82/69
RA	436	.	NC_007779	2700681	0	T	G	bias_e_value=0.0881543	bias_p_value=1.89729e-08	fisher_strand_p_value=8.67723e-10	frequency=9.477806e-02	genotype_quality=613.5	ks_quality_p_value=1	log10_base_likelihood=-8.75697	log10_qual_likelihood_position_model=23.9457	log10_strand_likelihood_position_model=9.24358	new_cov=28/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=Inf	ref_cov=73/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/99
RA	437	.	NC_007779	2704581	0	G	C	bias_e_value=16609.8	bias_p_value=0.00357483	fisher_strand_p_value=0.000414874	frequency=3.771114e-02	genotype_quality=490.8	ks_quality_p_value=0.97809	log10_base_likelihood=-7.49579	log10_qual_likelihood_position_model=6.90043	log10_strand_likelihood_position_model=3.38208	new_cov=5/0	polymorphism_quality=2.0	quality=2.0	quality_position_model=Inf	ref_cov=24/101	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=29/101
RA	438	.	NC_007779	2708923	0	A	C	bias_e_value=3.4453	bias_p_value=7.41509e-07	fisher_strand_p_value=4.1183e-08	frequency=7.859182e-02	genotype_quality=603.2	ks_quality_p_value=1	log10_base_likelihood=-10.1393	log10_qual_likelihood_position_model=15.7767	log10_strand_likelihood_position_model=7.43489	new_cov=0/24	polymorphism_quality=4.7	quality=4.7	quality_position_model=Inf	ref_cov=99/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/108
RA	439	.	NC_007779	2708932	0	T	C	bias_e_value=187.292	bias_p_value=4.03096e-05	fisher_strand_p_value=2.93392e-06	frequency=6.053877e-02	genotype_quality=581.4	ks_quality_p_value=1	log10_base_likelihood=-5.70152	log10_qual_likelihood_position_model=16.2421	log10_strand_likelihood_position_model=5.56205	new_cov=0/19	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=96/90	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/109
RA	440	.	NC_007779	2708935	0	A	C	bias_e_value=1.86746e-10	bias_p_value=4.01922e-17	fisher_strand_p_value=9.45645e-19	frequency=2.200656e-01	genotype_quality=473.7	ks_quality_p_value=1	log10_base_likelihood=-36.6282	log10_qual_likelihood_position_model=34.0152	log10_strand_likelihood_position_model=18.1137	new_cov=0/52	polymorphism_quality=31.5	quality=31.5	quality_position_model=Inf	ref_cov=99/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/108
RA	441	.	NC_007779	2756638	1	.	T	bias_e_value=3256840	bias_p_value=0.700949	fisher_strand_p_value=1	frequency=9.216309e-03	genotype_quality=1073.3	ks_quality_p_value=0.33462	log10_base_likelihood=-8.46332	log10_qual_likelihood_position_model=1.18236	log10_strand_likelihood_position_model=0.299255	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=6.19196e-09	ref_cov=110/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=111/106
RA	442	.	NC_007779	2757984	0	A	.	bias_e_value=3406270	bias_p_value=0.733109	fisher_strand_p_value=1	frequency=1.275730e-02	genotype_quality=953.3	ks_quality_p_value=0.365239	log10_base_likelihood=-8.20174	log10_qual_likelihood_position_model=1.89095	log10_strand_likelihood_position_model=0.371011	new_cov=2/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=7.35863e-08	ref_cov=134/98	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=136/99
RA	443	.	NC_007779	2771144	0	G	T	bias_e_value=2.00765	bias_p_value=4.32094e-07	fisher_strand_p_value=2.50723e-08	frequency=7.443523e-02	genotype_quality=620.3	ks_quality_p_value=0.927726	log10_base_likelihood=-11.0466	log10_qual_likelihood_position_model=21.8428	log10_strand_likelihood_position_model=7.60081	new_cov=0/20	polymorphism_quality=5.6	quality=5.6	quality_position_model=Inf	ref_cov=108/67	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=108/87
RA	444	.	NC_007779	2791171	0	G	T	bias_e_value=6.1057	bias_p_value=1.31409e-06	fisher_strand_p_value=7.55278e-08	frequency=6.615734e-02	genotype_quality=731.0	ks_quality_p_value=1	log10_base_likelihood=-10.7274	log10_qual_likelihood_position_model=14.6328	log10_strand_likelihood_position_model=7.12189	new_cov=0/20	polymorphism_quality=5.3	quality=5.3	quality_position_model=Inf	ref_cov=121/85	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/106
RA	445	.	NC_007779	2791635	0	C	T	bias_e_value=0.00221992	bias_p_value=4.77779e-10	fisher_strand_p_value=1.85843e-11	frequency=9.640408e-02	genotype_quality=493.7	ks_quality_p_value=1	log10_base_likelihood=-10.8697	log10_qual_likelihood_position_model=16.9573	log10_strand_likelihood_position_model=10.7309	new_cov=0/17	polymorphism_quality=5.5	quality=5.5	quality_position_model=Inf	ref_cov=110/25	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/42
RA	446	.	NC_007779	2791639	0	C	G	bias_e_value=0.000489387	bias_p_value=1.05328e-10	fisher_strand_p_value=3.86097e-12	frequency=1.153474e-01	genotype_quality=538.2	ks_quality_p_value=1	log10_base_likelihood=-21.5336	log10_qual_likelihood_position_model=18.1362	log10_strand_likelihood_position_model=11.4133	new_cov=0/19	polymorphism_quality=16.3	quality=16.3	quality_position_model=Inf	ref_cov=109/27	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/46
RA	447	.	NC_007779	2797644	0	C	A	bias_e_value=90.0136	bias_p_value=1.9373e-05	fisher_strand_p_value=1.33445e-06	frequency=5.755663e-02	genotype_quality=681.4	ks_quality_p_value=0.999306	log10_base_likelihood=-11.5797	log10_qual_likelihood_position_model=12.4252	log10_strand_likelihood_position_model=5.8747	new_cov=0/12	polymorphism_quality=6.2	quality=6.2	quality_position_model=Inf	ref_cov=126/54	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=126/66
RA	448	.	NC_007779	2812467	0	C	G	bias_e_value=8.47882	bias_p_value=1.82484e-06	fisher_strand_p_value=1.07028e-07	frequency=5.657911e-02	genotype_quality=516.5	ks_quality_p_value=1	log10_base_likelihood=-7.8962	log10_qual_likelihood_position_model=11.511	log10_strand_likelihood_position_model=6.9705	new_cov=0/9	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=113/18	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/27
RA	449	.	NC_007779	2816613	1	.	C	bias_e_value=2299450	bias_p_value=0.494895	fisher_strand_p_value=0.18367	frequency=8.769989e-03	genotype_quality=898.3	ks_quality_p_value=0.999922	log10_base_likelihood=-6.4112	log10_qual_likelihood_position_model=4.1119	log10_strand_likelihood_position_model=0.735963	new_cov=2/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=0.00317877	ref_cov=96/130	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=98/130
RA	450	.	NC_007779	2816615	0	G	C	bias_e_value=7.13314e-14	bias_p_value=1.53522e-20	fisher_strand_p_value=3.03728e-22	frequency=1.883841e-01	genotype_quality=591.4	ks_quality_p_value=1	log10_base_likelihood=-57.0667	log10_qual_likelihood_position_model=33.2508	log10_strand_likelihood_position_model=21.5197	new_cov=38/1	polymorphism_quality=52.0	quality=52.0	quality_position_model=0.000498252	ref_cov=26/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=64/133
RA	451	.	NC_007779	2817030	0	G	C	bias_e_value=7.28982e-24	bias_p_value=1.56894e-30	fisher_strand_p_value=2.18042e-32	frequency=2.409573e-01	genotype_quality=594.5	ks_quality_p_value=0.973296	log10_base_likelihood=-80.7783	log10_qual_likelihood_position_model=46.0663	log10_strand_likelihood_position_model=31.6615	new_cov=56/0	polymorphism_quality=75.8	quality=75.8	quality_position_model=7.73823e-05	ref_cov=27/140	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=83/140
RA	452	.	NC_007779	2833875	0	A	C	bias_e_value=0.00256428	bias_p_value=5.51893e-10	fisher_strand_p_value=2.15932e-11	frequency=8.048010e-02	genotype_quality=582.0	ks_quality_p_value=1	log10_base_likelihood=-10.4584	log10_qual_likelihood_position_model=24.0862	log10_strand_likelihood_position_model=10.6657	new_cov=0/26	polymorphism_quality=5.0	quality=5.0	quality_position_model=Inf	ref_cov=102/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=102/78
RA	453	.	NC_007779	2833904	0	A	C	bias_e_value=3.44894e-07	bias_p_value=7.42292e-14	fisher_strand_p_value=2.13421e-15	frequency=9.602547e-02	genotype_quality=559.1	ks_quality_p_value=1	log10_base_likelihood=-11.1429	log10_qual_likelihood_position_model=24.4154	log10_strand_likelihood_position_model=14.6708	new_cov=0/36	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=108/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=108/88
RA	454	.	NC_007779	2833989	0	A	C	bias_e_value=1.08578e-08	bias_p_value=2.33685e-15	fisher_strand_p_value=6.09565e-17	frequency=7.968569e-02	genotype_quality=562.6	ks_quality_p_value=1	log10_base_likelihood=-13.1314	log10_qual_likelihood_position_model=22.5864	log10_strand_likelihood_position_model=16.215	new_cov=0/19	polymorphism_quality=7.8	quality=7.8	quality_position_model=Inf	ref_cov=130/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=130/31
RA	455	.	NC_007779	2839291	1	.	G	bias_e_value=2575770	bias_p_value=0.554367	fisher_strand_p_value=0.228537	frequency=9.216309e-03	genotype_quality=1061.7	ks_quality_p_value=0.966287	log10_base_likelihood=-7.80455	log10_qual_likelihood_position_model=2.24931	log10_strand_likelihood_position_model=0.641043	new_cov=2/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=8.52611e-07	ref_cov=102/113	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=104/113
RA	456	.	NC_007779	2839296	0	A	G	bias_e_value=0.00470187	bias_p_value=1.01195e-09	fisher_strand_p_value=4.05961e-11	frequency=8.144140e-02	genotype_quality=495.3	ks_quality_p_value=1	log10_base_likelihood=-13.9236	log10_qual_likelihood_position_model=15.4116	log10_strand_likelihood_position_model=10.3915	new_cov=13/0	polymorphism_quality=8.6	quality=8.6	quality_position_model=Inf	ref_cov=16/120	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=29/120
RA	457	.	NC_007779	2847445	0	G	T	bias_e_value=4.63101	bias_p_value=9.96702e-07	fisher_strand_p_value=5.63365e-08	frequency=6.975651e-02	genotype_quality=687.6	ks_quality_p_value=1	log10_base_likelihood=-11.2637	log10_qual_likelihood_position_model=16.168	log10_strand_likelihood_position_model=7.24921	new_cov=0/21	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=115/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/105
RA	458	.	NC_007779	2866111	0	A	G	frequency=1	genotype_quality=995.1	new_cov=108/123	quality=995.1	ref_cov=0/0	tot_cov=108/124
RA	459	.	NC_007779	2868094	0	C	A	bias_e_value=4005.49	bias_p_value=0.000862076	fisher_strand_p_value=8.29098e-05	frequency=3.764057e-02	genotype_quality=732.6	ks_quality_p_value=1	log10_base_likelihood=-6.38323	log10_qual_likelihood_position_model=11.718	log10_strand_likelihood_position_model=4.08139	new_cov=12/0	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=87/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/111
RA	460	.	NC_007779	2872916	0	T	G	bias_e_value=7.20878	bias_p_value=1.5515e-06	fisher_strand_p_value=9.00856e-08	frequency=4.590797e-02	genotype_quality=642.0	ks_quality_p_value=1	log10_base_likelihood=-6.38934	log10_qual_likelihood_position_model=27.079	log10_strand_likelihood_position_model=7.09873	new_cov=23/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=83/98	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/99
RA	461	.	NC_007779	2895131	0	A	C	bias_e_value=1.62358e-05	bias_p_value=3.49433e-12	fisher_strand_p_value=1.13424e-13	frequency=7.314539e-02	genotype_quality=669.2	ks_quality_p_value=1	log10_base_likelihood=-12.409	log10_qual_likelihood_position_model=24.7045	log10_strand_likelihood_position_model=12.9453	new_cov=0/20	polymorphism_quality=7.0	quality=7.0	quality_position_model=Inf	ref_cov=141/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=141/51
RA	462	.	NC_007779	2895144	0	G	C	bias_e_value=9.74527e-05	bias_p_value=2.09741e-11	fisher_strand_p_value=7.25296e-13	frequency=8.907032e-02	genotype_quality=631.8	ks_quality_p_value=0.998777	log10_base_likelihood=-16.4436	log10_qual_likelihood_position_model=19.6928	log10_strand_likelihood_position_model=12.1395	new_cov=0/19	polymorphism_quality=11.1	quality=11.1	quality_position_model=Inf	ref_cov=136/31	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=137/50
RA	463	.	NC_007779	2898954	0	A	.	bias_e_value=789869	bias_p_value=0.169998	fisher_strand_p_value=0.0570481	frequency=2.915764e-02	genotype_quality=954.5	ks_quality_p_value=0.707943	log10_base_likelihood=-21.5711	log10_qual_likelihood_position_model=2.80717	log10_strand_likelihood_position_model=1.37451	new_cov=1/6	polymorphism_quality=16.3	quality=16.3	quality_position_model=1.56055e-19	ref_cov=124/109	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=125/115
RA	464	.	NC_007779	2899215	1	.	T	bias_e_value=576227	bias_p_value=0.124018	fisher_strand_p_value=1	frequency=1.463413e-02	genotype_quality=976.5	ks_quality_p_value=0.0268605	log10_base_likelihood=-13.0579	log10_qual_likelihood_position_model=2.5422	log10_strand_likelihood_position_model=0.405843	new_cov=1/2	polymorphism_quality=7.7	quality=7.7	quality_position_model=3.86368e-12	ref_cov=97/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/107
RA	465	.	NC_007779	2915479	0	C	G	bias_e_value=21.1586	bias_p_value=4.55383e-06	fisher_strand_p_value=2.83253e-07	frequency=5.916262e-02	genotype_quality=607.0	ks_quality_p_value=1	log10_base_likelihood=-8.31822	log10_qual_likelihood_position_model=14.4177	log10_strand_likelihood_position_model=6.54783	new_cov=0/11	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=120/35	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=120/46
RA	466	.	NC_007779	2939008	0	A	C	bias_e_value=1.39545e-09	bias_p_value=3.00333e-16	fisher_strand_p_value=7.43936e-18	frequency=1.296749e-01	genotype_quality=673.1	ks_quality_p_value=0.998252	log10_base_likelihood=-18.0048	log10_qual_likelihood_position_model=30.8229	log10_strand_likelihood_position_model=17.1285	new_cov=0/37	polymorphism_quality=12.7	quality=12.7	quality_position_model=Inf	ref_cov=135/53	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=135/91
RA	467	.	NC_007779	2945992	0	A	.	bias_e_value=2235310	bias_p_value=0.481091	fisher_strand_p_value=0.255952	frequency=1.326466e-02	genotype_quality=891.4	ks_quality_p_value=0.686124	log10_base_likelihood=-8.10912	log10_qual_likelihood_position_model=2.1934	log10_strand_likelihood_position_model=0.770499	new_cov=3/0	polymorphism_quality=2.6	quality=2.6	quality_position_model=4.90312e-07	ref_cov=122/100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=126/100
RA	468	.	NC_007779	2966706	0	G	T	bias_e_value=2065.82	bias_p_value=0.000444613	fisher_strand_p_value=3.99553e-05	frequency=4.095078e-02	genotype_quality=810.2	ks_quality_p_value=1	log10_base_likelihood=-7.81672	log10_qual_likelihood_position_model=14.239	log10_strand_likelihood_position_model=4.57644	new_cov=0/15	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=115/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=115/120
RA	469	.	NC_007779	2977393	0	C	A	bias_e_value=116479	bias_p_value=0.0250691	fisher_strand_p_value=0.00381663	frequency=2.810669e-02	genotype_quality=804.3	ks_quality_p_value=1	log10_base_likelihood=-6.0825	log10_qual_likelihood_position_model=10.8672	log10_strand_likelihood_position_model=2.53469	new_cov=9/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=109/104	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=120/105
RA	470	.	NC_007779	2983097	0	A	C	bias_e_value=3.18655e-08	bias_p_value=6.85821e-15	fisher_strand_p_value=1.8421e-16	frequency=1.481657e-01	genotype_quality=402.0	ks_quality_p_value=1	log10_base_likelihood=-9.8963	log10_qual_likelihood_position_model=31.5543	log10_strand_likelihood_position_model=15.7347	new_cov=0/33	polymorphism_quality=4.5	quality=4.5	quality_position_model=Inf	ref_cov=83/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=83/59
RA	471	.	NC_007779	2987535	0	A	C	bias_e_value=1.11817e-21	bias_p_value=2.40657e-28	fisher_strand_p_value=3.49661e-30	frequency=2.596493e-01	genotype_quality=499.8	ks_quality_p_value=1	log10_base_likelihood=-65.7936	log10_qual_likelihood_position_model=47.5485	log10_strand_likelihood_position_model=29.4564	new_cov=0/66	polymorphism_quality=60.8	quality=60.8	quality_position_model=Inf	ref_cov=118/36	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=118/102
RA	472	.	NC_007779	2994664	0	T	.	bias_e_value=3208420	bias_p_value=0.690527	fisher_strand_p_value=0.637849	frequency=2.050400e-02	genotype_quality=793.6	ks_quality_p_value=0.509873	log10_base_likelihood=-11.7021	log10_qual_likelihood_position_model=2.71624	log10_strand_likelihood_position_model=0.489623	new_cov=3/1	polymorphism_quality=6.3	quality=6.3	quality_position_model=1.72496e-10	ref_cov=109/82	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=112/83
RA	473	.	NC_007779	2999826	0	A	C	bias_e_value=5.91847e-11	bias_p_value=1.27379e-17	fisher_strand_p_value=2.91628e-19	frequency=8.701754e-02	genotype_quality=499.3	ks_quality_p_value=1	log10_base_likelihood=-6.05478	log10_qual_likelihood_position_model=24.4826	log10_strand_likelihood_position_model=18.5352	new_cov=0/30	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=114/22	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/52
RA	474	.	NC_007779	3003330	0	G	A	frequency=1	genotype_quality=839.1	new_cov=107/97	quality=839.1	ref_cov=0/0	tot_cov=107/97
RA	475	.	NC_007779	3011661	0	A	C	bias_e_value=1813.69	bias_p_value=0.00039035	fisher_strand_p_value=3.46341e-05	frequency=4.464245e-02	genotype_quality=630.1	ks_quality_p_value=1	log10_base_likelihood=-6.71358	log10_qual_likelihood_position_model=14.4467	log10_strand_likelihood_position_model=4.76153	new_cov=0/15	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=100/85	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=100/100
RA	476	.	NC_007779	3018380	0	C	G	bias_e_value=3791.83	bias_p_value=0.000816092	fisher_strand_p_value=7.8853e-05	frequency=4.264259e-02	genotype_quality=644.7	ks_quality_p_value=0.989591	log10_base_likelihood=-5.83359	log10_qual_likelihood_position_model=13.1615	log10_strand_likelihood_position_model=4.10318	new_cov=0/11	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=106/72	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=107/83
