#=GENOME_DIFF	1.0
#=TITLE	D17
#=CREATED	15:51:36 03 Mar 2017
#=PROGRAM	breseq 0.29.0 
#=COMMAND	breseq -j 2 -r /var/genomes/g2d_mirror/Staphylococcus_aureus_subsp_aureus_USA300_FPR3757/ASM1346v1_genomic.gbff -n D17 -o /var/www/ngs/solomon/breseq/D17 --no-junction-prediction /var/ngs/rnaseq/raw/solomon/RNAseq_USA300_Eleni/OtA1584_D17A0.5_R1_.fastq
#=REFSEQ	/var/genomes/g2d_mirror/Staphylococcus_aureus_subsp_aureus_USA300_FPR3757/ASM1346v1_genomic.gbff
#=READSEQ	/var/ngs/rnaseq/raw/solomon/RNAseq_USA300_Eleni/OtA1584_D17A0.5_R1_.fastq
#=CONVERTED-BASES	610268100
#=CONVERTED-READS	6102681
#=INPUT-BASES	610276900
#=INPUT-READS	6102769
#=MAPPED-BASES	464137784
#=MAPPED-READS	4682453
SNP	1	79	NC_007790	249	G
SNP	2	80	NC_007790	258	A
SNP	3	81	NC_007790	277	T
SNP	4	82	NC_007790	298	T
SNP	5	83	NC_007790	300	C
SNP	6	84	NC_007790	316	G
SUB	7	85,86	NC_007790	321	2	GT
SNP	8	87	NC_007790	327	A
SNP	9	88	NC_007790	336	G
SUB	10	89,90	NC_007790	339	2	TT
SNP	11	91	NC_007790	342	T
SNP	12	92	NC_007790	355	C
SNP	13	93	NC_007790	357	T
SNP	14	94	NC_007790	361	T
SNP	15	95	NC_007790	363	A
SNP	16	96	NC_007790	368	T
SUB	17	97,98	NC_007790	370	2	CG
SNP	18	103	NC_007790	528	A
SNP	19	104	NC_007790	531	T
SNP	20	105	NC_007790	537	C
SNP	21	106	NC_007790	546	G
SNP	22	107	NC_007790	561	G
SNP	23	108	NC_007790	648	C
SUB	24	109,110	NC_007790	650	2	TA
SNP	25	111	NC_007790	655	A
DEL	26	112,113,114,115	NC_007790	672	4
DEL	27	116	NC_007790	677	1
SNP	28	117	NC_007790	684	A
SNP	29	118	NC_007790	693	T
SUB	30	119,120	NC_007790	698	2	CG
SNP	31	121	NC_007790	702	T
SNP	32	124	NC_007790	717	A
SNP	33	125	NC_007790	729	C
SNP	34	126	NC_007790	744	C
SNP	35	129	NC_007790	759	C
SNP	36	131	NC_007790	781	T
SNP	37	132	NC_007790	790	C
SNP	38	134	NC_007790	837	A
SNP	39	135	NC_007790	844	G
SNP	40	136	NC_007790	849	G
SNP	41	137	NC_007790	875	C
SNP	42	138	NC_007790	898	A
SNP	43	139	NC_007790	918	G
SNP	44	140	NC_007790	945	G
SNP	45	141	NC_007790	951	A
SNP	46	142	NC_007790	1091	C
SUB	47	143,144,145,146	NC_007790	1114	4	GCGT
SNP	48	147	NC_007790	1122	C
SNP	49	148	NC_007790	1132	T
SUB	50	149,150	NC_007790	1152	2	TA
SNP	51	151	NC_007790	1164	T
SNP	52	152	NC_007790	1166	A
SNP	53	153	NC_007790	1171	G
SNP	54	154	NC_007790	1236	C
DEL	55	155	NC_007790	1266	1	repeat_length=1	repeat_new_copies=4	repeat_ref_copies=5	repeat_seq=T
SNP	56	156	NC_007790	1276	T
SNP	57	157	NC_007790	1278	T
SNP	58	158	NC_007790	1280	T
SNP	59	160	NC_007790	1303	G
SNP	60	168	NC_007790	1451	G
SNP	61	173	NC_007790	1468	A
INS	62	175	NC_007790	1477	T
SUB	63	176,177	NC_007790	1478	2	TA
SNP	64	179	NC_007790	1488	T
SNP	65	181	NC_007790	1510	T
SNP	66	182	NC_007790	1572	C
SNP	67	183	NC_007790	1588	G
SNP	68	184	NC_007790	1603	A
SNP	69	185	NC_007790	1671	T
SNP	70	186	NC_007790	1694	T
SNP	71	187	NC_007790	1744	T
SNP	72	188	NC_007790	1778	A
SNP	73	189	NC_007790	1871	A
SUB	74	190,191,192	NC_007790	1954	2	TGC
SNP	75	193	NC_007790	1967	G
DEL	76	197	NC_007791	1	4439
DEL	77	198	NC_007792	1	37136
DEL	78	199	NC_007793	1	2872769
RA	79	.	NC_007790	249	0	A	G	consensus_score=95.8	frequency=1	major_base=G	major_cov=35/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=35/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=35/0
RA	80	.	NC_007790	258	0	G	A	consensus_score=124.2	frequency=1	major_base=A	major_cov=43/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=43/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/0
RA	81	.	NC_007790	277	0	G	T	consensus_score=151.3	frequency=1	major_base=T	major_cov=52/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/0
RA	82	.	NC_007790	298	0	G	T	consensus_score=239.3	frequency=1	major_base=T	major_cov=78/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=78/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=78/1
RA	83	.	NC_007790	300	0	T	C	consensus_score=211.4	frequency=1	major_base=C	major_cov=78/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=78/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=78/1
RA	84	.	NC_007790	316	0	A	G	consensus_score=231.3	frequency=1	major_base=G	major_cov=79/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=79/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=79/1