RA	477	.	NC_007779	3029385	0	C	A	bias_e_value=4.40986e-09	bias_p_value=9.49105e-16	fisher_strand_p_value=2.41741e-17	frequency=1.297946e-01	genotype_quality=567.4	ks_quality_p_value=1	log10_base_likelihood=-45.1952	log10_qual_likelihood_position_model=19.9073	log10_strand_likelihood_position_model=16.6166	new_cov=0/21	polymorphism_quality=40.1	quality=40.1	quality_position_model=1.14172e-10	ref_cov=125/14	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=125/35
RA	478	.	NC_007779	3034413	0	A	C	bias_e_value=2.29486e-18	bias_p_value=4.93908e-25	fisher_strand_p_value=8.0863e-27	frequency=1.833482e-01	genotype_quality=476.5	ks_quality_p_value=1	log10_base_likelihood=-24.6197	log10_qual_likelihood_position_model=37.6593	log10_strand_likelihood_position_model=26.0923	new_cov=0/45	polymorphism_quality=19.4	quality=19.4	quality_position_model=Inf	ref_cov=113/20	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=113/66
RA	479	.	NC_007779	3035390	0	T	C	bias_e_value=0.000178746	bias_p_value=3.84703e-11	fisher_strand_p_value=1.4001e-12	frequency=1.556559e-01	genotype_quality=287.8	ks_quality_p_value=0.970063	log10_base_likelihood=-29.9428	log10_qual_likelihood_position_model=14.9184	log10_strand_likelihood_position_model=11.8538	new_cov=0/19	polymorphism_quality=24.7	quality=24.7	quality_position_model=5.76974e-05	ref_cov=81/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=83/35
RA	480	.	NC_007779	3048743	0	C	T	bias_e_value=4507800	bias_p_value=0.970186	fisher_strand_p_value=1	frequency=1.030116e-01	genotype_quality=649.4	ks_quality_p_value=0.765965	log10_base_likelihood=-51.119	log10_qual_likelihood_position_model=8.04805	log10_strand_likelihood_position_model=0.738592	new_cov=10/10	polymorphism_quality=46.0	quality=46.0	quality_position_model=1.14871e-44	ref_cov=83/91	tot_cov=93/101
RA	481	.	NC_007779	3049815	0	G	T	frequency=1	genotype_quality=880.1	new_cov=104/114	quality=880.1	ref_cov=0/0	tot_cov=104/114
RA	482	.	NC_007779	3059421	0	T	.	bias_e_value=1592320	bias_p_value=0.342706	fisher_strand_p_value=0.60647	frequency=1.179886e-02	genotype_quality=1015.2	ks_quality_p_value=0.173907	log10_base_likelihood=-7.83566	log10_qual_likelihood_position_model=2.80548	log10_strand_likelihood_position_model=0.446415	new_cov=1/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.88433e-06	ref_cov=132/119	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=133/121
RA	483	.	NC_007779	3084663	0	C	A	bias_e_value=1446.08	bias_p_value=0.00031123	fisher_strand_p_value=2.70189e-05	frequency=4.413509e-02	genotype_quality=727.6	ks_quality_p_value=1	log10_base_likelihood=-9.77632	log10_qual_likelihood_position_model=13.717	log10_strand_likelihood_position_model=4.56833	new_cov=13/0	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=83/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=96/112
RA	484	.	NC_007779	3091181	0	C	G	bias_e_value=101728	bias_p_value=0.0218942	fisher_strand_p_value=0.00355188	frequency=6.851387e-02	genotype_quality=330.6	ks_quality_p_value=0.916219	log10_base_likelihood=-5.619	log10_qual_likelihood_position_model=10.7877	log10_strand_likelihood_position_model=2.52378	new_cov=0/9	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=48/48	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=49/57
RA	485	.	NC_007779	3110532	0	C	A	bias_e_value=12.9632	bias_p_value=2.78998e-06	fisher_strand_p_value=1.70788e-07	frequency=5.698967e-02	genotype_quality=469.6	ks_quality_p_value=0.984161	log10_base_likelihood=-15.3099	log10_qual_likelihood_position_model=8.2819	log10_strand_likelihood_position_model=6.76754	new_cov=0/7	polymorphism_quality=10.0	quality=10.0	quality_position_model=0.138724	ref_cov=106/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/16
RA	486	.	NC_007779	3124070	0	G	.	bias_e_value=4549230	bias_p_value=0.979101	fisher_strand_p_value=1	frequency=2.149487e-02	genotype_quality=755.1	ks_quality_p_value=0.802648	log10_base_likelihood=-11.7801	log10_qual_likelihood_position_model=2.67453	log10_strand_likelihood_position_model=0.42625	new_cov=2/2	polymorphism_quality=6.4	quality=6.4	quality_position_model=1.12016e-10	ref_cov=84/98	tot_cov=86/100
RA	487	.	NC_007779	3124071	0	C	.	bias_e_value=4512210	bias_p_value=0.971134	fisher_strand_p_value=1	frequency=2.184868e-02	genotype_quality=741.0	ks_quality_p_value=0.769554	log10_base_likelihood=-11.9311	log10_qual_likelihood_position_model=2.73684	log10_strand_likelihood_position_model=0.427104	new_cov=2/2	polymorphism_quality=6.5	quality=6.5	quality_position_model=9.10656e-11	ref_cov=82/97	tot_cov=84/99
RA	488	.	NC_007779	3160153	0	G	C	bias_e_value=4.78963e-06	bias_p_value=1.03084e-12	fisher_strand_p_value=3.3141e-14	frequency=1.555405e-01	genotype_quality=339.2	ks_quality_p_value=0.969946	log10_base_likelihood=-41.7873	log10_qual_likelihood_position_model=14.3385	log10_strand_likelihood_position_model=13.4796	new_cov=17/0	polymorphism_quality=36.7	quality=36.7	quality_position_model=4.56929e-16	ref_cov=8/84	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=25/84
RA	489	.	NC_007779	3162929	0	G	C	bias_e_value=61.8844	bias_p_value=1.3319e-05	fisher_strand_p_value=9.64705e-07	frequency=7.749128e-02	genotype_quality=535.9	ks_quality_p_value=0.924754	log10_base_likelihood=-11.8883	log10_qual_likelihood_position_model=15.5702	log10_strand_likelihood_position_model=6.01561	new_cov=16/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=60/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=76/94
RA	490	.	NC_007779	3195467	0	A	C	bias_e_value=0.138213	bias_p_value=2.97467e-08	fisher_strand_p_value=1.39044e-09	frequency=8.777142e-02	genotype_quality=606.7	ks_quality_p_value=1	log10_base_likelihood=-8.64182	log10_qual_likelihood_position_model=22.7587	log10_strand_likelihood_position_model=8.85685	new_cov=0/23	polymorphism_quality=3.2	quality=3.2	quality_position_model=Inf	ref_cov=105/62	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=105/85
RA	491	.	NC_007779	3201985	0	A	C	bias_e_value=0.00365768	bias_p_value=7.87219e-10	fisher_strand_p_value=3.12526e-11	frequency=5.514860e-02	genotype_quality=595.3	ks_quality_p_value=1	log10_base_likelihood=-5.99849	log10_qual_likelihood_position_model=21.6128	log10_strand_likelihood_position_model=10.6295	new_cov=0/32	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=102/73	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=102/105
RA	492	.	NC_007779	3212355	0	G	C	bias_e_value=8.23351e-05	bias_p_value=1.77205e-11	fisher_strand_p_value=6.12328e-13	frequency=1.127729e-01	genotype_quality=586.4	ks_quality_p_value=0.993528	log10_base_likelihood=-22.0825	log10_qual_likelihood_position_model=20.5068	log10_strand_likelihood_position_model=12.213	new_cov=22/0	polymorphism_quality=16.8	quality=16.8	quality_position_model=Inf	ref_cov=35/119	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=57/119
RA	493	.	NC_007779	3231302	0	C	G	bias_e_value=0.00256558	bias_p_value=5.52173e-10	fisher_strand_p_value=2.1639e-11	frequency=9.937286e-02	genotype_quality=525.2	ks_quality_p_value=0.998412	log10_base_likelihood=-18.1127	log10_qual_likelihood_position_model=15.6783	log10_strand_likelihood_position_model=10.6648	new_cov=0/17	polymorphism_quality=12.8	quality=12.8	quality_position_model=Inf	ref_cov=112/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/43
RA	494	.	NC_007779	3231832	1	.	G	bias_e_value=1095000	bias_p_value=0.23567	fisher_strand_p_value=0.0664477	frequency=1.886749e-02	genotype_quality=772.0	ks_quality_p_value=0.939953	log10_base_likelihood=-13.3169	log10_qual_likelihood_position_model=1.82217	log10_strand_likelihood_position_model=1.17752	new_cov=3/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=2.37358e-12	ref_cov=62/94	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=65/94
RA	495	.	NC_007779	3238322	0	T	C	bias_e_value=246.626	bias_p_value=5.30798e-05	fisher_strand_p_value=3.94877e-06	frequency=9.939051e-02	genotype_quality=308.3	ks_quality_p_value=1	log10_base_likelihood=-11.4298	log10_qual_likelihood_position_model=13.4636	log10_strand_likelihood_position_model=5.40354	new_cov=13/0	polymorphism_quality=6.0	quality=6.0	quality_position_model=Inf	ref_cov=35/67	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=48/67
RA	496	.	NC_007779	3238324	0	A	C	bias_e_value=5245.95	bias_p_value=0.00112905	fisher_strand_p_value=0.000111801	frequency=8.385611e-02	genotype_quality=315.7	ks_quality_p_value=1	log10_base_likelihood=-9.24381	log10_qual_likelihood_position_model=13.9472	log10_strand_likelihood_position_model=3.96957	new_cov=12/1	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=38/68	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=50/70
RA	497	.	NC_007779	3238328	0	T	C	bias_e_value=7769.99	bias_p_value=0.00167228	fisher_strand_p_value=0.000173083	frequency=5.529022e-02	genotype_quality=369.8	ks_quality_p_value=1	log10_base_likelihood=-5.58648	log10_qual_likelihood_position_model=9.37435	log10_strand_likelihood_position_model=3.76175	new_cov=8/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=34/75	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=42/75
RA	498	.	NC_007779	3259711	0	A	C	bias_e_value=3.17518e-09	bias_p_value=6.83374e-16	fisher_strand_p_value=1.72577e-17	frequency=1.133680e-01	genotype_quality=529.8	ks_quality_p_value=1	log10_base_likelihood=-12.1909	log10_qual_likelihood_position_model=26.2566	log10_strand_likelihood_position_model=16.763	new_cov=0/31	polymorphism_quality=6.8	quality=6.8	quality_position_model=Inf	ref_cov=116/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/63
RA	499	.	NC_007779	3266843	0	C	G	bias_e_value=0.0013859	bias_p_value=2.98278e-10	fisher_strand_p_value=1.14255e-11	frequency=1.508527e-01	genotype_quality=353.0	ks_quality_p_value=0.996476	log10_base_likelihood=-21.8982	log10_qual_likelihood_position_model=16.0612	log10_strand_likelihood_position_model=10.9421	new_cov=0/17	polymorphism_quality=16.6	quality=16.6	quality_position_model=Inf	ref_cov=76/14	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=76/31
RA	500	.	NC_007779	3272305	0	C	A	bias_e_value=885.278	bias_p_value=0.000190533	fisher_strand_p_value=1.5805e-05	frequency=5.254650e-02	genotype_quality=746.7	ks_quality_p_value=1	log10_base_likelihood=-9.25052	log10_qual_likelihood_position_model=13.5791	log10_strand_likelihood_position_model=4.8012	new_cov=15/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=94/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/112
RA	501	.	NC_007779	3280326	0	A	C	bias_e_value=3.30824e-13	bias_p_value=7.12012e-20	fisher_strand_p_value=1.45367e-21	frequency=1.936707e-01	genotype_quality=438.4	ks_quality_p_value=1	log10_base_likelihood=-27.262	log10_qual_likelihood_position_model=31.5589	log10_strand_likelihood_position_model=20.8375	new_cov=0/47	polymorphism_quality=22.0	quality=22.0	quality_position_model=Inf	ref_cov=99/34	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/81
RA	502	.	NC_007779	3285688	1	.	G	bias_e_value=1653770	bias_p_value=0.355929	fisher_strand_p_value=0.133394	frequency=1.004982e-02	genotype_quality=978.3	ks_quality_p_value=0.835282	log10_base_likelihood=-8.42121	log10_qual_likelihood_position_model=1.4463	log10_strand_likelihood_position_model=0.874863	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=5.02468e-08	ref_cov=71/126	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=73/126
RA	503	.	NC_007779	3300073	0	T	G	bias_e_value=1.40368e-07	bias_p_value=3.02104e-14	fisher_strand_p_value=8.46091e-16	frequency=2.253036e-01	genotype_quality=338.2	ks_quality_p_value=1	log10_base_likelihood=-29.3173	log10_qual_likelihood_position_model=32.7366	log10_strand_likelihood_position_model=15.3504	new_cov=46/0	polymorphism_quality=24.1	quality=24.1	quality_position_model=Inf	ref_cov=40/71	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=87/71
RA	504	.	NC_007779	3310088	0	G	C	bias_e_value=0.00129635	bias_p_value=2.79005e-10	fisher_strand_p_value=1.06214e-11	frequency=7.926941e-02	genotype_quality=519.7	ks_quality_p_value=1	log10_base_likelihood=-11.323	log10_qual_likelihood_position_model=14.0151	log10_strand_likelihood_position_model=10.9738	new_cov=0/12	polymorphism_quality=5.9	quality=5.9	quality_position_model=Inf	ref_cov=116/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/22
RA	505	.	NC_007779	3333612	0	T	G	bias_e_value=2.46505	bias_p_value=5.30536e-07	fisher_strand_p_value=2.89315e-08	frequency=6.596279e-02	genotype_quality=449.7	ks_quality_p_value=0.99881	log10_base_likelihood=-14.3851	log10_qual_likelihood_position_model=10.9702	log10_strand_likelihood_position_model=7.53863	new_cov=8/0	polymorphism_quality=9.0	quality=9.0	quality_position_model=Inf	ref_cov=9/103	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=17/103
RA	506	.	NC_007779	3350708	0	A	C	bias_e_value=2.14671e-11	bias_p_value=4.62022e-18	fisher_strand_p_value=1.03323e-19	frequency=1.707768e-01	genotype_quality=556.5	ks_quality_p_value=1	log10_base_likelihood=-31.2795	log10_qual_likelihood_position_model=34.2236	log10_strand_likelihood_position_model=18.9858	new_cov=0/47	polymorphism_quality=26.1	quality=26.1	quality_position_model=Inf	ref_cov=114/52	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=114/99
RA	507	.	NC_007779	3362666	1	.	A	bias_e_value=1404280	bias_p_value=0.302235	fisher_strand_p_value=0.498171	frequency=8.620262e-03	genotype_quality=1127.2	ks_quality_p_value=0.176942	log10_base_likelihood=-8.35258	log10_qual_likelihood_position_model=1.23746	log10_strand_likelihood_position_model=0.581671	new_cov=2/0	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.79343e-08	ref_cov=117/113	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/113
RA	508	.	NC_007779	3387541	0	G	A	bias_e_value=1423.86	bias_p_value=0.000306448	fisher_strand_p_value=2.65838e-05	frequency=5.566692e-02	genotype_quality=627.3	ks_quality_p_value=0.999283	log10_base_likelihood=-8.07775	log10_qual_likelihood_position_model=11.2473	log10_strand_likelihood_position_model=4.57538	new_cov=0/13	polymorphism_quality=2.6	quality=2.6	quality_position_model=Inf	ref_cov=106/78	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=106/91
RA	509	.	NC_007779	3389914	0	A	C	bias_e_value=1.28997e-07	bias_p_value=2.77633e-14	fisher_strand_p_value=7.75666e-16	frequency=1.105022e-01	genotype_quality=615.1	ks_quality_p_value=1	log10_base_likelihood=-12.7759	log10_qual_likelihood_position_model=27.9953	log10_strand_likelihood_position_model=15.1103	new_cov=0/41	polymorphism_quality=7.4	quality=7.4	quality_position_model=Inf	ref_cov=112/64	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/105
RA	510	.	NC_007779	3397405	0	A	C	bias_e_value=1.42532e-06	bias_p_value=3.06763e-13	fisher_strand_p_value=9.20691e-15	frequency=9.591722e-02	genotype_quality=545.8	ks_quality_p_value=1	log10_base_likelihood=-13.422	log10_qual_likelihood_position_model=23.2907	log10_strand_likelihood_position_model=14.0359	new_cov=0/27	polymorphism_quality=8.0	quality=8.0	quality_position_model=Inf	ref_cov=116/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=116/64
RA	511	.	NC_007779	3397813	0	C	G	frequency=1	genotype_quality=892.9	new_cov=109/103	quality=892.9	ref_cov=0/0	tot_cov=109/103
RA	512	.	NC_007779	3404070	0	T	G	bias_e_value=5.18784e-07	bias_p_value=1.11655e-13	fisher_strand_p_value=3.24953e-15	frequency=1.746287e-01	genotype_quality=475.5	ks_quality_p_value=1	log10_base_likelihood=-28.885	log10_qual_likelihood_position_model=28.8109	log10_strand_likelihood_position_model=14.6054	new_cov=41/0	polymorphism_quality=23.7	quality=23.7	quality_position_model=Inf	ref_cov=52/91	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=93/91
RA	513	.	NC_007779	3404073	0	T	G	bias_e_value=0.436523	bias_p_value=9.39501e-08	fisher_strand_p_value=4.65434e-09	frequency=7.984972e-02	genotype_quality=524.8	ks_quality_p_value=1	log10_base_likelihood=-9.64188	log10_qual_likelihood_position_model=19.8696	log10_strand_likelihood_position_model=8.40162	new_cov=26/0	polymorphism_quality=4.2	quality=4.2	quality_position_model=Inf	ref_cov=64/85	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=90/85
RA	514	.	NC_007779	3438457	1	.	T	bias_e_value=4144520	bias_p_value=0.891999	fisher_strand_p_value=1	frequency=9.519577e-03	genotype_quality=1029.0	ks_quality_p_value=0.572843	log10_base_likelihood=-6.7647	log10_qual_likelihood_position_model=2.90997	log10_strand_likelihood_position_model=0.306747	new_cov=1/1	polymorphism_quality=1.2	quality=1.2	quality_position_model=2.30013e-05	ref_cov=118/90	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=119/91
RA	515	.	NC_007779	3475527	0	T	G	bias_e_value=3.28625e-12	bias_p_value=7.07279e-19	fisher_strand_p_value=1.51662e-20	frequency=1.987367e-01	genotype_quality=505.0	ks_quality_p_value=1	log10_base_likelihood=-38.3588	log10_qual_likelihood_position_model=34.2852	log10_strand_likelihood_position_model=19.8191	new_cov=51/0	polymorphism_quality=33.2	quality=33.2	quality_position_model=Inf	ref_cov=48/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/104
RA	516	.	NC_007779	3475533	0	C	T	bias_e_value=6.83617e-13	bias_p_value=1.4713e-19	fisher_strand_p_value=3.05002e-21	frequency=2.302122e-01	genotype_quality=504.6	ks_quality_p_value=1	log10_base_likelihood=-69.4839	log10_qual_likelihood_position_model=46.1481	log10_strand_likelihood_position_model=20.5157	new_cov=50/0	polymorphism_quality=64.5	quality=64.5	quality_position_model=0.000136243	ref_cov=49/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=101/114
RA	517	.	NC_007779	3475539	0	G	T	bias_e_value=38459.3	bias_p_value=0.00827735	fisher_strand_p_value=0.00105371	frequency=3.493214e-02	genotype_quality=616.8	ks_quality_p_value=1	log10_base_likelihood=-7.3996	log10_qual_likelihood_position_model=6.65791	log10_strand_likelihood_position_model=2.97728	new_cov=6/0	polymorphism_quality=1.9	quality=1.9	quality_position_model=Inf	ref_cov=49/112	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=55/112