RA	85	.	NC_007790	321	0	A	G	consensus_score=223.1	frequency=1	major_base=G	major_cov=79/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=79/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=79/1
RA	86	.	NC_007790	322	0	A	T	bias_e_value=1997560	bias_p_value=0.68469	consensus_score=226.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.320062	major_base=T	major_cov=78/1	major_frequency=9.875e-01	minor_base=C	minor_cov=1/0	new_cov=78/1	polymorphism_frequency=9.875e-01	polymorphism_score=-5.3	prediction=consensus	ref_cov=0/0	total_cov=79/1
RA	87	.	NC_007790	327	0	G	A	consensus_score=221.7	frequency=1	major_base=A	major_cov=79/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=79/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=79/1
RA	88	.	NC_007790	336	0	A	G	consensus_score=115.8	frequency=1	major_base=G	major_cov=44/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/1
RA	89	.	NC_007790	339	0	A	T	consensus_score=133.8	frequency=1	major_base=T	major_cov=44/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/1
RA	90	.	NC_007790	340	0	G	T	consensus_score=133.4	frequency=1	major_base=T	major_cov=44/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/1
RA	91	.	NC_007790	342	0	A	T	consensus_score=129.5	frequency=1	major_base=T	major_cov=44/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/1
RA	92	.	NC_007790	355	0	T	C	consensus_score=89.6	frequency=1	major_base=C	major_cov=33/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=33/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=33/1
RA	93	.	NC_007790	357	0	A	T	consensus_score=99.5	frequency=1	major_base=T	major_cov=33/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=33/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=33/1
RA	94	.	NC_007790	361	0	C	T	consensus_score=87.1	frequency=1	major_base=T	major_cov=29/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=29/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=29/1
RA	95	.	NC_007790	363	0	T	A	consensus_score=80.2	frequency=1	major_base=A	major_cov=29/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=29/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=29/1
RA	96	.	NC_007790	368	0	C	T	consensus_score=79.3	frequency=1	major_base=T	major_cov=27/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=27/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/1
RA	97	.	NC_007790	370	0	A	C	consensus_score=71.6	frequency=1	major_base=C	major_cov=27/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=27/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/1
RA	98	.	NC_007790	371	0	A	G	consensus_score=77.9	frequency=1	major_base=G	major_cov=27/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=27/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/1
RA	99	.	NC_007790	482	0	G	A	consensus_score=18.1	deleted=1	frequency=1	major_base=A	major_cov=6/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=6/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=6/2
RA	100	.	NC_007790	489	0	A	T	consensus_score=18.0	deleted=1	frequency=1	major_base=T	major_cov=6/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=6/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=6/2
RA	101	.	NC_007790	495	0	T	A	consensus_score=17.5	deleted=1	frequency=1	major_base=A	major_cov=6/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=6/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=6/2
RA	102	.	NC_007790	498	0	C	A	consensus_score=16.1	deleted=1	frequency=1	major_base=A	major_cov=6/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=6/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=6/2