RA	518	.	NC_007779	3478395	1	.	T	bias_e_value=3687940	bias_p_value=0.793732	fisher_strand_p_value=1	frequency=9.132385e-03	genotype_quality=1050.3	ks_quality_p_value=0.430978	log10_base_likelihood=-8.2733	log10_qual_likelihood_position_model=1.91848	log10_strand_likelihood_position_model=0.299124	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=5.584e-08	ref_cov=110/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=111/108
RA	519	.	NC_007779	3481746	0	T	G	bias_e_value=0.000177497	bias_p_value=3.82015e-11	fisher_strand_p_value=1.34834e-12	frequency=1.312613e-01	genotype_quality=618.7	ks_quality_p_value=1	log10_base_likelihood=-19.5405	log10_qual_likelihood_position_model=29.4767	log10_strand_likelihood_position_model=11.9251	new_cov=36/0	polymorphism_quality=14.2	quality=14.2	quality_position_model=Inf	ref_cov=75/106	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/106
RA	520	.	NC_007779	3484372	0	A	C	bias_e_value=0.00108022	bias_p_value=2.32489e-10	fisher_strand_p_value=8.78719e-12	frequency=7.271051e-02	genotype_quality=608.5	ks_quality_p_value=1	log10_base_likelihood=-9.09271	log10_qual_likelihood_position_model=23.5032	log10_strand_likelihood_position_model=11.0561	new_cov=0/28	polymorphism_quality=3.6	quality=3.6	quality_position_model=Inf	ref_cov=114/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=114/91
RA	521	.	NC_007779	3499066	0	A	C	bias_e_value=0.199531	bias_p_value=4.29438e-08	fisher_strand_p_value=2.04414e-09	frequency=8.351612e-02	genotype_quality=545.2	ks_quality_p_value=1	log10_base_likelihood=-13.4914	log10_qual_likelihood_position_model=17.0549	log10_strand_likelihood_position_model=8.68949	new_cov=0/15	polymorphism_quality=8.1	quality=8.1	quality_position_model=Inf	ref_cov=111/32	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/47
RA	522	.	NC_007779	3520391	0	C	G	bias_e_value=6.83143e-09	bias_p_value=1.47029e-15	fisher_strand_p_value=3.78822e-17	frequency=1.104779e-01	genotype_quality=483.3	ks_quality_p_value=1	log10_base_likelihood=-27.4686	log10_qual_likelihood_position_model=17.1749	log10_strand_likelihood_position_model=16.4216	new_cov=15/0	polymorphism_quality=22.3	quality=22.3	quality_position_model=Inf	ref_cov=3/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=18/114
RA	523	.	NC_007779	3543547	0	A	C	bias_e_value=2.78069e-21	bias_p_value=5.98469e-28	fisher_strand_p_value=8.81382e-30	frequency=2.747478e-01	genotype_quality=488.5	ks_quality_p_value=1	log10_base_likelihood=-56.6095	log10_qual_likelihood_position_model=48.4483	log10_strand_likelihood_position_model=29.0548	new_cov=0/71	polymorphism_quality=51.5	quality=51.5	quality_position_model=Inf	ref_cov=111/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/110
RA	524	.	NC_007779	3576401	0	A	.	bias_e_value=4510380	bias_p_value=0.970741	fisher_strand_p_value=1	frequency=1.776505e-02	genotype_quality=901.9	ks_quality_p_value=0.768057	log10_base_likelihood=-10.9544	log10_qual_likelihood_position_model=3.82655	log10_strand_likelihood_position_model=0.423486	new_cov=2/2	polymorphism_quality=5.5	quality=5.5	quality_position_model=1.1953e-08	ref_cov=106/115	reject=INDEL_HOMOPOLYMER	tot_cov=108/117
RA	525	.	NC_007779	3603950	0	A	C	bias_e_value=2.54105e-14	bias_p_value=5.46894e-21	fisher_strand_p_value=1.0599e-22	frequency=1.339207e-01	genotype_quality=590.9	ks_quality_p_value=1	log10_base_likelihood=-14.6398	log10_qual_likelihood_position_model=44.5514	log10_strand_likelihood_position_model=21.9747	new_cov=0/45	polymorphism_quality=9.3	quality=9.3	quality_position_model=Inf	ref_cov=125/39	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=125/84
RA	526	.	NC_007779	3609441	0	T	G	bias_e_value=1.02439e-11	bias_p_value=2.20473e-18	fisher_strand_p_value=4.84842e-20	frequency=1.375222e-01	genotype_quality=567.3	ks_quality_p_value=1	log10_base_likelihood=-16.1421	log10_qual_likelihood_position_model=31.4486	log10_strand_likelihood_position_model=19.3144	new_cov=46/0	polymorphism_quality=10.8	quality=10.8	quality_position_model=Inf	ref_cov=47/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=93/112
RA	527	.	NC_007779	3662279	0	A	C	bias_e_value=0.000155357	bias_p_value=3.34364e-11	fisher_strand_p_value=1.17443e-12	frequency=7.257557e-02	genotype_quality=579.6	ks_quality_p_value=1	log10_base_likelihood=-8.93882	log10_qual_likelihood_position_model=33.9595	log10_strand_likelihood_position_model=11.9302	new_cov=0/34	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=99/63	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/98
RA	528	.	NC_007779	3676780	0	A	C	bias_e_value=0.000157779	bias_p_value=3.39579e-11	fisher_strand_p_value=1.19342e-12	frequency=1.386847e-01	genotype_quality=600.0	ks_quality_p_value=1	log10_base_likelihood=-22.5689	log10_qual_likelihood_position_model=27.2002	log10_strand_likelihood_position_model=12.0035	new_cov=0/36	polymorphism_quality=17.3	quality=17.3	quality_position_model=Inf	ref_cov=107/75	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/111
RA	529	.	NC_007779	3677212	0	C	G	bias_e_value=7.65882	bias_p_value=1.64836e-06	fisher_strand_p_value=9.60682e-08	frequency=4.809380e-02	genotype_quality=464.9	ks_quality_p_value=1	log10_base_likelihood=-6.4755	log10_qual_likelihood_position_model=9.3946	log10_strand_likelihood_position_model=7.01742	new_cov=0/7	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=107/8	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=107/15
RA	530	.	NC_007779	3677217	0	T	G	bias_e_value=1890.72	bias_p_value=0.000406928	fisher_strand_p_value=3.62519e-05	frequency=5.917072e-02	genotype_quality=343.9	ks_quality_p_value=1	log10_base_likelihood=-7.93606	log10_qual_likelihood_position_model=9.13515	log10_strand_likelihood_position_model=4.46119	new_cov=3/8	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=98/14	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=102/22
RA	531	.	NC_007779	3677219	0	A	G	bias_e_value=0.0225368	bias_p_value=4.85046e-09	fisher_strand_p_value=2.0857e-10	frequency=6.774473e-02	genotype_quality=389.9	ks_quality_p_value=0.998431	log10_base_likelihood=-6.33058	log10_qual_likelihood_position_model=11.6507	log10_strand_likelihood_position_model=9.68075	new_cov=0/11	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=103/10	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=103/21
RA	532	.	NC_007779	3688858	0	A	C	bias_e_value=3.30322e-14	bias_p_value=7.10931e-21	fisher_strand_p_value=1.38499e-22	frequency=2.141767e-01	genotype_quality=396.8	ks_quality_p_value=1	log10_base_likelihood=-37.4412	log10_qual_likelihood_position_model=30.3307	log10_strand_likelihood_position_model=21.8586	new_cov=0/45	polymorphism_quality=32.3	quality=32.3	quality_position_model=Inf	ref_cov=96/26	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/71
RA	533	.	NC_007779	3701118	0	G	T	bias_e_value=2.5798	bias_p_value=5.55234e-07	fisher_strand_p_value=3.03217e-08	frequency=6.448364e-02	genotype_quality=828.3	ks_quality_p_value=1	log10_base_likelihood=-14.5281	log10_qual_likelihood_position_model=17.3638	log10_strand_likelihood_position_model=7.51825	new_cov=0/20	polymorphism_quality=9.2	quality=9.2	quality_position_model=Inf	ref_cov=138/90	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=138/111
RA	534	.	NC_007779	3721173	0	T	.	bias_e_value=2823960	bias_p_value=0.607782	fisher_strand_p_value=0.66928	frequency=1.975155e-02	genotype_quality=944.7	ks_quality_p_value=0.385759	log10_base_likelihood=-13.9282	log10_qual_likelihood_position_model=4.7029	log10_strand_likelihood_position_model=0.529625	new_cov=2/3	polymorphism_quality=8.6	quality=8.6	quality_position_model=1.0778e-10	ref_cov=131/116	reject=INDEL_HOMOPOLYMER	tot_cov=134/119
RA	535	.	NC_007779	3727557	0	A	G	bias_e_value=1.60264e-11	bias_p_value=3.44925e-18	fisher_strand_p_value=7.66238e-20	frequency=1.156912e-01	genotype_quality=547.2	ks_quality_p_value=1	log10_base_likelihood=-19.2513	log10_qual_likelihood_position_model=26.2263	log10_strand_likelihood_position_model=19.1156	new_cov=22/0	polymorphism_quality=14.0	quality=14.0	quality_position_model=Inf	ref_cov=11/137	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=33/137
RA	536	.	NC_007779	3728155	0	T	C	bias_e_value=0.421591	bias_p_value=9.07364e-08	fisher_strand_p_value=4.50791e-09	frequency=6.652546e-02	genotype_quality=418.5	ks_quality_p_value=0.99536	log10_base_likelihood=-13.2403	log10_qual_likelihood_position_model=10.2734	log10_strand_likelihood_position_model=8.34602	new_cov=9/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=10/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=19/110
RA	537	.	NC_007779	3728157	0	A	C	bias_e_value=2353.2	bias_p_value=0.000506464	fisher_strand_p_value=4.61069e-05	frequency=5.261326e-02	genotype_quality=380.0	ks_quality_p_value=1	log10_base_likelihood=-7.9759	log10_qual_likelihood_position_model=8.40504	log10_strand_likelihood_position_model=4.35436	new_cov=7/3	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=12/107	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=19/111
RA	538	.	NC_007779	3731041	1	.	T	bias_e_value=1750920	bias_p_value=0.37684	fisher_strand_p_value=0.219517	frequency=9.302139e-03	genotype_quality=1044.1	ks_quality_p_value=0.55184	log10_base_likelihood=-7.75395	log10_qual_likelihood_position_model=3.28264	log10_strand_likelihood_position_model=0.658531	new_cov=0/2	polymorphism_quality=2.3	quality=2.3	quality_position_model=1.20998e-05	ref_cov=114/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/101
RA	539	.	NC_007779	3732310	0	G	T	bias_e_value=0.782719	bias_p_value=1.6846e-07	fisher_strand_p_value=8.60779e-09	frequency=7.117462e-02	genotype_quality=774.2	ks_quality_p_value=1	log10_base_likelihood=-10.6674	log10_qual_likelihood_position_model=18.1972	log10_strand_likelihood_position_model=8.06511	new_cov=0/24	polymorphism_quality=5.2	quality=5.2	quality_position_model=Inf	ref_cov=124/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/119
RA	540	.	NC_007779	3739544	0	G	T	bias_e_value=156.517	bias_p_value=3.36861e-05	fisher_strand_p_value=2.41778e-06	frequency=5.192709e-02	genotype_quality=800.8	ks_quality_p_value=1	log10_base_likelihood=-6.88176	log10_qual_likelihood_position_model=17.3369	log10_strand_likelihood_position_model=5.69138	new_cov=0/19	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=118/109	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/128
RA	541	.	NC_007779	3748029	0	A	C	frequency=1	genotype_quality=-0.2	new_cov=1/0	quality=-0.2	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	542	.	NC_007779	3750122	0	C	.	bias_e_value=348123	bias_p_value=0.0749243	fisher_strand_p_value=0.171797	frequency=9.642859e-01	genotype_quality=1170.4	ks_quality_p_value=0.0830803	log10_base_likelihood=-43.8452	log10_qual_likelihood_position_model=6.01588	log10_strand_likelihood_position_model=1.16734	new_cov=124/119	polymorphism_quality=38.7	quality=38.7	quality_position_model=5.77403e-39	ref_cov=2/7	tot_cov=126/126
RA	543	.	NC_007779	3750123	0	C	T	bias_e_value=1831810	bias_p_value=0.394248	fisher_strand_p_value=0.171797	frequency=3.556919e-02	genotype_quality=981.5	ks_quality_p_value=0.753911	log10_base_likelihood=-18.2371	log10_qual_likelihood_position_model=8.6628	log10_strand_likelihood_position_model=1.16734	new_cov=2/7	polymorphism_quality=12.9	quality=12.9	quality_position_model=2.12934e-10	ref_cov=124/119	tot_cov=126/126
RA	544	.	NC_007779	3761469	0	A	C	bias_e_value=8.60897e-09	bias_p_value=1.85285e-15	fisher_strand_p_value=4.80329e-17	frequency=9.028196e-02	genotype_quality=548.6	ks_quality_p_value=1	log10_base_likelihood=-18.4861	log10_qual_likelihood_position_model=20.3081	log10_strand_likelihood_position_model=16.3185	new_cov=0/18	polymorphism_quality=13.2	quality=13.2	quality_position_model=Inf	ref_cov=132/10	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=132/28
RA	545	.	NC_007779	3762475	0	T	G	bias_e_value=4.13637e-05	bias_p_value=8.90245e-12	fisher_strand_p_value=2.98334e-13	frequency=1.255836e-01	genotype_quality=600.3	ks_quality_p_value=1	log10_base_likelihood=-22.1124	log10_qual_likelihood_position_model=23.6862	log10_strand_likelihood_position_model=12.5253	new_cov=31/0	polymorphism_quality=16.8	quality=16.8	quality_position_model=Inf	ref_cov=59/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=90/114
RA	546	.	NC_007779	3788380	0	G	T	bias_e_value=1.75314	bias_p_value=3.77317e-07	fisher_strand_p_value=2.01561e-08	frequency=9.803772e-02	genotype_quality=698.0	ks_quality_p_value=1	log10_base_likelihood=-17.0435	log10_qual_likelihood_position_model=18.1507	log10_strand_likelihood_position_model=7.76399	new_cov=0/27	polymorphism_quality=11.7	quality=11.7	quality_position_model=Inf	ref_cov=101/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=101/121
RA	547	.	NC_007779	3789662	1	.	T	bias_e_value=2476210	bias_p_value=0.532939	fisher_strand_p_value=1	frequency=1.015186e-02	genotype_quality=924.2	ks_quality_p_value=0.206941	log10_base_likelihood=-8.58538	log10_qual_likelihood_position_model=1.84478	log10_strand_likelihood_position_model=0.298831	new_cov=1/1	polymorphism_quality=3.1	quality=3.1	quality_position_model=2.22977e-08	ref_cov=98/97	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=99/98
RA	548	.	NC_007779	3789663	0	T	.	bias_e_value=4093170	bias_p_value=0.880947	fisher_strand_p_value=1	frequency=1.506710e-02	genotype_quality=783.8	ks_quality_p_value=0.553594	log10_base_likelihood=-8.4588	log10_qual_likelihood_position_model=3.1162	log10_strand_likelihood_position_model=0.421593	new_cov=2/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=8.38804e-07	ref_cov=98/98	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=100/99
RA	549	.	NC_007779	3813810	0	T	G	bias_e_value=2.94189e-05	bias_p_value=6.33163e-12	fisher_strand_p_value=2.09705e-13	frequency=8.647346e-02	genotype_quality=515.4	ks_quality_p_value=1	log10_base_likelihood=-7.86183	log10_qual_likelihood_position_model=20.7732	log10_strand_likelihood_position_model=12.6784	new_cov=24/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=32/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=56/105
RA	550	.	NC_007779	3820146	0	T	G	bias_e_value=0.358471	bias_p_value=7.71514e-08	fisher_strand_p_value=3.78329e-09	frequency=7.989216e-02	genotype_quality=566.6	ks_quality_p_value=1	log10_base_likelihood=-9.12175	log10_qual_likelihood_position_model=19.3559	log10_strand_likelihood_position_model=8.42213	new_cov=20/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=54/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=75/105
RA	551	.	NC_007779	3826293	0	G	T	bias_e_value=5846.35	bias_p_value=0.00125827	fisher_strand_p_value=0.000126319	frequency=2.727509e-02	genotype_quality=851.0	ks_quality_p_value=0.998262	log10_base_likelihood=-6.34583	log10_qual_likelihood_position_model=12.3502	log10_strand_likelihood_position_model=3.89853	new_cov=0/12	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=124/105	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=124/119
RA	552	.	NC_007779	3828029	0	G	T	bias_e_value=1.19177e-08	bias_p_value=2.56496e-15	fisher_strand_p_value=6.83411e-17	frequency=1.818256e-01	genotype_quality=672.4	ks_quality_p_value=0.981459	log10_base_likelihood=-57.805	log10_qual_likelihood_position_model=38.0625	log10_strand_likelihood_position_model=16.1653	new_cov=43/0	polymorphism_quality=52.7	quality=52.7	quality_position_model=2.14278e-05	ref_cov=65/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=108/118
RA	553	.	NC_007779	3841755	1	.	A	bias_e_value=4638530	bias_p_value=0.998321	fisher_strand_p_value=1	frequency=1.098919e-02	genotype_quality=891.7	ks_quality_p_value=0.942616	log10_base_likelihood=-8.3011	log10_qual_likelihood_position_model=1.51775	log10_strand_likelihood_position_model=0.30904	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=2.06388e-08	ref_cov=104/76	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=105/77
RA	554	.	NC_007779	3845596	0	G	T	bias_e_value=42.1875	bias_p_value=9.07975e-06	fisher_strand_p_value=5.91903e-07	frequency=4.279613e-02	genotype_quality=863.0	ks_quality_p_value=1	log10_base_likelihood=-9.75908	log10_qual_likelihood_position_model=14.0508	log10_strand_likelihood_position_model=6.22775	new_cov=0/16	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=147/93	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=147/110
RA	555	.	NC_007779	3846240	0	G	C	bias_e_value=0.000283366	bias_p_value=6.0987e-11	fisher_strand_p_value=2.19007e-12	frequency=1.124802e-01	genotype_quality=480.5	ks_quality_p_value=1	log10_base_likelihood=-21.0258	log10_qual_likelihood_position_model=14.7905	log10_strand_likelihood_position_model=11.6629	new_cov=1/17	polymorphism_quality=15.8	quality=15.8	quality_position_model=Inf	ref_cov=114/16	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=115/33
RA	556	.	NC_007779	3855255	0	C	A	bias_e_value=91.428	bias_p_value=1.96775e-05	fisher_strand_p_value=1.37823e-06	frequency=4.267979e-02	genotype_quality=536.7	ks_quality_p_value=0.983903	log10_base_likelihood=-11.1274	log10_qual_likelihood_position_model=8.57305	log10_strand_likelihood_position_model=5.86068	new_cov=0/6	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=122/11	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=122/17
RA	557	.	NC_007779	3859258	1	.	T	bias_e_value=1532400	bias_p_value=0.329809	fisher_strand_p_value=0.0998217	frequency=1.889324e-02	genotype_quality=714.3	ks_quality_p_value=0.999829	log10_base_likelihood=-7.18842	log10_qual_likelihood_position_model=3.37221	log10_strand_likelihood_position_model=1.00077	new_cov=2/0	polymorphism_quality=1.7	quality=1.7	quality_position_model=0.000137813	ref_cov=47/105	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=50/105
RA	558	.	NC_007779	3859263	0	T	C	bias_e_value=8.92946e-06	bias_p_value=1.92183e-12	fisher_strand_p_value=6.11554e-14	frequency=1.257386e-01	genotype_quality=440.9	ks_quality_p_value=1	log10_base_likelihood=-27.9282	log10_qual_likelihood_position_model=20.7761	log10_strand_likelihood_position_model=13.2136	new_cov=22/0	polymorphism_quality=22.7	quality=22.7	quality_position_model=Inf	ref_cov=27/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=49/114
RA	559	.	NC_007779	3859265	0	A	C	bias_e_value=0.00609175	bias_p_value=1.31109e-09	fisher_strand_p_value=5.3172e-11	frequency=1.083794e-01	genotype_quality=438.1	ks_quality_p_value=1	log10_base_likelihood=-24.1624	log10_qual_likelihood_position_model=13.4216	log10_strand_likelihood_position_model=10.28	new_cov=20/1	polymorphism_quality=18.9	quality=18.9	quality_position_model=0.0681256	ref_cov=31/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=51/114
RA	560	.	NC_007779	3859270	0	G	C	bias_e_value=1.0343	bias_p_value=2.22605e-07	fisher_strand_p_value=1.15478e-08	frequency=8.355618e-02	genotype_quality=535.7	ks_quality_p_value=1	log10_base_likelihood=-26.5241	log10_qual_likelihood_position_model=10.4424	log10_strand_likelihood_position_model=7.9375	new_cov=13/0	polymorphism_quality=21.3	quality=21.3	quality_position_model=3.95893e-10	ref_cov=28/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=41/107
RA	561	.	NC_007779	3859271	0	G	C	bias_e_value=40285.1	bias_p_value=0.00867031	fisher_strand_p_value=0.00111612	frequency=3.365803e-02	genotype_quality=556.4	ks_quality_p_value=0.995638	log10_base_likelihood=-7.83245	log10_qual_likelihood_position_model=5.17395	log10_strand_likelihood_position_model=2.95229	new_cov=5/0	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=34/107	reject=POLYMORPHISM_STRAND	tot_cov=39/107
RA	562	.	NC_007779	3859275	0	T	C	bias_e_value=12.8703	bias_p_value=2.76998e-06	fisher_strand_p_value=1.66801e-07	frequency=6.195164e-02	genotype_quality=494.0	ks_quality_p_value=1	log10_base_likelihood=-10.3123	log10_qual_likelihood_position_model=13.5042	log10_strand_likelihood_position_model=6.7778	new_cov=12/0	polymorphism_quality=4.9	quality=4.9	quality_position_model=Inf	ref_cov=33/105	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=45/105
RA	563	.	NC_007779	3859277	0	T	C	bias_e_value=58565.1	bias_p_value=0.0126046	fisher_strand_p_value=0.00189901	frequency=3.242111e-02	genotype_quality=505.3	ks_quality_p_value=0.900445	log10_base_likelihood=-6.80394	log10_qual_likelihood_position_model=5.02491	log10_strand_likelihood_position_model=2.72147	new_cov=5/0	polymorphism_quality=1.3	quality=1.3	quality_position_model=Inf	ref_cov=39/105	reject=EVALUE,POLYMORPHISM_STRAND,SURROUNDING_HOMOPOLYMER	tot_cov=44/105
RA	564	.	NC_007779	3859381	0	T	G	bias_e_value=1151.35	bias_p_value=0.000247797	fisher_strand_p_value=2.72337e-05	frequency=3.529358e-02	genotype_quality=390.8	ks_quality_p_value=0.773172	log10_base_likelihood=-6.15126	log10_qual_likelihood_position_model=6.64887	log10_strand_likelihood_position_model=4.56489	new_cov=0/5	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=100/11	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=101/16
RA	565	.	NC_007779	3859383	0	A	G	bias_e_value=4.17881	bias_p_value=8.99379e-07	fisher_strand_p_value=5.05246e-08	frequency=5.336285e-02	genotype_quality=368.3	ks_quality_p_value=1	log10_base_likelihood=-8.20938	log10_qual_likelihood_position_model=9.45183	log10_strand_likelihood_position_model=7.2965	new_cov=0/7	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=98/6	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=98/13
RA	566	.	NC_007779	3873375	0	T	.	bias_e_value=2371460	bias_p_value=0.510394	fisher_strand_p_value=0.253084	frequency=1.506615e-02	genotype_quality=788.9	ks_quality_p_value=0.762344	log10_base_likelihood=-8.36029	log10_qual_likelihood_position_model=1.87732	log10_strand_likelihood_position_model=0.78975	new_cov=0/3	polymorphism_quality=2.9	quality=2.9	quality_position_model=1.32427e-07	ref_cov=90/106	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=90/109
RA	567	.	NC_007779	3885052	0	T	G	bias_e_value=6.74469e-07	bias_p_value=1.45162e-13	fisher_strand_p_value=4.25819e-15	frequency=7.051706e-02	genotype_quality=638.0	ks_quality_p_value=1	log10_base_likelihood=-6.6267	log10_qual_likelihood_position_model=37.6144	log10_strand_likelihood_position_model=14.3708	new_cov=33/0	polymorphism_quality=1.1	quality=1.1	quality_position_model=Inf	ref_cov=54/121	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=88/121
RA	568	.	NC_007779	3891907	0	T	.	bias_e_value=2720340	bias_p_value=0.585481	fisher_strand_p_value=0.247857	frequency=1.331902e-02	genotype_quality=895.7	ks_quality_p_value=0.976731	log10_base_likelihood=-7.70599	log10_qual_likelihood_position_model=3.71992	log10_strand_likelihood_position_model=0.857394	new_cov=3/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=6.39187e-05	ref_cov=114/108	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/108
RA	569	.	NC_007779	3893880	0	G	T	bias_e_value=131.88	bias_p_value=2.83837e-05	fisher_strand_p_value=2.0106e-06	frequency=5.454397e-02	genotype_quality=682.5	ks_quality_p_value=1	log10_base_likelihood=-7.81353	log10_qual_likelihood_position_model=16.2922	log10_strand_likelihood_position_model=5.69668	new_cov=0/16	polymorphism_quality=2.3	quality=2.3	quality_position_model=Inf	ref_cov=116/83	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/105
RA	570	.	NC_007779	3895373	0	T	G	bias_e_value=0.00704843	bias_p_value=1.51699e-09	fisher_strand_p_value=6.19041e-11	frequency=1.620736e-01	genotype_quality=418.5	ks_quality_p_value=1	log10_base_likelihood=-18.4519	log10_qual_likelihood_position_model=28.9816	log10_strand_likelihood_position_model=10.2284	new_cov=33/0	polymorphism_quality=13.1	quality=13.1	quality_position_model=Inf	ref_cov=55/74	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=88/74
RA	571	.	NC_007779	3898657	0	C	G	frequency=1	genotype_quality=978.8	new_cov=125/106	quality=978.8	ref_cov=0/0	tot_cov=125/106
RA	572	.	NC_007779	3898897	0	G	T	bias_e_value=3324.97	bias_p_value=0.000715613	fisher_strand_p_value=6.91076e-05	frequency=4.302120e-02	genotype_quality=537.6	ks_quality_p_value=0.976564	log10_base_likelihood=-12.2905	log10_qual_likelihood_position_model=7.97985	log10_strand_likelihood_position_model=4.16047	new_cov=6/0	polymorphism_quality=6.9	quality=6.9	quality_position_model=0.225944	ref_cov=24/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=30/108
RA	573	.	NC_007779	3900676	1	.	G	bias_e_value=477873	bias_p_value=0.10285	fisher_strand_p_value=0.0231988	frequency=1.834869e-02	genotype_quality=1064.0	ks_quality_p_value=0.913279	log10_base_likelihood=-17.7722	log10_qual_likelihood_position_model=2.16188	log10_strand_likelihood_position_model=1.63453	new_cov=4/0	polymorphism_quality=12.5	quality=12.5	quality_position_model=4.49904e-16	ref_cov=82/132	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=86/132
RA	574	.	NC_007779	3900680	0	T	G	bias_e_value=0.666756	bias_p_value=1.43502e-07	fisher_strand_p_value=7.27554e-09	frequency=4.954529e-02	genotype_quality=589.0	ks_quality_p_value=0.999205	log10_base_likelihood=-6.19578	log10_qual_likelihood_position_model=13.2723	log10_strand_likelihood_position_model=8.13813	new_cov=9/0	polymorphism_quality=0.7	quality=0.7	quality_position_model=Inf	ref_cov=14/132	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=23/132
RA	575	.	NC_007779	3910746	0	C	A	bias_e_value=0.751529	bias_p_value=1.61747e-07	fisher_strand_p_value=8.24672e-09	frequency=5.333757e-02	genotype_quality=852.9	ks_quality_p_value=1	log10_base_likelihood=-6.41864	log10_qual_likelihood_position_model=21.9788	log10_strand_likelihood_position_model=8.08372	new_cov=22/0	polymorphism_quality=0.9	quality=0.9	quality_position_model=Inf	ref_cov=94/140	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=116/140
RA	576	.	NC_007779	3912296	1	.	G	bias_e_value=1012000	bias_p_value=0.217806	fisher_strand_p_value=0.168229	frequency=1.351357e-02	genotype_quality=701.4	ks_quality_p_value=0.333685	log10_base_likelihood=-9.1059	log10_qual_likelihood_position_model=1.26203	log10_strand_likelihood_position_model=0.774098	new_cov=0/2	polymorphism_quality=3.6	quality=3.6	quality_position_model=5.02557e-09	ref_cov=87/59	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=87/61
RA	577	.	NC_007779	3930443	0	T	G	bias_e_value=3.50912e-05	bias_p_value=7.55245e-12	fisher_strand_p_value=2.51659e-13	frequency=6.622505e-02	genotype_quality=528.9	ks_quality_p_value=1	log10_base_likelihood=-5.83273	log10_qual_likelihood_position_model=18.2305	log10_strand_likelihood_position_model=12.5992	new_cov=20/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=25/114	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=45/114
RA	578	.	NC_007779	3933153	0	G	T	bias_e_value=15158.6	bias_p_value=0.00326249	fisher_strand_p_value=0.000366233	frequency=3.373337e-02	genotype_quality=755.3	ks_quality_p_value=0.999495	log10_base_likelihood=-6.32679	log10_qual_likelihood_position_model=11.6811	log10_strand_likelihood_position_model=3.65025	new_cov=0/12	polymorphism_quality=0.8	quality=0.8	quality_position_model=Inf	ref_cov=110/102	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=110/115
RA	579	.	NC_007779	3936942	0	A	C	bias_e_value=0.00875512	bias_p_value=1.88431e-09	fisher_strand_p_value=7.76096e-11	frequency=7.969904e-02	genotype_quality=579.5	ks_quality_p_value=1	log10_base_likelihood=-5.93306	log10_qual_likelihood_position_model=23.0814	log10_strand_likelihood_position_model=10.3722	new_cov=0/33	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=98/76	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=98/110
RA	580	.	NC_007779	3952095	1	.	G	bias_e_value=50215.3	bias_p_value=0.0108075	fisher_strand_p_value=0.00209344	frequency=3.614426e-02	genotype_quality=764.7	ks_quality_p_value=0.683882	log10_base_likelihood=-27.9456	log10_qual_likelihood_position_model=2.84734	log10_strand_likelihood_position_model=2.67914	new_cov=6/0	polymorphism_quality=22.7	quality=22.7	quality_position_model=1.28695e-24	ref_cov=55/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=61/105
RA	581	.	NC_007779	3952099	0	T	G	bias_e_value=389.477	bias_p_value=8.38245e-05	fisher_strand_p_value=6.47408e-06	frequency=3.310299e-02	genotype_quality=466.3	ks_quality_p_value=1	log10_base_likelihood=-5.65397	log10_qual_likelihood_position_model=7.12231	log10_strand_likelihood_position_model=5.18882	new_cov=5/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=8/108	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=13/108
RA	582	.	NC_007779	3976303	1	.	A	bias_e_value=4280200	bias_p_value=0.9212	fisher_strand_p_value=1	frequency=9.523392e-03	genotype_quality=1026.8	ks_quality_p_value=0.630255	log10_base_likelihood=-8.49662	log10_qual_likelihood_position_model=0.971008	log10_strand_likelihood_position_model=0.299312	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=3.46858e-09	ref_cov=101/107	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=102/108
RA	583	.	NC_007779	4000222	0	C	G	bias_e_value=26921	bias_p_value=0.00579404	fisher_strand_p_value=0.000758602	frequency=4.784870e-02	genotype_quality=767.2	ks_quality_p_value=0.924373	log10_base_likelihood=-7.05285	log10_qual_likelihood_position_model=17.448	log10_strand_likelihood_position_model=3.2921	new_cov=1/14	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=116/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=117/126
RA	584	.	NC_007779	4010407	0	C	A	bias_e_value=13632.3	bias_p_value=0.002934	fisher_strand_p_value=0.000335676	frequency=3.615284e-02	genotype_quality=551.1	ks_quality_p_value=0.967712	log10_base_likelihood=-6.8766	log10_qual_likelihood_position_model=7.57792	log10_strand_likelihood_position_model=3.47408	new_cov=0/6	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=113/37	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=113/43
RA	585	.	NC_007779	4023064	1	.	G	bias_e_value=2672080	bias_p_value=0.575095	fisher_strand_p_value=0.498821	frequency=1.249981e-02	genotype_quality=776.9	ks_quality_p_value=0.4708	log10_base_likelihood=-8.73806	log10_qual_likelihood_position_model=1.27776	log10_strand_likelihood_position_model=0.551819	new_cov=2/0	polymorphism_quality=3.3	quality=3.3	quality_position_model=7.36578e-09	ref_cov=83/75	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=85/75
RA	586	.	NC_007779	4023068	0	T	G	bias_e_value=6.07669	bias_p_value=1.30785e-06	fisher_strand_p_value=7.51471e-08	frequency=4.979420e-02	genotype_quality=389.5	ks_quality_p_value=1	log10_base_likelihood=-6.02153	log10_qual_likelihood_position_model=11.3882	log10_strand_likelihood_position_model=7.12409	new_cov=9/0	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=12/87	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=21/87
RA	587	.	NC_007779	4029622	1	.	G	bias_e_value=2255860	bias_p_value=0.485514	fisher_strand_p_value=0.205279	frequency=1.069546e-02	genotype_quality=909.6	ks_quality_p_value=0.867935	log10_base_likelihood=-8.16522	log10_qual_likelihood_position_model=1.49136	log10_strand_likelihood_position_model=0.687656	new_cov=2/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=6.5886e-08	ref_cov=83/102	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=85/102
RA	588	.	NC_007779	4029628	0	C	G	bias_e_value=61.9241	bias_p_value=1.33275e-05	fisher_strand_p_value=8.92727e-07	frequency=5.161572e-02	genotype_quality=551.7	ks_quality_p_value=1	log10_base_likelihood=-7.15205	log10_qual_likelihood_position_model=11.37	log10_strand_likelihood_position_model=6.04928	new_cov=10/0	polymorphism_quality=1.6	quality=1.6	quality_position_model=Inf	ref_cov=30/107	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=40/107
RA	589	.	NC_007779	4029633	0	T	G	bias_e_value=0.0676147	bias_p_value=1.45523e-08	fisher_strand_p_value=6.57194e-10	frequency=7.349586e-02	genotype_quality=531.3	ks_quality_p_value=1	log10_base_likelihood=-13.8781	log10_qual_likelihood_position_model=15.2592	log10_strand_likelihood_position_model=9.18231	new_cov=14/0	polymorphism_quality=8.5	quality=8.5	quality_position_model=Inf	ref_cov=24/110	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=38/110
RA	590	.	NC_007779	4031691	1	.	T	bias_e_value=1130040	bias_p_value=0.243211	fisher_strand_p_value=0.0676256	frequency=1.459885e-02	genotype_quality=657.7	ks_quality_p_value=0.964109	log10_base_likelihood=-8.62174	log10_qual_likelihood_position_model=1.30742	log10_strand_likelihood_position_model=1.16989	new_cov=2/0	polymorphism_quality=3.2	quality=3.2	quality_position_model=4.52109e-08	ref_cov=34/101	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=36/101
RA	591	.	NC_007779	4031696	0	C	T	bias_e_value=9.61286	bias_p_value=2.06891e-06	fisher_strand_p_value=1.22299e-07	frequency=5.500412e-02	genotype_quality=511.0	ks_quality_p_value=1	log10_base_likelihood=-5.68498	log10_qual_likelihood_position_model=11.0272	log10_strand_likelihood_position_model=6.91258	new_cov=9/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=18/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=27/111
RA	592	.	NC_007779	4035478	0	A	C	bias_e_value=0.127961	bias_p_value=2.75401e-08	fisher_strand_p_value=1.28246e-09	frequency=8.744621e-02	genotype_quality=420.8	ks_quality_p_value=1	log10_base_likelihood=-16.3064	log10_qual_likelihood_position_model=14.0687	log10_strand_likelihood_position_model=8.89196	new_cov=0/11	polymorphism_quality=11.0	quality=11.0	quality_position_model=Inf	ref_cov=96/12	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=96/23
RA	593	.	NC_007779	4043703	0	C	A	bias_e_value=113.961	bias_p_value=2.45272e-05	fisher_strand_p_value=1.71829e-06	frequency=6.057215e-02	genotype_quality=764.9	ks_quality_p_value=1	log10_base_likelihood=-9.74894	log10_qual_likelihood_position_model=13.2283	log10_strand_likelihood_position_model=5.78856	new_cov=20/0	polymorphism_quality=4.3	quality=4.3	quality_position_model=Inf	ref_cov=109/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=129/113
RA	594	.	NC_007779	4052978	0	G	T	bias_e_value=149.5	bias_p_value=3.21759e-05	fisher_strand_p_value=2.30122e-06	frequency=4.035854e-02	genotype_quality=773.7	ks_quality_p_value=1	log10_base_likelihood=-5.98344	log10_qual_likelihood_position_model=14.4112	log10_strand_likelihood_position_model=5.63804	new_cov=0/17	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=119/95	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/113
RA	595	.	NC_007779	4055100	0	G	T	bias_e_value=5.10244e-12	bias_p_value=1.09817e-18	fisher_strand_p_value=3.6115e-20	frequency=1.893048e-01	genotype_quality=515.9	ks_quality_p_value=0.658376	log10_base_likelihood=-52.6467	log10_qual_likelihood_position_model=33.2211	log10_strand_likelihood_position_model=19.4423	new_cov=34/0	polymorphism_quality=47.6	quality=47.6	quality_position_model=Inf	ref_cov=25/112	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=59/112
RA	596	.	NC_007779	4055329	0	T	G	bias_e_value=1.21722e-11	bias_p_value=2.61975e-18	fisher_strand_p_value=5.78354e-20	frequency=1.213446e-01	genotype_quality=528.2	ks_quality_p_value=1	log10_base_likelihood=-24.1848	log10_qual_likelihood_position_model=23.7578	log10_strand_likelihood_position_model=19.2378	new_cov=23/0	polymorphism_quality=18.9	quality=18.9	quality_position_model=Inf	ref_cov=11/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=34/128
RA	597	.	NC_007779	4059484	1	.	T	bias_e_value=3945180	bias_p_value=0.849097	fisher_strand_p_value=0.608831	frequency=1.470566e-02	genotype_quality=977.2	ks_quality_p_value=0.827257	log10_base_likelihood=-12.9443	log10_qual_likelihood_position_model=2.02218	log10_strand_likelihood_position_model=0.442053	new_cov=2/1	polymorphism_quality=7.6	quality=7.6	quality_position_model=1.6191e-12	ref_cov=96/105	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=98/106