RA	103	.	NC_007790	528	0	G	A	consensus_score=28.6	frequency=1	major_base=A	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	104	.	NC_007790	531	0	C	T	consensus_score=30.3	frequency=1	major_base=T	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	105	.	NC_007790	537	0	T	C	consensus_score=26.2	frequency=1	major_base=C	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	106	.	NC_007790	546	0	A	G	consensus_score=26.7	frequency=1	major_base=G	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	107	.	NC_007790	561	0	A	G	consensus_score=26.7	frequency=1	major_base=G	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	108	.	NC_007790	648	0	T	C	consensus_score=13.2	frequency=1	major_base=C	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	109	.	NC_007790	650	0	C	T	consensus_score=13.7	frequency=1	major_base=T	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	110	.	NC_007790	651	0	T	A	consensus_score=14.0	frequency=1	major_base=A	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	111	.	NC_007790	655	0	G	A	consensus_score=14.5	frequency=1	major_base=A	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	112	.	NC_007790	672	0	G	.	consensus_score=21.9	frequency=1	major_base=.	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	113	.	NC_007790	673	0	A	.	consensus_score=21.9	frequency=1	major_base=.	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	114	.	NC_007790	674	0	A	.	consensus_score=21.9	frequency=1	major_base=.	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	115	.	NC_007790	675	0	T	.	consensus_score=21.9	frequency=1	major_base=.	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	116	.	NC_007790	677	0	G	.	consensus_score=21.7	frequency=1	major_base=.	major_cov=7/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/0
RA	117	.	NC_007790	684	0	C	A	consensus_score=19.6	frequency=1	major_base=A	major_cov=9/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/0
RA	118	.	NC_007790	693	0	C	T	consensus_score=23.6	frequency=1	major_base=T	major_cov=9/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/1
RA	119	.	NC_007790	698	0	A	C	consensus_score=21.8	frequency=1	major_base=C	major_cov=9/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/1
RA	120	.	NC_007790	699	0	A	G	consensus_score=19.2	frequency=1	major_base=G	major_cov=9/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/1
RA	121	.	NC_007790	702	0	G	T	consensus_score=24.5	frequency=1	major_base=T	major_cov=9/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/1
RA	122	.	NC_007790	705	0	A	T	bias_e_value=2903820	bias_p_value=0.995321	consensus_score=-5.9	fisher_strand_p_value=1	frequency=5.000e-01	ks_quality_p_value=0.904837	major_base=T	major_cov=9/1	major_frequency=5.000e-01	minor_base=A	minor_cov=9/1	new_cov=9/1	polymorphism_frequency=5.000e-01	polymorphism_score=23.1	prediction=polymorphism	ref_cov=9/1	total_cov=18/2
RA	123	.	NC_007790	711	0	A	G	bias_e_value=1586350	bias_p_value=0.543741	consensus_score=66.3	fisher_strand_p_value=0.21387	frequency=6.984e-01	ks_quality_p_value=1	major_base=G	major_cov=43/1	major_frequency=6.984e-01	minor_base=A	minor_cov=17/2	new_cov=43/1	polymorphism_frequency=6.984e-01	polymorphism_score=36.4	prediction=polymorphism	ref_cov=17/2	total_cov=60/3
RA	124	.	NC_007790	717	0	C	A	consensus_score=198.3	frequency=1	major_base=A	major_cov=65/3	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=65/3	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/3
RA	125	.	NC_007790	729	0	G	C	consensus_score=223.0	frequency=1	major_base=C	major_cov=74/8	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=74/8	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=74/8
RA	126	.	NC_007790	744	0	T	C	bias_e_value=2516100	bias_p_value=0.862426	consensus_score=280.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.523666	major_base=C	major_cov=86/19	major_frequency=9.906e-01	minor_base=.	minor_cov=1/0	new_cov=86/19	polymorphism_frequency=9.906e-01	polymorphism_score=-3.4	prediction=consensus	ref_cov=0/0	total_cov=87/19
RA	127	.	NC_007790	757	0	G	A	bias_e_value=115.683	bias_p_value=3.9652e-05	consensus_score=237.1	fisher_strand_p_value=0.0144837	frequency=2.741e-01	ks_quality_p_value=0.000199005	major_base=G	major_cov=134/9	major_frequency=7.259e-01	minor_base=A	minor_cov=44/10	new_cov=44/10	polymorphism_frequency=2.741e-01	polymorphism_score=102.0	prediction=polymorphism	ref_cov=134/9	total_cov=178/19