RA	598	.	NC_007779	4062114	0	T	G	bias_e_value=2.9995e-17	bias_p_value=6.45562e-24	fisher_strand_p_value=1.10418e-25	frequency=1.843305e-01	genotype_quality=505.5	ks_quality_p_value=1	log10_base_likelihood=-32.5249	log10_qual_likelihood_position_model=37.817	log10_strand_likelihood_position_model=24.957	new_cov=45/0	polymorphism_quality=27.3	quality=27.3	quality_position_model=Inf	ref_cov=25/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=71/118
RA	599	.	NC_007779	4064463	0	G	T	bias_e_value=556.046	bias_p_value=0.000119674	fisher_strand_p_value=9.52717e-06	frequency=7.730913e-02	genotype_quality=660.4	ks_quality_p_value=1	log10_base_likelihood=-12.5288	log10_qual_likelihood_position_model=14.5599	log10_strand_likelihood_position_model=5.06807	new_cov=0/21	polymorphism_quality=7.1	quality=7.1	quality_position_model=Inf	ref_cov=89/109	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=89/130
RA	600	.	NC_007779	4074542	0	C	A	bias_e_value=1.48347	bias_p_value=3.19277e-07	fisher_strand_p_value=1.69669e-08	frequency=6.600380e-02	genotype_quality=571.5	ks_quality_p_value=0.995847	log10_base_likelihood=-13.5845	log10_qual_likelihood_position_model=15.3134	log10_strand_likelihood_position_model=7.7704	new_cov=0/12	polymorphism_quality=8.2	quality=8.2	quality_position_model=Inf	ref_cov=118/28	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=118/40
RA	601	.	NC_007779	4076934	0	A	C	bias_e_value=2.9119e-06	bias_p_value=6.26709e-13	fisher_strand_p_value=1.92348e-14	frequency=1.461363e-01	genotype_quality=563.5	ks_quality_p_value=1	log10_base_likelihood=-22.9518	log10_qual_likelihood_position_model=27.8591	log10_strand_likelihood_position_model=13.7159	new_cov=0/35	polymorphism_quality=17.7	quality=17.7	quality_position_model=Inf	ref_cov=107/56	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=107/91
RA	602	.	NC_007779	4078140	0	C	G	bias_e_value=5.49382	bias_p_value=1.1824e-06	fisher_strand_p_value=6.75241e-08	frequency=6.069899e-02	genotype_quality=591.9	ks_quality_p_value=1	log10_base_likelihood=-6.71424	log10_qual_likelihood_position_model=17.01	log10_strand_likelihood_position_model=7.17054	new_cov=14/0	polymorphism_quality=1.2	quality=1.2	quality_position_model=Inf	ref_cov=42/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=56/111
RA	603	.	NC_007779	4090749	0	A	T	frequency=1	genotype_quality=950.6	new_cov=127/112	quality=950.6	ref_cov=0/0	tot_cov=127/112
RA	604	.	NC_007779	4098730	0	G	T	bias_e_value=954.302	bias_p_value=0.000205388	fisher_strand_p_value=1.71541e-05	frequency=4.681587e-02	genotype_quality=702.8	ks_quality_p_value=0.999989	log10_base_likelihood=-8.99047	log10_qual_likelihood_position_model=12.7031	log10_strand_likelihood_position_model=4.76563	new_cov=0/15	polymorphism_quality=3.5	quality=3.5	quality_position_model=Inf	ref_cov=112/96	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/111
RA	605	.	NC_007779	4115400	1	.	C	bias_e_value=711984	bias_p_value=0.153236	fisher_strand_p_value=0.0383562	frequency=1.369762e-02	genotype_quality=698.4	ks_quality_p_value=0.919519	log10_base_likelihood=-6.99994	log10_qual_likelihood_position_model=4.02469	log10_strand_likelihood_position_model=1.41616	new_cov=0/2	polymorphism_quality=1.5	quality=1.5	quality_position_model=0.00321378	ref_cov=117/27	reject=EVALUE,POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=117/29
RA	606	.	NC_007779	4128670	0	T	.	bias_e_value=3465480	bias_p_value=0.745853	fisher_strand_p_value=1	frequency=1.769066e-02	genotype_quality=875.5	ks_quality_p_value=0.378114	log10_base_likelihood=-11.4473	log10_qual_likelihood_position_model=3.54254	log10_strand_likelihood_position_model=0.429751	new_cov=2/2	polymorphism_quality=6.0	quality=6.0	quality_position_model=1.92522e-09	ref_cov=100/121	reject=INDEL_HOMOPOLYMER	tot_cov=103/123
RA	607	.	NC_007779	4135339	0	T	C	bias_e_value=0.186895	bias_p_value=4.02241e-08	fisher_strand_p_value=1.90844e-09	frequency=8.631182e-02	genotype_quality=521.6	ks_quality_p_value=1	log10_base_likelihood=-6.07577	log10_qual_likelihood_position_model=15.8489	log10_strand_likelihood_position_model=8.71932	new_cov=0/22	polymorphism_quality=0.5	quality=0.5	quality_position_model=Inf	ref_cov=100/56	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/78
RA	608	.	NC_007779	4140347	0	A	C	bias_e_value=0.0145382	bias_p_value=3.12896e-09	fisher_strand_p_value=1.31745e-10	frequency=6.399202e-02	genotype_quality=554.3	ks_quality_p_value=1	log10_base_likelihood=-7.61298	log10_qual_likelihood_position_model=18.0639	log10_strand_likelihood_position_model=9.88027	new_cov=0/18	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=112/35	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=112/53
RA	609	.	NC_007779	4147012	0	A	C	bias_e_value=28.3759	bias_p_value=6.10717e-06	fisher_strand_p_value=3.87418e-07	frequency=5.677080e-02	genotype_quality=673.6	ks_quality_p_value=1	log10_base_likelihood=-5.66163	log10_qual_likelihood_position_model=19.5868	log10_strand_likelihood_position_model=6.41182	new_cov=0/19	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=109/83	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/102
RA	610	.	NC_007779	4147266	0	T	.	bias_e_value=4073990	bias_p_value=0.876819	fisher_strand_p_value=1	frequency=1.368904e-02	genotype_quality=850.4	ks_quality_p_value=0.546686	log10_base_likelihood=-8.19671	log10_qual_likelihood_position_model=2.21602	log10_strand_likelihood_position_model=0.39385	new_cov=2/1	polymorphism_quality=2.7	quality=2.7	quality_position_model=1.70683e-07	ref_cov=116/100	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=118/101
RA	611	.	NC_007779	4148399	0	A	C	bias_e_value=2.94822e-10	bias_p_value=6.34526e-17	fisher_strand_p_value=1.50953e-18	frequency=1.681633e-01	genotype_quality=474.7	ks_quality_p_value=1	log10_base_likelihood=-25.5691	log10_qual_likelihood_position_model=31.8029	log10_strand_likelihood_position_model=17.8212	new_cov=0/40	polymorphism_quality=20.3	quality=20.3	quality_position_model=Inf	ref_cov=100/37	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=100/77
RA	612	.	NC_007779	4159514	0	T	G	bias_e_value=1.21044e-11	bias_p_value=2.60515e-18	fisher_strand_p_value=5.75059e-20	frequency=1.240773e-01	genotype_quality=549.2	ks_quality_p_value=1	log10_base_likelihood=-7.91989	log10_qual_likelihood_position_model=33.205	log10_strand_likelihood_position_model=19.2403	new_cov=46/0	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=45/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=91/108
RA	613	.	NC_007779	4165991	0	A	C	frequency=1	genotype_quality=1022.1	new_cov=132/106	quality=1022.1	ref_cov=0/0	tot_cov=132/106
RA	614	.	NC_007779	4174730	0	T	.	bias_e_value=4610660	bias_p_value=0.992323	fisher_strand_p_value=1	frequency=1.338100e-02	genotype_quality=890.8	ks_quality_p_value=0.878678	log10_base_likelihood=-7.89172	log10_qual_likelihood_position_model=2.54043	log10_strand_likelihood_position_model=0.412755	new_cov=1/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=8.04313e-07	ref_cov=108/113	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=109/115
RA	615	.	NC_007779	4190480	0	A	C	bias_e_value=0.612767	bias_p_value=1.31882e-07	fisher_strand_p_value=6.65114e-09	frequency=7.065010e-02	genotype_quality=685.2	ks_quality_p_value=1	log10_base_likelihood=-8.51284	log10_qual_likelihood_position_model=21.3968	log10_strand_likelihood_position_model=8.1771	new_cov=0/21	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=120/72	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=120/93
RA	616	.	NC_007779	4192561	1	.	T	bias_e_value=4390530	bias_p_value=0.944945	fisher_strand_p_value=1	frequency=8.968353e-03	genotype_quality=1086.7	ks_quality_p_value=0.687082	log10_base_likelihood=-8.47718	log10_qual_likelihood_position_model=1.39799	log10_strand_likelihood_position_model=0.303723	new_cov=1/1	polymorphism_quality=3.0	quality=3.0	quality_position_model=1.00976e-08	ref_cov=122/99	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=123/100
RA	617	.	NC_007779	4197139	0	T	G	bias_e_value=30.5144	bias_p_value=6.56743e-06	fisher_strand_p_value=4.18676e-07	frequency=3.814411e-02	genotype_quality=585.0	ks_quality_p_value=1	log10_base_likelihood=-9.28415	log10_qual_likelihood_position_model=8.68568	log10_strand_likelihood_position_model=6.37812	new_cov=7/0	polymorphism_quality=3.8	quality=3.8	quality_position_model=Inf	ref_cov=15/135	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=22/135
RA	618	.	NC_007779	4200494	0	T	G	bias_e_value=0.130438	bias_p_value=2.80733e-08	fisher_strand_p_value=1.30851e-09	frequency=6.867647e-02	genotype_quality=668.8	ks_quality_p_value=1	log10_base_likelihood=-8.2101	log10_qual_likelihood_position_model=24.8201	log10_strand_likelihood_position_model=8.88322	new_cov=23/0	polymorphism_quality=2.7	quality=2.7	quality_position_model=Inf	ref_cov=70/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=93/117
RA	619	.	NC_007779	4210440	1	.	A	bias_e_value=4180450	bias_p_value=0.899731	fisher_strand_p_value=1	frequency=8.031845e-03	genotype_quality=1223.8	ks_quality_p_value=0.587034	log10_base_likelihood=-8.27971	log10_qual_likelihood_position_model=2.0039	log10_strand_likelihood_position_model=0.300131	new_cov=1/1	polymorphism_quality=2.8	quality=2.8	quality_position_model=6.75576e-08	ref_cov=129/118	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=130/119
RA	620	.	NC_007779	4211222	0	C	A	bias_e_value=7132.38	bias_p_value=0.00153506	fisher_strand_p_value=0.00015759	frequency=3.611755e-02	genotype_quality=844.5	ks_quality_p_value=0.99832	log10_base_likelihood=-5.56544	log10_qual_likelihood_position_model=11.2428	log10_strand_likelihood_position_model=3.80247	new_cov=12/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=109/124	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=121/124
RA	621	.	NC_007779	4219520	0	C	A	bias_e_value=9719.6	bias_p_value=0.00209189	fisher_strand_p_value=0.000228753	frequency=2.650833e-02	genotype_quality=773.9	ks_quality_p_value=0.971643	log10_base_likelihood=-5.96489	log10_qual_likelihood_position_model=12.3919	log10_strand_likelihood_position_model=3.64063	new_cov=10/0	polymorphism_quality=0.4	quality=0.4	quality_position_model=Inf	ref_cov=86/120	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=96/120
RA	622	.	NC_007779	4224248	1	.	T	bias_e_value=4506280	bias_p_value=0.969857	fisher_strand_p_value=1	frequency=1.860428e-02	genotype_quality=1026.5	ks_quality_p_value=0.764736	log10_base_likelihood=-18.1526	log10_qual_likelihood_position_model=2.20066	log10_strand_likelihood_position_model=0.430306	new_cov=2/2	polymorphism_quality=12.8	quality=12.8	quality_position_model=1.21653e-17	ref_cov=116/95	reject=INDEL_HOMOPOLYMER	tot_cov=118/97
RA	623	.	NC_007779	4226513	0	C	A	bias_e_value=1.18512	bias_p_value=2.55065e-07	fisher_strand_p_value=1.33311e-08	frequency=7.512903e-02	genotype_quality=774.7	ks_quality_p_value=1	log10_base_likelihood=-18.9014	log10_qual_likelihood_position_model=18.0417	log10_strand_likelihood_position_model=7.87514	new_cov=22/0	polymorphism_quality=13.6	quality=13.6	quality_position_model=Inf	ref_cov=88/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=111/127
RA	624	.	NC_007779	4227183	0	T	G	bias_e_value=3.23727e-10	bias_p_value=6.96737e-17	fisher_strand_p_value=1.66131e-18	frequency=1.199508e-01	genotype_quality=634.2	ks_quality_p_value=1	log10_base_likelihood=-18.6918	log10_qual_likelihood_position_model=30.8656	log10_strand_likelihood_position_model=17.7795	new_cov=35/0	polymorphism_quality=13.4	quality=13.4	quality_position_model=Inf	ref_cov=43/133	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=78/133
RA	625	.	NC_007779	4244592	0	G	C	bias_e_value=8.2306	bias_p_value=1.77142e-06	fisher_strand_p_value=1.03703e-07	frequency=4.940891e-02	genotype_quality=424.8	ks_quality_p_value=1	log10_base_likelihood=-8.27976	log10_qual_likelihood_position_model=7.41434	log10_strand_likelihood_position_model=6.98421	new_cov=0/6	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=99/4	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/10
RA	626	.	NC_007779	4304641	0	T	G	bias_e_value=1.22268e-08	bias_p_value=2.63149e-15	fisher_strand_p_value=6.8861e-17	frequency=1.170411e-01	genotype_quality=508.0	ks_quality_p_value=1	log10_base_likelihood=-12.1155	log10_qual_likelihood_position_model=29.5236	log10_strand_likelihood_position_model=16.162	new_cov=33/0	polymorphism_quality=6.7	quality=6.7	quality_position_model=Inf	ref_cov=34/104	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=67/104
RA	627	.	NC_007779	4310394	0	C	G	frequency=1	genotype_quality=1.0	new_cov=1/0	quality=1.0	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	628	.	NC_007779	4312218	0	T	G	bias_e_value=0.0929672	bias_p_value=2.00087e-08	fisher_strand_p_value=9.17434e-10	frequency=6.103992e-02	genotype_quality=616.1	ks_quality_p_value=1	log10_base_likelihood=-6.49026	log10_qual_likelihood_position_model=22.4796	log10_strand_likelihood_position_model=9.03743	new_cov=22/0	polymorphism_quality=1.0	quality=1.0	quality_position_model=Inf	ref_cov=60/112	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=82/113
RA	629	.	NC_007779	4318994	0	A	G	bias_e_value=6708.1	bias_p_value=0.00144374	fisher_strand_p_value=0.000147191	frequency=3.167725e-02	genotype_quality=551.7	ks_quality_p_value=0.998281	log10_base_likelihood=-7.99147	log10_qual_likelihood_position_model=5.25591	log10_strand_likelihood_position_model=3.83759	new_cov=1/4	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=141/9	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=142/13
RA	630	.	NC_007779	4321435	0	G	C	bias_e_value=241.212	bias_p_value=5.19146e-05	fisher_strand_p_value=3.85521e-06	frequency=3.172874e-02	genotype_quality=502.0	ks_quality_p_value=1	log10_base_likelihood=-6.11727	log10_qual_likelihood_position_model=6.4809	log10_strand_likelihood_position_model=5.41395	new_cov=4/0	polymorphism_quality=0.6	quality=0.6	quality_position_model=Inf	ref_cov=3/116	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=7/116
RA	631	.	NC_007779	4337469	0	A	C	bias_e_value=2.25513e-15	bias_p_value=4.85357e-22	fisher_strand_p_value=8.97689e-24	frequency=1.717877e-01	genotype_quality=459.6	ks_quality_p_value=1	log10_base_likelihood=-23.977	log10_qual_likelihood_position_model=31.0211	log10_strand_likelihood_position_model=23.0469	new_cov=0/33	polymorphism_quality=18.7	quality=18.7	quality_position_model=Inf	ref_cov=112/13	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=112/46
RA	632	.	NC_007779	4348529	0	T	G	bias_e_value=0.000107308	bias_p_value=2.30953e-11	fisher_strand_p_value=8.00429e-13	frequency=8.524799e-02	genotype_quality=561.5	ks_quality_p_value=1	log10_base_likelihood=-7.57063	log10_qual_likelihood_position_model=25.0831	log10_strand_likelihood_position_model=12.0967	new_cov=22/0	polymorphism_quality=2.1	quality=2.1	quality_position_model=Inf	ref_cov=35/117	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=57/117
RA	633	.	NC_007779	4351353	0	T	G	bias_e_value=4.46517e-06	bias_p_value=9.61009e-13	fisher_strand_p_value=2.98998e-14	frequency=7.939911e-02	genotype_quality=554.0	ks_quality_p_value=1	log10_base_likelihood=-9.12072	log10_qual_likelihood_position_model=27.2207	log10_strand_likelihood_position_model=13.5243	new_cov=22/0	polymorphism_quality=3.7	quality=3.7	quality_position_model=Inf	ref_cov=27/118	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=49/118
RA	634	.	NC_007779	4357058	1	.	T	bias_e_value=2938040	bias_p_value=0.632335	fisher_strand_p_value=1	frequency=1.321602e-02	genotype_quality=1095.5	ks_quality_p_value=0.276798	log10_base_likelihood=-12.9393	log10_qual_likelihood_position_model=1.75141	log10_strand_likelihood_position_model=0.394861	new_cov=2/1	polymorphism_quality=7.6	quality=7.6	quality_position_model=7.76543e-13	ref_cov=120/104	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=122/105
RA	635	.	NC_007779	4361119	0	T	G	bias_e_value=2265130	bias_p_value=0.487508	fisher_strand_p_value=0.179327	frequency=4.507351e-02	genotype_quality=630.5	ks_quality_p_value=1	log10_base_likelihood=-7.23778	log10_qual_likelihood_position_model=12.9746	log10_strand_likelihood_position_model=1.15085	new_cov=4/11	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=91/103	reject=EVALUE,SURROUNDING_HOMOPOLYMER	tot_cov=95/114
RA	636	.	NC_007779	4371271	0	A	.	frequency=1	genotype_quality=824.5	new_cov=94/70	quality=824.5	ref_cov=0/0	tot_cov=94/70
RA	637	.	NC_007779	4371272	0	A	.	frequency=1	genotype_quality=824.5	new_cov=94/70	quality=824.5	ref_cov=0/0	tot_cov=94/70
RA	638	.	NC_007779	4397122	0	G	T	bias_e_value=684143	bias_p_value=0.147244	fisher_strand_p_value=0.0335154	frequency=1.641560e-02	genotype_quality=850.7	ks_quality_p_value=0.999281	log10_base_likelihood=-5.57554	log10_qual_likelihood_position_model=5.02228	log10_strand_likelihood_position_model=1.47476	new_cov=4/0	polymorphism_quality=0.0	quality=0.0	quality_position_model=Inf	ref_cov=88/121	reject=EVALUE,POLYMORPHISM_STRAND	tot_cov=92/121
RA	639	.	NC_007779	4419586	0	T	G	bias_e_value=7.97758e-11	bias_p_value=1.71696e-17	fisher_strand_p_value=3.95858e-19	frequency=2.239857e-01	genotype_quality=449.2	ks_quality_p_value=1	log10_base_likelihood=-42.9074	log10_qual_likelihood_position_model=28.7083	log10_strand_likelihood_position_model=18.4025	new_cov=49/0	polymorphism_quality=37.8	quality=37.8	quality_position_model=Inf	ref_cov=49/99	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=99/99
RA	640	.	NC_007779	4423038	0	C	G	bias_e_value=0.170516	bias_p_value=3.6699e-08	fisher_strand_p_value=1.73649e-09	frequency=9.558105e-02	genotype_quality=447.2	ks_quality_p_value=0.998145	log10_base_likelihood=-15.8781	log10_qual_likelihood_position_model=14.7042	log10_strand_likelihood_position_model=8.76033	new_cov=14/0	polymorphism_quality=10.5	quality=10.5	quality_position_model=Inf	ref_cov=22/94	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=36/94
RA	641	.	NC_007779	4429120	0	G	T	bias_e_value=0.529481	bias_p_value=1.13957e-07	fisher_strand_p_value=6.71714e-09	frequency=5.966425e-02	genotype_quality=771.1	ks_quality_p_value=0.849005	log10_base_likelihood=-9.44079	log10_qual_likelihood_position_model=24.5893	log10_strand_likelihood_position_model=8.17282	new_cov=0/21	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=133/81	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=133/102
RA	642	.	NC_007779	4455463	0	T	G	bias_e_value=2.55328e-11	bias_p_value=5.49526e-18	fisher_strand_p_value=1.23381e-19	frequency=1.500568e-01	genotype_quality=468.3	ks_quality_p_value=1	log10_base_likelihood=-25.8216	log10_qual_likelihood_position_model=24.2359	log10_strand_likelihood_position_model=18.9088	new_cov=30/0	polymorphism_quality=20.6	quality=20.6	quality_position_model=Inf	ref_cov=21/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=51/115
RA	643	.	NC_007779	4465551	0	T	G	bias_e_value=6.05069e-06	bias_p_value=1.30225e-12	fisher_strand_p_value=4.09162e-14	frequency=8.125544e-02	genotype_quality=552.4	ks_quality_p_value=1	log10_base_likelihood=-8.02762	log10_qual_likelihood_position_model=21.2178	log10_strand_likelihood_position_model=13.3881	new_cov=25/0	polymorphism_quality=2.5	quality=2.5	quality_position_model=Inf	ref_cov=35/115	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=60/116
RA	644	.	NC_007779	4478812	1	.	A	bias_e_value=4412160	bias_p_value=0.949601	fisher_strand_p_value=1	frequency=8.438110e-03	genotype_quality=1163.2	ks_quality_p_value=0.699799	log10_base_likelihood=-7.56388	log10_qual_likelihood_position_model=2.76539	log10_strand_likelihood_position_model=0.304053	new_cov=1/1	polymorphism_quality=2.1	quality=2.1	quality_position_model=2.33573e-06	ref_cov=105/130	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=106/131
RA	645	.	NC_007779	4486358	0	G	T	bias_e_value=21.3836	bias_p_value=4.60226e-06	fisher_strand_p_value=2.93441e-07	frequency=6.021404e-02	genotype_quality=613.9	ks_quality_p_value=0.976229	log10_base_likelihood=-6.88276	log10_qual_likelihood_position_model=17.8555	log10_strand_likelihood_position_model=6.53248	new_cov=13/0	polymorphism_quality=1.4	quality=1.4	quality_position_model=Inf	ref_cov=45/113	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=58/113
RA	646	.	NC_007779	4494104	0	C	A	bias_e_value=1593.86	bias_p_value=0.000343037	fisher_strand_p_value=3.00765e-05	frequency=4.738522e-02	genotype_quality=752.4	ks_quality_p_value=0.999394	log10_base_likelihood=-9.47528	log10_qual_likelihood_position_model=12.639	log10_strand_likelihood_position_model=4.52177	new_cov=14/0	polymorphism_quality=4.0	quality=4.0	quality_position_model=Inf	ref_cov=95/113	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=109/113
RA	647	.	NC_007779	4498747	1	.	A	bias_e_value=1992740	bias_p_value=0.428884	fisher_strand_p_value=0.189612	frequency=8.733749e-03	genotype_quality=1123.3	ks_quality_p_value=0.775374	log10_base_likelihood=-8.26135	log10_qual_likelihood_position_model=1.01741	log10_strand_likelihood_position_model=0.722135	new_cov=0/2	polymorphism_quality=2.8	quality=2.8	quality_position_model=1.84373e-08	ref_cov=129/98	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=129/100
RA	648	.	NC_007779	4512238	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	649	.	NC_007779	4512239	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	650	.	NC_007779	4512241	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	651	.	NC_007779	4512243	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	652	.	NC_007779	4512244	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	653	.	NC_007779	4512245	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	654	.	NC_007779	4512247	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	655	.	NC_007779	4512248	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	656	.	NC_007779	4512249	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	657	.	NC_007779	4512250	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	658	.	NC_007779	4512252	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	659	.	NC_007779	4512253	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	660	.	NC_007779	4512254	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	661	.	NC_007779	4512255	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	662	.	NC_007779	4512278	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	663	.	NC_007779	4512279	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	664	.	NC_007779	4512280	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	665	.	NC_007779	4512281	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	666	.	NC_007779	4512282	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	667	.	NC_007779	4512283	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=1/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	668	.	NC_007779	4512285	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	669	.	NC_007779	4512286	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	670	.	NC_007779	4512290	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	671	.	NC_007779	4512291	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	672	.	NC_007779	4512293	0	C	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	673	.	NC_007779	4512294	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	674	.	NC_007779	4512295	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	675	.	NC_007779	4512296	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	676	.	NC_007779	4512297	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	677	.	NC_007779	4512298	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	678	.	NC_007779	4512301	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	679	.	NC_007779	4512302	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	680	.	NC_007779	4512304	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	681	.	NC_007779	4512305	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	682	.	NC_007779	4512306	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	683	.	NC_007779	4512307	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	684	.	NC_007779	4512309	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	685	.	NC_007779	4512310	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	686	.	NC_007779	4512311	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	687	.	NC_007779	4512312	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	688	.	NC_007779	4512313	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	689	.	NC_007779	4512314	0	G	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	690	.	NC_007779	4512315	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	691	.	NC_007779	4512316	0	T	A	frequency=1	genotype_quality=-0.5	new_cov=0/0	quality=-0.5	ref_cov=1/0	reject=EVALUE	tot_cov=1/0
RA	692	.	NC_007779	4513020	0	C	A	frequency=1	genotype_quality=-0.1	new_cov=1/0	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	693	.	NC_007779	4513028	0	C	A	frequency=1	genotype_quality=-0.1	new_cov=1/0	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	694	.	NC_007779	4513041	0	C	A	frequency=1	genotype_quality=-0.1	new_cov=1/0	quality=-0.1	ref_cov=0/0	reject=EVALUE	tot_cov=1/0
RA	695	.	NC_007779	4516697	0	T	G	bias_e_value=112.124	bias_p_value=2.41318e-05	fisher_strand_p_value=1.68852e-06	frequency=8.636570e-02	genotype_quality=576.1	ks_quality_p_value=1	log10_base_likelihood=-7.87454	log10_qual_likelihood_position_model=19.6911	log10_strand_likelihood_position_model=5.93305	new_cov=23/2	polymorphism_quality=2.4	quality=2.4	quality_position_model=Inf	ref_cov=74/102	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=97/104
RA	696	.	NC_007779	4540870	0	T	G	bias_e_value=1.86702e-25	bias_p_value=4.01826e-32	fisher_strand_p_value=5.17523e-34	frequency=2.107315e-01	genotype_quality=512.5	ks_quality_p_value=1	log10_base_likelihood=-39.5394	log10_qual_likelihood_position_model=44.1871	log10_strand_likelihood_position_model=33.2861	new_cov=55/0	polymorphism_quality=34.4	quality=34.4	quality_position_model=Inf	ref_cov=18/128	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=73/128
RA	697	.	NC_007779	4540877	0	A	T	bias_e_value=7.04722e-08	bias_p_value=1.51673e-14	fisher_strand_p_value=4.16516e-16	frequency=1.326919e-01	genotype_quality=685.3	ks_quality_p_value=1	log10_base_likelihood=-31.9256	log10_qual_likelihood_position_model=25.8671	log10_strand_likelihood_position_model=15.3804	new_cov=28/0	polymorphism_quality=26.7	quality=26.7	quality_position_model=Inf	ref_cov=39/134	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=67/134
RA	698	.	NC_007779	4540892	0	T	A	bias_e_value=30.0229	bias_p_value=6.46163e-06	fisher_strand_p_value=4.11477e-07	frequency=5.517530e-02	genotype_quality=723.8	ks_quality_p_value=1	log10_base_likelihood=-8.29715	log10_qual_likelihood_position_model=15.9091	log10_strand_likelihood_position_model=6.38565	new_cov=14/0	polymorphism_quality=2.8	quality=2.8	quality_position_model=Inf	ref_cov=61/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=75/127
RA	699	.	NC_007779	4546535	0	T	A	frequency=1	genotype_quality=754.1	new_cov=99/82	quality=754.1	ref_cov=0/0	tot_cov=99/82
RA	700	.	NC_007779	4554528	0	C	T	bias_e_value=93.001	bias_p_value=2.0016e-05	fisher_strand_p_value=1.38112e-06	frequency=4.843903e-02	genotype_quality=659.5	ks_quality_p_value=1	log10_base_likelihood=-5.89788	log10_qual_likelihood_position_model=13.3776	log10_strand_likelihood_position_model=5.85977	new_cov=11/0	polymorphism_quality=0.3	quality=0.3	quality_position_model=Inf	ref_cov=46/125	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=57/125
RA	701	.	NC_007779	4554532	0	T	C	bias_e_value=0.0958433	bias_p_value=2.06277e-08	fisher_strand_p_value=9.47203e-10	frequency=6.586885e-02	genotype_quality=526.8	ks_quality_p_value=1	log10_base_likelihood=-11.9068	log10_qual_likelihood_position_model=13.3517	log10_strand_likelihood_position_model=9.02356	new_cov=14/0	polymorphism_quality=6.5	quality=6.5	quality_position_model=Inf	ref_cov=30/127	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=44/127
RA	702	.	NC_007779	4554534	0	A	C	bias_e_value=880.791	bias_p_value=0.000189567	fisher_strand_p_value=1.57177e-05	frequency=7.732344e-02	genotype_quality=502.0	ks_quality_p_value=1	log10_base_likelihood=-11.107	log10_qual_likelihood_position_model=16.5852	log10_strand_likelihood_position_model=4.84959	new_cov=14/6	polymorphism_quality=5.7	quality=5.7	quality_position_model=Inf	ref_cov=32/123	reject=FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=46/129
RA	703	.	NC_007779	4555389	0	C	A	bias_e_value=109.04	bias_p_value=2.3468e-05	fisher_strand_p_value=1.79834e-06	frequency=5.200672e-02	genotype_quality=729.8	ks_quality_p_value=0.911196	log10_base_likelihood=-8.44377	log10_qual_likelihood_position_model=17.8981	log10_strand_likelihood_position_model=5.74513	new_cov=17/0	polymorphism_quality=3.0	quality=3.0	quality_position_model=Inf	ref_cov=88/114	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=106/114
RA	704	.	NC_007779	4557828	0	A	.	bias_e_value=4470000	bias_p_value=0.962049	fisher_strand_p_value=1	frequency=1.368809e-02	genotype_quality=881.0	ks_quality_p_value=0.737462	log10_base_likelihood=-8.02484	log10_qual_likelihood_position_model=2.34948	log10_strand_likelihood_position_model=0.387876	new_cov=2/1	polymorphism_quality=2.5	quality=2.5	quality_position_model=3.48897e-07	ref_cov=118/98	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=120/99
RA	705	.	NC_007779	4559786	0	C	A	bias_e_value=1982.27	bias_p_value=0.000426632	fisher_strand_p_value=3.81838e-05	frequency=4.748487e-02	genotype_quality=625.6	ks_quality_p_value=1	log10_base_likelihood=-6.99676	log10_qual_likelihood_position_model=13.9481	log10_strand_likelihood_position_model=4.41812	new_cov=13/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=74/96	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=87/96
RA	706	.	NC_007779	4561440	1	.	T	bias_e_value=1444970	bias_p_value=0.310991	fisher_strand_p_value=0.159207	frequency=2.631569e-02	genotype_quality=891.0	ks_quality_p_value=0.576499	log10_base_likelihood=-23.4797	log10_qual_likelihood_position_model=4.13275	log10_strand_likelihood_position_model=1.12481	new_cov=5/0	polymorphism_quality=18.2	quality=18.2	quality_position_model=2.24199e-20	ref_cov=109/76	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=114/76
RA	707	.	NC_007779	4573184	0	T	G	bias_e_value=3.60193e-09	bias_p_value=7.75219e-16	fisher_strand_p_value=1.96413e-17	frequency=1.272817e-01	genotype_quality=575.5	ks_quality_p_value=1	log10_base_likelihood=-14.8015	log10_qual_likelihood_position_model=30.0705	log10_strand_likelihood_position_model=16.773	new_cov=50/0	polymorphism_quality=9.5	quality=9.5	quality_position_model=Inf	ref_cov=68/107	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=119/107
RA	708	.	NC_007779	4578169	0	G	C	bias_e_value=0.00468904	bias_p_value=1.00919e-09	fisher_strand_p_value=4.04807e-11	frequency=7.414532e-02	genotype_quality=635.0	ks_quality_p_value=1	log10_base_likelihood=-14.7174	log10_qual_likelihood_position_model=16.0936	log10_strand_likelihood_position_model=10.3928	new_cov=14/0	polymorphism_quality=9.4	quality=9.4	quality_position_model=Inf	ref_cov=22/132	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=36/132
RA	709	.	NC_007779	4578176	0	A	G	bias_e_value=0.05657	bias_p_value=1.21752e-08	fisher_strand_p_value=5.45245e-10	frequency=7.566261e-02	genotype_quality=593.0	ks_quality_p_value=1	log10_base_likelihood=-17.5275	log10_qual_likelihood_position_model=16.0273	log10_strand_likelihood_position_model=9.26341	new_cov=14/0	polymorphism_quality=12.2	quality=12.2	quality_position_model=Inf	ref_cov=29/130	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=43/130
RA	710	.	NC_007779	4578180	0	A	G	bias_e_value=132.392	bias_p_value=2.8494e-05	fisher_strand_p_value=2.019e-06	frequency=3.726196e-02	genotype_quality=577.0	ks_quality_p_value=1	log10_base_likelihood=-5.69402	log10_qual_likelihood_position_model=10.4852	log10_strand_likelihood_position_model=5.69486	new_cov=8/0	polymorphism_quality=0.1	quality=0.1	quality_position_model=Inf	ref_cov=25/122	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=33/122
RA	711	.	NC_007779	4610781	0	A	C	bias_e_value=0.0168581	bias_p_value=3.62826e-09	fisher_strand_p_value=1.53769e-10	frequency=5.591059e-02	genotype_quality=686.5	ks_quality_p_value=1	log10_base_likelihood=-7.20104	log10_qual_likelihood_position_model=25.9942	log10_strand_likelihood_position_model=9.81313	new_cov=0/23	polymorphism_quality=1.7	quality=1.7	quality_position_model=Inf	ref_cov=128/65	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=128/88
RA	712	.	NC_007779	4615146	0	T	G	bias_e_value=0.999625	bias_p_value=2.15143e-07	fisher_strand_p_value=1.11509e-08	frequency=5.598688e-02	genotype_quality=447.2	ks_quality_p_value=0.999019	log10_base_likelihood=-13.2391	log10_qual_likelihood_position_model=7.32508	log10_strand_likelihood_position_model=7.95269	new_cov=7/0	polymorphism_quality=7.9	quality=7.9	quality_position_model=Inf	ref_cov=5/111	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=12/111
RA	713	.	NC_007779	4636470	0	C	G	bias_e_value=9.57832e-10	bias_p_value=2.06148e-16	fisher_strand_p_value=5.04927e-18	frequency=1.687608e-01	genotype_quality=504.6	ks_quality_p_value=1	log10_base_likelihood=-35.8979	log10_qual_likelihood_position_model=23.7242	log10_strand_likelihood_position_model=17.2968	new_cov=28/0	polymorphism_quality=30.7	quality=30.7	quality_position_model=Inf	ref_cov=21/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE,SURROUNDING_HOMOPOLYMER	tot_cov=49/108
RA	714	.	NC_007779	4636473	0	A	G	bias_e_value=2.91994	bias_p_value=6.28439e-07	fisher_strand_p_value=3.45669e-08	frequency=6.076622e-02	genotype_quality=475.0	ks_quality_p_value=1	log10_base_likelihood=-7.68272	log10_qual_likelihood_position_model=12.8965	log10_strand_likelihood_position_model=7.46134	new_cov=9/0	polymorphism_quality=2.2	quality=2.2	quality_position_model=Inf	ref_cov=14/108	reject=POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=23/108
RA	715	.	NC_007779	4640524	0	C	A	bias_e_value=56.7928	bias_p_value=1.22231e-05	fisher_strand_p_value=8.137e-07	frequency=5.612183e-02	genotype_quality=712.4	ks_quality_p_value=1	log10_base_likelihood=-7.04684	log10_qual_likelihood_position_model=18.1993	log10_strand_likelihood_position_model=6.25403	new_cov=20/0	polymorphism_quality=1.5	quality=1.5	quality_position_model=Inf	ref_cov=95/111	reject=EVALUE,POLYMORPHISM_STRAND,FISHER_STRAND_P_VALUE	tot_cov=117/111
RA	716	.	NC_007779	4642414	1	.	A	bias_e_value=2380980	bias_p_value=0.512442	fisher_strand_p_value=0.498135	frequency=9.756088e-03	genotype_quality=984.1	ks_quality_p_value=0.389822	log10_base_likelihood=-8.35796	log10_qual_likelihood_position_model=1.96817	log10_strand_likelihood_position_model=0.574889	new_cov=0/2	polymorphism_quality=2.9	quality=2.9	quality_position_model=9.90841e-08	ref_cov=99/104	reject=POLYMORPHISM_STRAND,INDEL_HOMOPOLYMER	tot_cov=99/106
MC	717	.	NC_007779	274733	371972	0	0	left_inside_cov=0	left_outside_cov=213	right_inside_cov=1	right_outside_cov=214
MC	718	.	NC_007779	1288313	1288505	62	46	left_inside_cov=158	left_outside_cov=162	right_inside_cov=158	right_outside_cov=163
MC	719	.	NC_007779	1413639	1436698	0	0	left_inside_cov=0	left_outside_cov=285	right_inside_cov=3	right_outside_cov=285
MC	720	.	NC_007779	2176983	2178208	0	0	left_inside_cov=0	left_outside_cov=249	right_inside_cov=0	right_outside_cov=199
MC	721	.	NC_007779	2320795	2322130	1328	0	left_inside_cov=0	left_outside_cov=225	right_inside_cov=0	right_outside_cov=225