RA	128	.	NC_007790	758	0	A	G	bias_e_value=7108.65	bias_p_value=0.00243658	consensus_score=232.8	fisher_strand_p_value=0.0162847	frequency=2.792e-01	ks_quality_p_value=0.0161917	major_base=A	major_cov=133/9	major_frequency=7.208e-01	minor_base=G	minor_cov=45/10	new_cov=45/10	polymorphism_frequency=2.792e-01	polymorphism_score=105.3	prediction=polymorphism	ref_cov=133/9	total_cov=178/19
RA	129	.	NC_007790	759	0	T	C	consensus_score=525.1	frequency=1	major_base=C	major_cov=178/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=178/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=178/19
RA	130	.	NC_007790	762	0	T	C	bias_e_value=0.547528	bias_p_value=1.87672e-07	consensus_score=218.6	fisher_strand_p_value=0.0144837	frequency=7.259e-01	ks_quality_p_value=6.65961e-07	major_base=C	major_cov=134/9	major_frequency=7.259e-01	minor_base=T	minor_cov=44/10	new_cov=134/9	polymorphism_frequency=7.259e-01	polymorphism_score=103.1	prediction=polymorphism	ref_cov=44/10	total_cov=178/19
RA	131	.	NC_007790	781	0	G	T	bias_e_value=1716490	bias_p_value=0.58835	consensus_score=632.9	fisher_strand_p_value=0.244118	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=250/28	major_frequency=8.299e-01	minor_base=A	minor_cov=48/9	new_cov=250/28	polymorphism_frequency=8.299e-01	polymorphism_score=119.2	prediction=consensus	ref_cov=0/0	total_cov=299/37
RA	132	.	NC_007790	790	0	T	C	consensus_score=939.4	frequency=1	major_base=C	major_cov=319/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=319/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=319/41
RA	133	.	NC_007790	794	0	A	.	bias_e_value=2777140	bias_p_value=0.951899	consensus_score=478.6	fisher_strand_p_value=0.713435	frequency=7.296e-01	ks_quality_p_value=0.99003	major_base=.	major_cov=257/29	major_frequency=7.296e-01	minor_base=A	minor_cov=94/12	new_cov=257/29	polymorphism_frequency=7.296e-01	polymorphism_score=inf	prediction=polymorphism	ref_cov=94/12	total_cov=351/41
RA	134	.	NC_007790	837	0	G	A	bias_e_value=2917410	bias_p_value=0.999981	consensus_score=1487.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.993893	major_base=A	major_cov=586/37	major_frequency=8.964e-01	minor_base=G	minor_cov=68/4	new_cov=586/37	polymorphism_frequency=8.964e-01	polymorphism_score=108.6	prediction=consensus	ref_cov=68/4	total_cov=654/41
RA	135	.	NC_007790	844	0	C	G	bias_e_value=563727	bias_p_value=0.193225	consensus_score=1598.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.0478256	major_base=G	major_cov=551/37	major_frequency=8.977e-01	minor_base=C	minor_cov=63/4	new_cov=551/37	polymorphism_frequency=8.977e-01	polymorphism_score=153.1	prediction=consensus	ref_cov=63/4	total_cov=614/41
RA	136	.	NC_007790	849	0	A	G	consensus_score=1674.8	frequency=1	major_base=G	major_cov=578/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=578/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=578/41
RA	137	.	NC_007790	875	0	T	C	bias_e_value=2.28489e-12	bias_p_value=7.83175e-19	consensus_score=1132.8	fisher_strand_p_value=0.430435	frequency=1	ks_quality_p_value=3.91029e-20	major_base=C	major_cov=466/32	major_frequency=8.830e-01	minor_base=T	minor_cov=60/6	new_cov=466/32	polymorphism_frequency=8.830e-01	polymorphism_score=106.3	prediction=consensus	ref_cov=60/6	total_cov=526/38
RA	138	.	NC_007790	898	0	G	A	bias_e_value=2808610	bias_p_value=0.962688	consensus_score=779.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.73957	major_base=A	major_cov=252/23	major_frequency=9.964e-01	minor_base=G	minor_cov=1/0	new_cov=252/23	polymorphism_frequency=9.964e-01	polymorphism_score=-5.7	prediction=consensus	ref_cov=1/0	total_cov=253/23
RA	139	.	NC_007790	918	0	A	G	bias_e_value=0.0249623	bias_p_value=8.55616e-09	consensus_score=471.1	fisher_strand_p_value=0.00699877	frequency=1	ks_quality_p_value=5.38582e-08	major_base=G	major_cov=184/10	major_frequency=9.065e-01	minor_base=A	minor_cov=15/5	new_cov=184/10	polymorphism_frequency=9.065e-01	polymorphism_score=23.9	prediction=consensus	ref_cov=15/5	total_cov=200/15