MC	722	.	NC_007779	3128824	3147473	1178	0	left_inside_cov=158	left_outside_cov=162	right_inside_cov=0	right_outside_cov=214
MC	723	.	NC_007779	3261134	3262337	1198	0	left_inside_cov=0	left_outside_cov=220	right_inside_cov=0	right_outside_cov=239
MC	724	.	NC_007779	3742936	3744271	1326	0	left_inside_cov=0	left_outside_cov=259	right_inside_cov=1	right_outside_cov=260
MC	725	.	NC_007779	3958123	3958156	0	0	left_inside_cov=0	left_outside_cov=251	right_inside_cov=0	right_outside_cov=251
JC	726	.	NC_007779	1	1	NC_007779	4646332	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=98	coverage_plus=90	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=93	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=47	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=0.90	new_junction_frequency=1.000000e+00	new_junction_read_count=189	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=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=188
JC	727	.	NC_007779	274732	-1	NC_007779	371973	1	0	alignment_overlap=8	coverage_minus=85	coverage_plus=88	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=80	key=NC_007779__274732__-1__NC_007779__371965__1__8____101__101__0__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=45	max_min_left_minus=45	max_min_left_plus=45	max_min_right=46	max_min_right_minus=46	max_min_right_plus=46	max_pos_hash_score=160	max_right=87	max_right_minus=86	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.91	new_junction_frequency=1.000000e+00	new_junction_read_count=171	pos_hash_score=108	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=2	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=80	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=173
JC	728	.	NC_007779	289856	1	NC_007779	2176982	-1	-33	alignment_overlap=-33	coverage_minus=66	coverage_plus=79	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=33	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=1.08	new_junction_frequency=1.000000e+00	new_junction_read_count=145	pos_hash_score=80	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=145	unique_read_sequence=CTATTGCAATACCGCATTGTGAGGCGATTCATG
JC	729	.	NC_007779	380484	1	NC_007779	381407	-1	0	alignment_overlap=0	coverage_minus=101	coverage_plus=65	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=90	key=NC_007779__380484__1__NC_007779__381407__-1__0____101__101__1__1	max_left=90	max_left_minus=90	max_left_plus=88	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=47	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.79	new_junction_frequency=NA	new_junction_read_count=166	pos_hash_score=106	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=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=166
JC	730	.	NC_007779	381401	1	NC_007779	381812	-1	0	alignment_overlap=2	coverage_minus=101	coverage_plus=100	flanking_left=101	flanking_right=101	frequency=NA	junction_possible_overlap_registers=88	key=NC_007779__381401__1__NC_007779__381814__-1__2____101__101__1__1	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=176	max_right=93	max_right_minus=92	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.98	new_junction_frequency=NA	new_junction_read_count=202	pos_hash_score=113	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=201
JC	731	.	NC_007779	608570	-1	NC_007779	1305025	1	0	alignment_overlap=3	coverage_minus=86	coverage_plus=117	flanking_left=101	flanking_right=101	frequency=9.813084e-01	junction_possible_overlap_registers=87	key=NC_007779__608573__-1__NC_007779__1305025__1__3____101__101__1__0	max_left=92	max_left_minus=92	max_left_plus=91	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=49	max_min_right_minus=48	max_min_right_plus=49	max_pos_hash_score=174	max_right=92	max_right_minus=92	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.99	new_junction_frequency=9.813084e-01	new_junction_read_count=203	pos_hash_score=114	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.02	side_2_overlap=3	side_2_possible_overlap_registers=90	side_2_read_count=4	side_2_redundant=0	total_non_overlap_reads=203
JC	732	.	NC_007779	654213	-1	NC_007779	655413	1	0	alignment_overlap=5	coverage_minus=107	coverage_plus=96	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=85	key=NC_007779__654213__-1__NC_007779__655408__1__5____101__101__0__0	max_left=90	max_left_minus=90	max_left_plus=90	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=48	max_min_right_minus=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=1.02	new_junction_frequency=1.000000e+00	new_junction_read_count=204	pos_hash_score=119	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=203
JC	733	.	NC_007779	655412	-1	NC_007779	1980096	1	0	alignment_overlap=2	coverage_minus=50	coverage_plus=98	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=85	key=NC_007779__655412__-1__NC_007779__1980094__1__2____101__101__0__0	max_left=93	max_left_minus=75	max_left_plus=93	max_min_left=49	max_min_left_minus=42	max_min_left_plus=49	max_min_right=49	max_min_right_minus=39	max_min_right_plus=49	max_pos_hash_score=170	max_right=93	max_right_minus=92	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.73	new_junction_frequency=1.000000e+00	new_junction_read_count=146	pos_hash_score=83	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=3	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=148
JC	734	.	NC_007779	1209367	1	NC_007779	1211196	1	0	alignment_overlap=16	coverage_minus=25	coverage_plus=31	flanking_left=101	flanking_right=101	frequency=3.337969e-01	junction_possible_overlap_registers=74	key=NC_007779__1209367__1__NC_007779__1211180__1__16____101__101__0__0	max_left=74	max_left_minus=72	max_left_plus=74	max_min_left=41	max_min_left_minus=41	max_min_left_plus=41	max_min_right=41	max_min_right_minus=37	max_min_right_plus=41	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=0.32	new_junction_frequency=3.337969e-01	new_junction_read_count=56	pos_hash_score=45	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.63	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=132	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=115	side_2_redundant=0	total_non_overlap_reads=56
JC	735	.	NC_007779	1209382	-1	NC_007779	1211179	-1	0	alignment_overlap=16	coverage_minus=30	coverage_plus=20	flanking_left=101	flanking_right=101	frequency=3.138732e-01	junction_possible_overlap_registers=74	key=NC_007779__1209382__-1__NC_007779__1211195__-1__16____101__101__0__0	max_left=79	max_left_minus=79	max_left_plus=79	max_min_left=42	max_min_left_minus=42	max_min_left_plus=42	max_min_right=42	max_min_right_minus=42	max_min_right_plus=42	max_pos_hash_score=148	max_right=78	max_right_minus=78	max_right_plus=73	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.29	new_junction_frequency=3.138732e-01	new_junction_read_count=50	pos_hash_score=38	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.60	side_1_overlap=16	side_1_possible_overlap_registers=90	side_1_read_count=126	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=115	side_2_redundant=0	total_non_overlap_reads=50
JC	736	.	NC_007779	1221489	1	NC_007779	1301041	1	0	alignment_overlap=2	coverage_minus=86	coverage_plus=107	flanking_left=101	flanking_right=101	frequency=9.752948e-01	junction_possible_overlap_registers=88	key=NC_007779__1221489__1__NC_007779__1301039__1__2____101__101__0__1	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=176	max_right=88	max_right_minus=87	max_right_plus=88	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.94	new_junction_frequency=9.752948e-01	new_junction_read_count=193	pos_hash_score=109	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=5	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=193
JC	737	.	NC_007779	1221495	-1	NC_007779	1302369	-1	0	alignment_overlap=0	coverage_minus=121	coverage_plus=95	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=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=1.02	new_junction_frequency=1.000000e+00	new_junction_read_count=216	pos_hash_score=134	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=216
JC	738	.	NC_007779	1301040	-1	NC_007779	1302377	1	0	alignment_overlap=7	coverage_minus=101	coverage_plus=66	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=87	max_min_left=46	max_min_left_minus=46	max_min_left_plus=44	max_min_right=47	max_min_right_minus=47	max_min_right_plus=45	max_pos_hash_score=166	max_right=88	max_right_minus=88	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.86	new_junction_frequency=1.000000e+00	new_junction_read_count=167	pos_hash_score=107	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=167
JC	739	.	NC_007779	1305037	-1	NC_007779	2519723	1	0	alignment_overlap=4	coverage_minus=100	coverage_plus=93	flanking_left=101	flanking_right=101	frequency=9.624618e-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=91	max_min_left=48	max_min_left_minus=48	max_min_left_plus=48	max_min_right=47	max_min_right_minus=47	max_min_right_plus=46	max_pos_hash_score=172	max_right=90	max_right_minus=90	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.97	new_junction_frequency=9.624618e-01	new_junction_read_count=196	pos_hash_score=113	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.04	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=8	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=193
JC	740	.	NC_007779	1397758	1	NC_007779	1672777	1	0	alignment_overlap=0	coverage_minus=91	coverage_plus=88	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__1397758__1__NC_007779__1672777__1__0____101__101__1__0	max_left=87	max_left_minus=85	max_left_plus=87	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.85	new_junction_frequency=1.000000e+00	new_junction_read_count=179	pos_hash_score=107	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
JC	741	.	NC_007779	1413638	-1	NC_007779	1436699	1	0	alignment_overlap=26	coverage_minus=103	coverage_plus=84	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=64	key=NC_007779__1413638__-1__NC_007779__1436673__1__26____101__101__0__0	max_left=69	max_left_minus=69	max_left_plus=68	max_min_left=37	max_min_left_minus=37	max_min_left_plus=36	max_min_right=37	max_min_right_minus=37	max_min_right_plus=36	max_pos_hash_score=128	max_right=68	max_right_minus=67	max_right_plus=68	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.25	new_junction_frequency=1.000000e+00	new_junction_read_count=188	pos_hash_score=90	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=187
JC	742	.	NC_007779	1672780	-1	NC_007779	1980209	1	0	alignment_overlap=0	coverage_minus=111	coverage_plus=101	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=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=213	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=212
JC	743	.	NC_007779	1907280	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=119	coverage_plus=103	flanking_left=101	flanking_right=101	frequency=9.446809e-01	junction_possible_overlap_registers=90	key=NC_007779__1907280__1__NC_007779__2412225__-1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=9.446809e-01	new_junction_read_count=222	pos_hash_score=124	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=13	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=222
JC	744	.	NC_007779	1907288	-1	NC_007779	2411458	1	0	alignment_overlap=0	coverage_minus=107	coverage_plus=111	flanking_left=101	flanking_right=101	frequency=9.732143e-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=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.03	new_junction_frequency=9.732143e-01	new_junction_read_count=218	pos_hash_score=127	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=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=218
JC	745	.	NC_007779	1980095	-1	NC_007779	2176984	1	0	alignment_overlap=1	coverage_minus=93	coverage_plus=102	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=93	max_left_minus=93	max_left_plus=89	max_min_left=49	max_min_left_minus=49	max_min_left_plus=48	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=178	max_right=92	max_right_minus=92	max_right_plus=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.94	new_junction_frequency=1.000000e+00	new_junction_read_count=197	pos_hash_score=118	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=195
JC	746	.	NC_007779	2178209	1	NC_007779	2412225	-1	0	alignment_overlap=0	coverage_minus=88	coverage_plus=94	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=48	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=88	max_right_minus=88	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.86	new_junction_frequency=1.000000e+00	new_junction_read_count=182	pos_hash_score=112	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=182
JC	747	.	NC_007779	2320794	-1	NC_007779	2322131	1	0	alignment_overlap=6	coverage_minus=85	coverage_plus=106	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=84	key=NC_007779__2320794__-1__NC_007779__2322125__1__6____101__101__0__0	max_left=89	max_left_minus=89	max_left_plus=89	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=168	max_right=89	max_right_minus=89	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.97	new_junction_frequency=1.000000e+00	new_junction_read_count=192	pos_hash_score=116	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=191
JC	748	.	NC_007779	2320794	1	NC_007779	2589834	-1	0	alignment_overlap=0	coverage_minus=66	coverage_plus=90	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__2320794__1__NC_007779__2589834__-1__0____101__101__1__0	max_left=85	max_left_minus=83	max_left_plus=85	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=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=0.74	new_junction_frequency=1.000000e+00	new_junction_read_count=156	pos_hash_score=102	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=156
JC	749	.	NC_007779	2322124	-1	NC_007779	2589830	1	0	alignment_overlap=0	coverage_minus=115	coverage_plus=86	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=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.96	new_junction_frequency=1.000000e+00	new_junction_read_count=202	pos_hash_score=120	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=201
JC	750	.	NC_007779	2411458	1	NC_007779	2985055	-1	0	alignment_overlap=0	coverage_minus=108	coverage_plus=109	flanking_left=101	flanking_right=101	frequency=9.819005e-01	junction_possible_overlap_registers=90	key=NC_007779__2411458__1__NC_007779__2985055__-1__0____101__101__1__0	max_left=95	max_left_minus=95	max_left_plus=94	max_min_left=50	max_min_left_minus=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=1.03	new_junction_frequency=9.819005e-01	new_junction_read_count=217	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=0.02	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=4	side_2_redundant=0	total_non_overlap_reads=217
JC	751	.	NC_007779	2412225	-1	NC_007779	2985047	1	0	alignment_overlap=0	coverage_minus=86	coverage_plus=82	flanking_left=101	flanking_right=101	frequency=9.385475e-01	junction_possible_overlap_registers=90	key=NC_007779__2412225__-1__NC_007779__2985047__1__0____101__101__1__0	max_left=88	max_left_minus=88	max_left_plus=88	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.80	new_junction_frequency=9.385475e-01	new_junction_read_count=168	pos_hash_score=104	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=168
JC	752	.	NC_007779	2865229	1	NC_007779	2865274	-1	0	alignment_overlap=4	coverage_minus=98	coverage_plus=96	flanking_left=101	flanking_right=101	frequency=6.489018e-01	junction_possible_overlap_registers=86	key=NC_007779__2865229__1__NC_007779__2865278__-1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=91	max_min_left=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=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.96	new_junction_frequency=6.489018e-01	new_junction_read_count=194	pos_hash_score=113	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=114	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.50	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=101	side_2_redundant=0	total_non_overlap_reads=194
JC	753	.	NC_007779	3147474	1	NC_007779	3262328	-1	0	alignment_overlap=0	coverage_minus=87	coverage_plus=108	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=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=47	max_min_right_plus=50	max_pos_hash_score=180	max_right=87	max_right_minus=84	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.93	new_junction_frequency=1.000000e+00	new_junction_read_count=196	pos_hash_score=103	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=195
JC	754	.	NC_007779	3186081	-1	NC_007779	3512753	1	0	alignment_overlap=1	coverage_minus=125	coverage_plus=95	flanking_left=101	flanking_right=101	frequency=9.955252e-01	junction_possible_overlap_registers=89	key=NC_007779__3186082__-1__NC_007779__3512753__1__1____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.05	new_junction_frequency=9.955252e-01	new_junction_read_count=220	pos_hash_score=123	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=220
JC	755	.	NC_007779	3261133	-1	NC_007779	3748109	-1	-6	alignment_overlap=-6	coverage_minus=105	coverage_plus=92	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=88	max_left_minus=88	max_left_plus=87	max_min_left=47	max_min_left_minus=47	max_min_left_plus=47	max_min_right=48	max_min_right_minus=47	max_min_right_plus=48	max_pos_hash_score=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=198	pos_hash_score=117	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=197	unique_read_sequence=CTTTGC
JC	756	.	NC_007779	3261134	1	NC_007779	3265774	1	0	alignment_overlap=0	coverage_minus=91	coverage_plus=83	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3261134__1__NC_007779__3265774__1__0____101__101__1__0	max_left=85	max_left_minus=85	max_left_plus=85	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.82	new_junction_frequency=1.000000e+00	new_junction_read_count=174	pos_hash_score=97	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=174