RA	140	.	NC_007790	945	0	A	G	bias_e_value=927.734	bias_p_value=0.000317993	consensus_score=428.5	fisher_strand_p_value=2.85688e-05	frequency=1	ks_quality_p_value=0.968277	major_base=G	major_cov=146/6	major_frequency=9.500e-01	minor_base=A	minor_cov=3/5	new_cov=146/6	polymorphism_frequency=9.500e-01	polymorphism_score=4.7	prediction=consensus	ref_cov=3/5	total_cov=149/11
RA	141	.	NC_007790	951	0	C	A	consensus_score=446.0	frequency=1	major_base=A	major_cov=149/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=149/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=149/9
RA	142	.	NC_007790	1091	0	A	C	consensus_score=16.3	frequency=1	major_base=C	major_cov=7/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/1
RA	143	.	NC_007790	1114	0	A	G	consensus_score=25.5	frequency=1	major_base=G	major_cov=11/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/0
RA	144	.	NC_007790	1115	0	T	C	consensus_score=23.7	frequency=1	major_base=C	major_cov=11/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/0
RA	145	.	NC_007790	1116	0	A	G	consensus_score=23.6	frequency=1	major_base=G	major_cov=11/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/0
RA	146	.	NC_007790	1117	0	A	T	consensus_score=27.4	frequency=1	major_base=T	major_cov=11/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/0
RA	147	.	NC_007790	1122	0	G	C	consensus_score=23.3	frequency=1	major_base=C	major_cov=11/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/0
RA	148	.	NC_007790	1132	0	G	T	consensus_score=27.5	frequency=1	major_base=T	major_cov=11/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/0
RA	149	.	NC_007790	1152	0	A	T	consensus_score=29.6	frequency=1	major_base=T	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	150	.	NC_007790	1153	0	C	A	consensus_score=29.4	frequency=1	major_base=A	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	151	.	NC_007790	1164	0	C	T	consensus_score=30.5	frequency=1	major_base=T	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	152	.	NC_007790	1166	0	G	A	consensus_score=28.4	frequency=1	major_base=A	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	153	.	NC_007790	1171	0	T	G	consensus_score=27.2	frequency=1	major_base=G	major_cov=10/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/2
RA	154	.	NC_007790	1236	0	T	C	consensus_score=18.5	frequency=1	major_base=C	major_cov=9/0	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/0	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/0
RA	155	.	NC_007790	1262	0	T	.	bias_e_value=761133	bias_p_value=0.260888	consensus_score=34.8	fisher_strand_p_value=0.0823529	frequency=1	ks_quality_p_value=0.871748	major_base=.	major_cov=5/9	major_frequency=8.235e-01	minor_base=T	minor_cov=3/0	new_cov=5/9	polymorphism_frequency=8.235e-01	polymorphism_score=7.0	prediction=consensus	ref_cov=3/0	total_cov=8/9
RA	156	.	NC_007790	1276	0	C	T	bias_e_value=328069	bias_p_value=0.11245	consensus_score=39.3	fisher_strand_p_value=0.0237154	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=6/13	major_frequency=8.261e-01	minor_base=C	minor_cov=4/0	new_cov=6/13	polymorphism_frequency=8.261e-01	polymorphism_score=1.3	prediction=consensus	ref_cov=4/0	total_cov=10/13
RA	157	.	NC_007790	1278	0	C	T	bias_e_value=1164950	bias_p_value=0.399301	consensus_score=43.5	fisher_strand_p_value=0.133333	frequency=1	ks_quality_p_value=0.990025	major_base=T	major_cov=6/13	major_frequency=9.048e-01	minor_base=C	minor_cov=2/0	new_cov=6/13	polymorphism_frequency=9.048e-01	polymorphism_score=-2.8	prediction=consensus	ref_cov=2/0	total_cov=8/13
RA	158	.	NC_007790	1280	0	C	T	bias_e_value=1172780	bias_p_value=0.401987	consensus_score=44.7	fisher_strand_p_value=0.133333	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=6/13	major_frequency=9.048e-01	minor_base=C	minor_cov=2/0	new_cov=6/13	polymorphism_frequency=9.048e-01	polymorphism_score=-4.5	prediction=consensus	ref_cov=2/0	total_cov=8/13
RA	159	.	NC_007790	1301	1	.	G	bias_e_value=521643	bias_p_value=0.1788	consensus_score=52.7	fisher_strand_p_value=0.0837135	frequency=7.667e-01	ks_quality_p_value=0.515547	major_base=G	major_cov=7/16	major_frequency=7.667e-01	minor_base=.	minor_cov=5/2	new_cov=7/16	polymorphism_frequency=7.667e-01	polymorphism_score=21.2	prediction=polymorphism	ref_cov=5/2	total_cov=12/18
RA	160	.	NC_007790	1303	0	T	G	consensus_score=75.5	frequency=1	major_base=G	major_cov=12/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/18
RA	161	.	NC_007790	1330	0	T	C	bias_e_value=150971	bias_p_value=0.0517472	consensus_score=24.2	fisher_strand_p_value=0.0301297	frequency=6.667e-01	ks_quality_p_value=0.301194	major_base=C	major_cov=3/17	major_frequency=6.667e-01	minor_base=T	minor_cov=6/4	new_cov=3/17	polymorphism_frequency=6.667e-01	polymorphism_score=15.9	prediction=polymorphism	ref_cov=6/4	total_cov=9/21
RA	162	.	NC_007790	1352	0	G	A	bias_e_value=50144.1	bias_p_value=0.0171875	consensus_score=68.8	fisher_strand_p_value=0.121154	frequency=2.364e-01	ks_quality_p_value=0.0202345	major_base=G	major_cov=18/24	major_frequency=7.636e-01	minor_base=A	minor_cov=9/4	new_cov=9/4	polymorphism_frequency=2.364e-01	polymorphism_score=20.0	prediction=polymorphism	ref_cov=18/24	total_cov=27/28
RA	163	.	NC_007790	1357	1	.	T	bias_e_value=2647490	bias_p_value=0.907461	consensus_score=62.4	fisher_strand_p_value=0.739012	frequency=2.826e-01	ks_quality_p_value=0.81446	major_base=.	major_cov=20/13	major_frequency=7.174e-01	minor_base=T	minor_cov=9/4	new_cov=9/4	polymorphism_frequency=2.826e-01	polymorphism_score=49.5	prediction=polymorphism	ref_cov=20/13	total_cov=29/17
RA	164	.	NC_007790	1361	0	A	C	bias_e_value=1149810	bias_p_value=0.394112	consensus_score=54.0	fisher_strand_p_value=0.739477	frequency=3.043e-01	ks_quality_p_value=0.17506	major_base=A	major_cov=20/12	major_frequency=6.957e-01	minor_base=C	minor_cov=10/4	new_cov=10/4	polymorphism_frequency=3.043e-01	polymorphism_score=35.1	prediction=polymorphism	ref_cov=20/12	total_cov=31/16
RA	165	.	NC_007790	1366	0	T	.	bias_e_value=1571160	bias_p_value=0.538535	consensus_score=22.4	fisher_strand_p_value=0.484734	frequency=3.889e-01	ks_quality_p_value=0.434285	major_base=T	major_cov=12/10	major_frequency=6.111e-01	minor_base=.	minor_cov=10/4	new_cov=10/4	polymorphism_frequency=3.889e-01	polymorphism_score=39.3	prediction=polymorphism	ref_cov=12/10	total_cov=31/18
RA	166	.	NC_007790	1373	0	C	T	bias_e_value=2020590	bias_p_value=0.692585	consensus_score=9.2	fisher_strand_p_value=0.783686	frequency=4.355e-01	ks_quality_p_value=0.417334	major_base=C	major_cov=25/10	major_frequency=5.645e-01	minor_base=T	minor_cov=18/9	new_cov=18/9	polymorphism_frequency=4.355e-01	polymorphism_score=58.1	prediction=polymorphism	ref_cov=25/10	total_cov=43/19
RA	167	.	NC_007790	1376	0	G	T	bias_e_value=757633	bias_p_value=0.259688	consensus_score=116.1	fisher_strand_p_value=0.321707	frequency=2.273e-01	ks_quality_p_value=0.221742	major_base=G	major_cov=39/12	major_frequency=7.727e-01	minor_base=T	minor_cov=9/6	new_cov=9/6	polymorphism_frequency=2.273e-01	polymorphism_score=30.8	prediction=polymorphism	ref_cov=39/12	total_cov=49/18
RA	168	.	NC_007790	1451	0	T	G	bias_e_value=2309160	bias_p_value=0.791494	consensus_score=193.1	fisher_strand_p_value=0.462984	frequency=1	ks_quality_p_value=0.925151	major_base=G	major_cov=66/4	major_frequency=8.861e-01	minor_base=.	minor_cov=8/1	new_cov=66/4	polymorphism_frequency=8.861e-01	polymorphism_score=24.4	prediction=consensus	ref_cov=0/0	total_cov=74/6
RA	169	.	NC_007790	1461	0	T	.	bias_e_value=865057	bias_p_value=0.29651	consensus_score=117.6	fisher_strand_p_value=0.0969271	frequency=5.333e-01	ks_quality_p_value=0.885233	major_base=.	major_cov=40/0	major_frequency=5.333e-01	minor_base=T	minor_cov=32/3	new_cov=40/0	polymorphism_frequency=5.333e-01	polymorphism_score=152.8	prediction=polymorphism	ref_cov=32/3	total_cov=72/3
RA	170	.	NC_007790	1462	0	T	A	bias_e_value=992038	bias_p_value=0.340034	consensus_score=11.0	fisher_strand_p_value=0.105739	frequency=4.800e-01	ks_quality_p_value=0.986249	major_base=T	major_cov=39/0	major_frequency=5.200e-01	minor_base=A	minor_cov=33/3	new_cov=33/3	polymorphism_frequency=4.800e-01	polymorphism_score=91.2	prediction=polymorphism	ref_cov=39/0	total_cov=72/3