JC	757	.	NC_007779	3261135	1	NC_007779	3262338	1	0	alignment_overlap=1	coverage_minus=92	coverage_plus=100	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=89	key=NC_007779__3261134__1__NC_007779__3262338__1__1____101__101__1__0	max_left=94	max_left_minus=92	max_left_plus=94	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=1.000000e+00	new_junction_read_count=192	pos_hash_score=113	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=192
JC	758	.	NC_007779	3265777	-1	NC_007779	3365411	1	0	alignment_overlap=0	coverage_minus=156	coverage_plus=114	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3265777__-1__NC_007779__3365411__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=94	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.28	new_junction_frequency=1.000000e+00	new_junction_read_count=271	pos_hash_score=136	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=270
JC	759	.	NC_007779	3456006	-1	NC_007779	3456010	1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=1	flanking_left=101	flanking_right=101	frequency=1.136976e-01	junction_possible_overlap_registers=90	key=NC_007779__3456006__-1__NC_007779__3456010__1__0____101__101__0__0	max_left=72	max_left_minus=72	max_left_plus=25	max_min_left=25	max_min_left_minus=20	max_min_left_plus=25	max_min_right=29	max_min_right_minus=29	max_min_right_plus=0	max_pos_hash_score=160	max_right=81	max_right_minus=81	max_right_plus=76	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.14	new_junction_frequency=1.136976e-01	new_junction_read_count=29	pos_hash_score=3	side_1_annotate_key=gene	side_1_continuation=10	side_1_coverage=1.07	side_1_overlap=0	side_1_possible_overlap_registers=80	side_1_read_count=201	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.07	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=226	side_2_redundant=0	total_non_overlap_reads=3
JC	760	.	NC_007779	3512759	-1	NC_007779	3744262	-1	0	alignment_overlap=1	coverage_minus=82	coverage_plus=110	flanking_left=101	flanking_right=101	frequency=9.798140e-01	junction_possible_overlap_registers=89	key=NC_007779__3512759__-1__NC_007779__3744263__-1__1____101__101__0__1	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=49	max_min_left_minus=48	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=49	max_pos_hash_score=178	max_right=84	max_right_minus=84	max_right_plus=84	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=9.798140e-01	new_junction_read_count=192	pos_hash_score=98	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=4	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=192
JC	761	.	NC_007779	3742935	-1	NC_007779	3744272	1	0	alignment_overlap=8	coverage_minus=117	coverage_plus=89	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=82	key=NC_007779__3742935__-1__NC_007779__3744264__1__8____101__101__0__0	max_left=87	max_left_minus=86	max_left_plus=87	max_min_left=46	max_min_left_minus=46	max_min_left_plus=46	max_min_right=46	max_min_right_minus=46	max_min_right_plus=45	max_pos_hash_score=164	max_right=87	max_right_minus=87	max_right_plus=87	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.08	new_junction_frequency=1.000000e+00	new_junction_read_count=207	pos_hash_score=116	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=206
JC	762	.	NC_007779	3744263	-1	NC_007779	3903274	1	0	alignment_overlap=0	coverage_minus=94	coverage_plus=93	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=92	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=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=94	max_right_minus=94	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.89	new_junction_frequency=1.000000e+00	new_junction_read_count=187	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=187
JC	763	.	NC_007779	3746910	-1	NC_007779	3748110	1	0	alignment_overlap=4	coverage_minus=111	coverage_plus=103	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3746910__-1__NC_007779__3748106__1__4____101__101__0__0	max_left=91	max_left_minus=91	max_left_plus=91	max_min_left=48	max_min_left_minus=46	max_min_left_plus=48	max_min_right=47	max_min_right_minus=47	max_min_right_plus=46	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=89	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.07	new_junction_frequency=1.000000e+00	new_junction_read_count=215	pos_hash_score=118	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=214
JC	764	.	NC_007779	3746911	1	NC_007779	3748646	-1	0	alignment_overlap=0	coverage_minus=121	coverage_plus=109	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3746911__1__NC_007779__3748646__-1__0____101__101__1__0	max_left=92	max_left_minus=92	max_left_plus=92	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=48	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=94	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.18	new_junction_frequency=1.000000e+00	new_junction_read_count=250	pos_hash_score=123	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=230
JC	765	.	NC_007779	3748105	-1	NC_007779	3748643	1	0	alignment_overlap=0	coverage_minus=127	coverage_plus=135	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=47	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=1.25	new_junction_frequency=1.000000e+00	new_junction_read_count=264	pos_hash_score=131	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=262
JC	766	.	NC_007779	3750590	-1	NC_007779	3751790	1	0	alignment_overlap=4	coverage_minus=98	coverage_plus=112	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=86	key=NC_007779__3750590__-1__NC_007779__3751786__1__4____101__101__0__0	max_left=91	max_left_minus=90	max_left_plus=91	max_min_left=48	max_min_left_minus=47	max_min_left_plus=48	max_min_right=48	max_min_right_minus=48	max_min_right_plus=47	max_pos_hash_score=172	max_right=91	max_right_minus=91	max_right_plus=91	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=210	pos_hash_score=117	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=90	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=86	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=210
JC	767	.	NC_007779	3903279	-1	NC_007779	4504190	-1	0	alignment_overlap=1	coverage_minus=101	coverage_plus=89	flanking_left=101	flanking_right=101	frequency=9.748942e-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=48	max_min_left_minus=48	max_min_left_plus=48	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=92	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=9.748942e-01	new_junction_read_count=192	pos_hash_score=114	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=1	side_1_possible_overlap_registers=90	side_1_read_count=5	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=190
JC	768	.	NC_007779	3958122	-1	NC_007779	3958157	1	0	alignment_overlap=2	coverage_minus=117	coverage_plus=110	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=92	max_left_plus=93	max_min_left=49	max_min_left_minus=49	max_min_left_plus=46	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=90	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.10	new_junction_frequency=1.000000e+00	new_junction_read_count=227	pos_hash_score=115	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=227
JC	769	.	NC_007779	3987186	1	NC_007779	4009203	-1	0	alignment_overlap=1	coverage_minus=94	coverage_plus=97	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=91	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=178	max_right=94	max_right_minus=94	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.92	new_junction_frequency=1.000000e+00	new_junction_read_count=191	pos_hash_score=115	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=1	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=191
JC	770	.	NC_007779	3988379	-1	NC_007779	4009199	1	0	alignment_overlap=0	coverage_minus=109	coverage_plus=105	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__3988379__-1__NC_007779__4009199__1__0____101__101__1__0	max_left=86	max_left_minus=86	max_left_plus=86	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=94	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.01	new_junction_frequency=1.000000e+00	new_junction_read_count=214	pos_hash_score=116	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=214
JC	771	.	NC_007779	4310362	-1	NC_007779	4311562	1	0	alignment_overlap=4	coverage_minus=113	coverage_plus=97	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=89	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=1.04	new_junction_frequency=1.000000e+00	new_junction_read_count=210	pos_hash_score=116	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=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=210
JC	772	.	NC_007779	4310363	1	NC_007779	4353540	1	0	alignment_overlap=0	coverage_minus=105	coverage_plus=107	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4310363__1__NC_007779__4353540__1__0____101__101__1__0	max_left=94	max_left_minus=94	max_left_plus=94	max_min_left=50	max_min_left_minus=49	max_min_left_plus=50	max_min_right=50	max_min_right_minus=49	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=92	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.02	new_junction_frequency=1.000000e+00	new_junction_read_count=216	pos_hash_score=130	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=212
JC	773	.	NC_007779	4311557	-1	NC_007779	4353543	-1	0	alignment_overlap=0	coverage_minus=105	coverage_plus=141	flanking_left=101	flanking_right=101	frequency=9.960938e-01	junction_possible_overlap_registers=90	key=NC_007779__4311557__-1__NC_007779__4353543__-1__0____101__101__1__0	max_left=93	max_left_minus=93	max_left_plus=93	max_min_left=50	max_min_left_minus=50	max_min_left_plus=50	max_min_right=50	max_min_right_minus=50	max_min_right_plus=50	max_pos_hash_score=180	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=NT	new_junction_coverage=1.21	new_junction_frequency=9.960938e-01	new_junction_read_count=255	pos_hash_score=131	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=90	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=246
JC	774	.	NC_007779	4355060	1	NC_007779	4502861	1	0	alignment_overlap=0	coverage_minus=98	coverage_plus=142	flanking_left=101	flanking_right=101	frequency=1.000000e+00	junction_possible_overlap_registers=90	key=NC_007779__4355060__1__NC_007779__4502861__1__0____101__101__0__1	max_left=95	max_left_minus=95	max_left_plus=95	max_min_left=50	max_min_left_minus=50	max_min_left_plus=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=1.15	new_junction_frequency=1.000000e+00	new_junction_read_count=242	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=240
JC	775	.	NC_007779	4355066	-1	NC_007779	4504189	-1	0	alignment_overlap=2	coverage_minus=89	coverage_plus=98	flanking_left=101	flanking_right=101	frequency=9.795134e-01	junction_possible_overlap_registers=88	key=NC_007779__4355066__-1__NC_007779__4504191__-1__2____101__101__0__1	max_left=92	max_left_minus=92	max_left_plus=91	max_min_left=49	max_min_left_minus=49	max_min_left_plus=49	max_min_right=49	max_min_right_minus=49	max_min_right_plus=48	max_pos_hash_score=176	max_right=93	max_right_minus=93	max_right_plus=93	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.91	new_junction_frequency=9.795134e-01	new_junction_read_count=187	pos_hash_score=111	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=2	side_1_possible_overlap_registers=90	side_1_read_count=4	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=187
JC	776	.	NC_007779	4547362	1	NC_007779	4547676	1	0	alignment_overlap=9	coverage_minus=18	coverage_plus=8	flanking_left=101	flanking_right=101	frequency=1.625000e-01	junction_possible_overlap_registers=81	key=NC_007779__4547362__1__NC_007779__4547667__1__9____101__101__0__0	max_left=85	max_left_minus=85	max_left_plus=55	max_min_left=43	max_min_left_minus=43	max_min_left_plus=41	max_min_right=44	max_min_right_minus=44	max_min_right_plus=43	max_pos_hash_score=162	max_right=86	max_right_minus=83	max_right_plus=86	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.14	new_junction_frequency=1.625000e-01	new_junction_read_count=26	pos_hash_score=26	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.57	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=120	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.84	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=160	side_2_redundant=0	total_non_overlap_reads=26
JC	777	.	NC_007779	4547370	-1	NC_007779	4547666	-1	0	alignment_overlap=9	coverage_minus=12	coverage_plus=20	flanking_left=101	flanking_right=101	frequency=1.986755e-01	junction_possible_overlap_registers=81	key=NC_007779__4547370__-1__NC_007779__4547675__-1__9____101__101__0__0	max_left=86	max_left_minus=86	max_left_plus=83	max_min_left=43	max_min_left_minus=27	max_min_left_plus=43	max_min_right=46	max_min_right_minus=27	max_min_right_plus=46	max_pos_hash_score=162	max_right=86	max_right_minus=86	max_right_plus=85	neg_log10_pos_hash_p_value=NT	new_junction_coverage=0.17	new_junction_frequency=1.986755e-01	new_junction_read_count=33	pos_hash_score=28	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.56	side_1_overlap=9	side_1_possible_overlap_registers=90	side_1_read_count=118	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.84	side_2_overlap=0	side_2_possible_overlap_registers=81	side_2_read_count=160	side_2_redundant=0	total_non_overlap_reads=32
UN	778	.	NC_007779	15485	16634
UN	779	.	NC_007779	19892	20466
UN	780	.	NC_007779	223637	223643
UN	781	.	NC_007779	223838	224675
UN	782	.	NC_007779	224987	225489
UN	783	.	NC_007779	225834	225923
UN	784	.	NC_007779	226121	226202
UN	785	.	NC_007779	226399	226506
UN	786	.	NC_007779	226701	226871
UN	787	.	NC_007779	227085	228591
UN	788	.	NC_007779	228787	228911
UN	789	.	NC_007779	269859	270420
UN	790	.	NC_007779	270705	270712
UN	791	.	NC_007779	273277	274279
UN	792	.	NC_007779	274733	371972
UN	793	.	NC_007779	380576	381719
UN	794	.	NC_007779	391029	392101
UN	795	.	NC_007779	525194	525848
UN	796	.	NC_007779	566089	567161
UN	797	.	NC_007779	573905	574920
UN	798	.	NC_007779	580439	580490
UN	799	.	NC_007779	607325	608477
UN	800	.	NC_007779	654214	655313
UN	801	.	NC_007779	688366	689375
UN	802	.	NC_007779	730321	730466
UN	803	.	NC_007779	730827	730860
UN	804	.	NC_007779	732510	732614
UN	805	.	NC_007779	733123	733153
UN	806	.	NC_007779	734994	735022
UN	807	.	NC_007779	1050345	1050399
UN	808	.	NC_007779	1050560	1050736
UN	809	.	NC_007779	1094763	1095829
UN	810	.	NC_007779	1105713	1106860
UN	811	.	NC_007779	1270766	1270800
UN	812	.	NC_007779	1271838	1271869
UN	813	.	NC_007779	1288372	1288460
UN	814	.	NC_007779	1301041	1302376
UN	815	.	NC_007779	1397851	1398861
UN	816	.	NC_007779	1413639	1436698
UN	817	.	NC_007779	1469721	1470864
UN	818	.	NC_007779	1471104	1472133
UN	819	.	NC_007779	1530138	1530792
UN	820	.	NC_007779	1533979	1534024
UN	821	.	NC_007779	1572480	1572486
UN	822	.	NC_007779	1572677	1572963
UN	823	.	NC_007779	1573217	1573420
UN	824	.	NC_007779	1634761	1634840
UN	825	.	NC_007779	1635028	1635244
UN	826	.	NC_007779	1635440	1635541
UN	827	.	NC_007779	1635910	1636255
UN	828	.	NC_007779	1636450	1636639
UN	829	.	NC_007779	1637648	1637699
UN	830	.	NC_007779	1652653	1653166
UN	831	.	NC_007779	1980303	1981310
UN	832	.	NC_007779	2068409	2068504
UN	833	.	NC_007779	2068700	2068747
UN	834	.	NC_007779	2068961	2069339
UN	835	.	NC_007779	2071174	2072318
UN	836	.	NC_007779	2103980	2104988
UN	837	.	NC_007779	2172403	2173469
UN	838	.	NC_007779	2176983	2178208
UN	839	.	NC_007779	2292347	2293349
UN	840	.	NC_007779	2308004	2308023
UN	841	.	NC_007779	2308231	2308249
UN	842	.	NC_007779	2320795	2322130
UN	843	.	NC_007779	2411554	2412127
UN	844	.	NC_007779	2519817	2520967
UN	845	.	NC_007779	2724814	2727806
UN	846	.	NC_007779	2728091	2728121
UN	847	.	NC_007779	2728321	2729507
UN	848	.	NC_007779	2729833	2729931
UN	849	.	NC_007779	2758645	2758648
UN	850	.	NC_007779	2995113	2996257
UN	851	.	NC_007779	3128892	3147473
UN	852	.	NC_007779	3184842	3185986
UN	853	.	NC_007779	3261134	3262337
UN	854	.	NC_007779	3365504	3366515
UN	855	.	NC_007779	3423614	3424411
UN	856	.	NC_007779	3424606	3426562
UN	857	.	NC_007779	3426758	3426848
UN	858	.	NC_007779	3427044	3428592
UN	859	.	NC_007779	3459669	3460042
UN	860	.	NC_007779	3460237	3460348
UN	861	.	NC_007779	3465131	3468011
UN	862	.	NC_007779	3468300	3468330
UN	863	.	NC_007779	3468559	3470289
UN	864	.	NC_007779	3596172	3597193
UN	865	.	NC_007779	3597394	3597855
UN	866	.	NC_007779	3598088	3598750
UN	867	.	NC_007779	3598944	3599186
UN	868	.	NC_007779	3599296	3599491
UN	869	.	NC_007779	3599687	3600850
UN	870	.	NC_007779	3601046	3601421
UN	871	.	NC_007779	3689826	3689895
UN	872	.	NC_007779	3690160	3690355
UN	873	.	NC_007779	3690552	3690669
UN	874	.	NC_007779	3690874	3691014
UN	875	.	NC_007779	3691208	3692523
UN	876	.	NC_007779	3692789	3693187
UN	877	.	NC_007779	3693383	3694550
UN	878	.	NC_007779	3694746	3694931
UN	879	.	NC_007779	3742936	3744271
UN	880	.	NC_007779	3746911	3748109
UN	881	.	NC_007779	3750591	3751789
UN	882	.	NC_007779	3874863	3874904
UN	883	.	NC_007779	3875223	3876242
UN	884	.	NC_007779	3876438	3878055
UN	885	.	NC_007779	3958123	3958156
UN	886	.	NC_007779	3973174	3973378
UN	887	.	NC_007779	3973628	3973913
UN	888	.	NC_007779	3974108	3974116
UN	889	.	NC_007779	3987275	3988288
UN	890	.	NC_007779	4015543	4015587
UN	891	.	NC_007779	4017854	4017900
UN	892	.	NC_007779	4018214	4019232
UN	893	.	NC_007779	4019428	4021046
UN	894	.	NC_007779	4056314	4056891
UN	895	.	NC_007779	4169476	4169587
UN	896	.	NC_007779	4169778	4170155
UN	897	.	NC_007779	4211518	4211762
UN	898	.	NC_007779	4211960	4213506
UN	899	.	NC_007779	4213667	4215791
UN	900	.	NC_007779	4215987	4216660
UN	901	.	NC_007779	4299523	4299551
UN	902	.	NC_007779	4299747	4299777
UN	903	.	NC_007779	4310363	4311561
UN	904	.	NC_007779	4502953	4504095
UN	905	.	NC_007779	4512230	4513265