RA	171	.	NC_007790	1463	0	A	G	bias_e_value=890839	bias_p_value=0.305346	consensus_score=3.4	fisher_strand_p_value=0.0969271	frequency=4.667e-01	ks_quality_p_value=0.922677	major_base=A	major_cov=40/0	major_frequency=5.333e-01	minor_base=G	minor_cov=32/3	new_cov=32/3	polymorphism_frequency=4.667e-01	polymorphism_score=76.4	prediction=polymorphism	ref_cov=40/0	total_cov=72/3
RA	172	.	NC_007790	1464	0	A	G	bias_e_value=927440	bias_p_value=0.317892	consensus_score=12.8	fisher_strand_p_value=0.0969271	frequency=5.333e-01	ks_quality_p_value=0.976937	major_base=G	major_cov=40/0	major_frequency=5.333e-01	minor_base=A	minor_cov=32/3	new_cov=40/0	polymorphism_frequency=5.333e-01	polymorphism_score=70.4	prediction=polymorphism	ref_cov=32/3	total_cov=72/3
RA	173	.	NC_007790	1468	0	C	A	bias_e_value=2917470	bias_p_value=1	consensus_score=132.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=47/1	major_frequency=9.796e-01	minor_base=C	minor_cov=1/0	new_cov=47/1	polymorphism_frequency=9.796e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=48/1
RA	174	.	NC_007790	1474	0	T	A	bias_e_value=1201450	bias_p_value=0.411811	consensus_score=88.0	fisher_strand_p_value=0.204082	frequency=7.959e-01	ks_quality_p_value=0.677443	major_base=A	major_cov=39/0	major_frequency=7.959e-01	minor_base=T	minor_cov=9/1	new_cov=39/0	polymorphism_frequency=7.959e-01	polymorphism_score=19.4	prediction=polymorphism	ref_cov=9/1	total_cov=49/1
RA	175	.	NC_007790	1476	1	.	T	bias_e_value=2916040	bias_p_value=0.99951	consensus_score=130.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.968874	major_base=T	major_cov=43/1	major_frequency=9.565e-01	minor_base=.	minor_cov=2/0	new_cov=43/1	polymorphism_frequency=9.565e-01	polymorphism_score=-0.9	prediction=consensus	ref_cov=2/0	total_cov=45/1
RA	176	.	NC_007790	1478	0	A	T	consensus_score=134.0	frequency=1	major_base=T	major_cov=45/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/1
RA	177	.	NC_007790	1479	0	C	A	bias_e_value=2891720	bias_p_value=0.991174	consensus_score=122.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.870115	major_base=A	major_cov=44/1	major_frequency=9.783e-01	minor_base=T	minor_cov=1/0	new_cov=44/1	polymorphism_frequency=9.783e-01	polymorphism_score=-4.1	prediction=consensus	ref_cov=0/0	total_cov=45/1
RA	178	.	NC_007790	1482	0	C	T	bias_e_value=1602110	bias_p_value=0.549143	consensus_score=78.4	fisher_strand_p_value=0.217391	frequency=7.826e-01	ks_quality_p_value=1	major_base=T	major_cov=36/0	major_frequency=7.826e-01	minor_base=C	minor_cov=9/1	new_cov=36/0	polymorphism_frequency=7.826e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=9/1	total_cov=45/1
RA	179	.	NC_007790	1488	0	C	T	bias_e_value=2041910	bias_p_value=0.699892	consensus_score=90.2	fisher_strand_p_value=0.336735	frequency=1	ks_quality_p_value=0.990858	major_base=T	major_cov=39/1	major_frequency=8.163e-01	minor_base=C	minor_cov=8/1	new_cov=39/1	polymorphism_frequency=8.163e-01	polymorphism_score=10.4	prediction=consensus	ref_cov=8/1	total_cov=47/2
RA	180	.	NC_007790	1502	0	C	T	bias_e_value=2620230	bias_p_value=0.898116	consensus_score=27.9	fisher_strand_p_value=0.584018	frequency=6.667e-01	ks_quality_p_value=1	major_base=T	major_cov=18/2	major_frequency=6.667e-01	minor_base=C	minor_cov=8/2	new_cov=18/2	polymorphism_frequency=6.667e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=8/2	total_cov=27/4
RA	181	.	NC_007790	1510	0	C	T	consensus_score=94.3	frequency=1	major_base=T	major_cov=26/7	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=26/7	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/7
RA	182	.	NC_007790	1572	0	G	C	bias_e_value=825101	bias_p_value=0.282814	consensus_score=50.3	fisher_strand_p_value=0.083004	frequency=1	ks_quality_p_value=0.967416	major_base=C	major_cov=16/5	major_frequency=9.130e-01	minor_base=G	minor_cov=0/2	new_cov=16/5	polymorphism_frequency=9.130e-01	polymorphism_score=-0.3	prediction=consensus	ref_cov=0/2	total_cov=16/7
RA	183	.	NC_007790	1588	0	A	G	consensus_score=51.5	frequency=1	major_base=G	major_cov=15/5	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/5	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/5
RA	184	.	NC_007790	1603	0	G	A	consensus_score=85.3	frequency=1	major_base=A	major_cov=30/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/1
RA	185	.	NC_007790	1671	0	G	T	consensus_score=128.1	frequency=1	major_base=T	major_cov=43/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=43/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/1
RA	186	.	NC_007790	1694	0	C	T	consensus_score=87.3	frequency=1	major_base=T	major_cov=30/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/1
RA	187	.	NC_007790	1744	0	A	T	consensus_score=214.3	frequency=1	major_base=T	major_cov=72/1	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=72/1	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=72/1
RA	188	.	NC_007790	1778	0	G	A	bias_e_value=2917470	bias_p_value=0.999999	consensus_score=206.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.99852	major_base=A	major_cov=71/2	major_frequency=9.865e-01	minor_base=C	minor_cov=1/0	new_cov=71/2	polymorphism_frequency=9.865e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=72/2
RA	189	.	NC_007790	1871	0	C	A	bias_e_value=2917210	bias_p_value=0.99991	consensus_score=98.4	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.986577	major_base=A	major_cov=34/2	major_frequency=9.730e-01	minor_base=T	minor_cov=1/0	new_cov=34/2	polymorphism_frequency=9.730e-01	polymorphism_score=-4.4	prediction=consensus	ref_cov=0/0	total_cov=35/2
RA	190	.	NC_007790	1953	1	.	T	bias_e_value=2897690	bias_p_value=0.993221	consensus_score=61.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.885846	major_base=T	major_cov=17/5	major_frequency=9.167e-01	minor_base=.	minor_cov=2/0	new_cov=17/5	polymorphism_frequency=9.167e-01	polymorphism_score=-0.3	prediction=consensus	ref_cov=2/0	total_cov=19/5
RA	191	.	NC_007790	1954	0	A	G	bias_e_value=2914770	bias_p_value=0.999075	consensus_score=48.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.957302	major_base=G	major_cov=17/5	major_frequency=8.800e-01	minor_base=A	minor_cov=3/0	new_cov=17/5	polymorphism_frequency=8.800e-01	polymorphism_score=0.1	prediction=consensus	ref_cov=3/0	total_cov=20/5
RA	192	.	NC_007790	1955	0	T	C	bias_e_value=2914770	bias_p_value=0.999075	consensus_score=45.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.957302	major_base=C	major_cov=17/5	major_frequency=8.800e-01	minor_base=T	minor_cov=3/0	new_cov=17/5	polymorphism_frequency=8.800e-01	polymorphism_score=-0.1	prediction=consensus	ref_cov=3/0	total_cov=20/5
RA	193	.	NC_007790	1967	0	C	G	bias_e_value=2704720	bias_p_value=0.927079	consensus_score=40.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.643279	major_base=G	major_cov=13/4	major_frequency=8.500e-01	minor_base=C	minor_cov=3/0	new_cov=13/4	polymorphism_frequency=8.500e-01	polymorphism_score=2.7	prediction=consensus	ref_cov=3/0	total_cov=17/4
MC	194	.	NC_007790	103	241	0	0	left_inside_cov=9	left_outside_cov=11	right_inside_cov=0	right_outside_cov=35
MC	195	.	NC_007790	378	509	0	0	left_inside_cov=2	left_outside_cov=27	right_inside_cov=9	right_outside_cov=11
MC	196	.	NC_007790	1977	3125	0	0	left_inside_cov=9	left_outside_cov=11	right_inside_cov=0	right_outside_cov=NA
MC	197	.	NC_007791	1	4439	0	0	left_inside_cov=0	left_outside_cov=NA	right_inside_cov=0	right_outside_cov=NA
MC	198	.	NC_007792	1	37136	0	0	left_inside_cov=0	left_outside_cov=NA	right_inside_cov=0	right_outside_cov=NA
MC	199	.	NC_007793	1	2872769	0	0	left_inside_cov=0	left_outside_cov=NA	right_inside_cov=0	right_outside_cov=NA
UN	200	.	NC_007790	1	1
UN	201	.	NC_007790	114	243
UN	202	.	NC_007790	377	477
UN	203	.	NC_007790	570	637
UN	204	.	NC_007790	705	705
UN	205	.	NC_007790	989	989
UN	206	.	NC_007790	991	991
UN	207	.	NC_007790	993	1060
UN	208	.	NC_007790	1063	1086
UN	209	.	NC_007790	1204	1204
UN	210	.	NC_007790	1230	1230
UN	211	.	NC_007790	1244	1244
UN	212	.	NC_007790	1248	1248
UN	213	.	NC_007790	1373	1373
UN	214	.	NC_007790	1463	1463
UN	215	.	NC_007790	1982	3125