#=GENOME_DIFF	1.0
#=CREATED	19:46:15 10 Oct 2025
#=PROGRAM	breseq 0.39.0 
#=COMMAND	breseq -j 8 -o /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_run15_rmdup_trimmng-adaptors-polyG/ME9020_S30_R1R2_RMDUP -r /ld1/E.coli_MG1655_ref/MG1655/ncbi_dataset/data/GCF_000005845.2/genomic.gbff /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME9020_S30_R1_RMDUP_RM-R2-DUP.cutadapt.fastq.gz /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME9020_S30_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=REFSEQ	/ld1/E.coli_MG1655_ref/MG1655/ncbi_dataset/data/GCF_000005845.2/genomic.gbff
#=READSEQ	/ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME9020_S30_R1_RMDUP_RM-R2-DUP.cutadapt.fastq.gz
#=READSEQ	/ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME9020_S30_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=CONVERTED-BASES	577908719
#=CONVERTED-READS	1958728
#=INPUT-BASES	578042033
#=INPUT-READS	1959184
#=MAPPED-BASES	555648791
#=MAPPED-READS	1884513
SNP	1	130	NC_000913	123074	A
SNP	2	132	NC_000913	204044	A
SNP	3	133	NC_000913	206765	T
SNP	4	136	NC_000913	246747	T
DEL	5	333,342	NC_000913	257908	776
SNP	6	137	NC_000913	284535	G
SNP	7	138	NC_000913	286119	A
SNP	8	139	NC_000913	313543	A
SNP	9	140	NC_000913	317618	A
SNP	10	141	NC_000913	339935	T
SNP	11	142	NC_000913	339941	T
SNP	12	143	NC_000913	339958	A
SNP	13	147	NC_000913	382995	A
SUB	14	149,150	NC_000913	480295	2	AA
SNP	15	151	NC_000913	485468	A
SNP	16	154	NC_000913	690948	A
SNP	17	155	NC_000913	700038	A
SUB	18	159,160	NC_000913	809217	2	AG
SNP	19	165	NC_000913	968837	A
SNP	20	166	NC_000913	1040126	T
SNP	21	167	NC_000913	1061935	A
SNP	22	168	NC_000913	1069743	T
SNP	23	169	NC_000913	1098620	A
SUB	24	170,171	NC_000913	1111727	2	TT
SNP	25	172	NC_000913	1169836	G
SNP	26	174	NC_000913	1189980	G
SNP	27	175	NC_000913	1196220	T
SNP	28	176	NC_000913	1196232	T
SNP	29	177	NC_000913	1196245	C
SNP	30	178	NC_000913	1196247	G
SNP	31	179	NC_000913	1196277	T
SNP	32	180	NC_000913	1196280	C
SNP	33	181	NC_000913	1196283	G
SNP	34	182	NC_000913	1196292	T
SNP	35	188	NC_000913	1301992	T
SNP	36	190	NC_000913	1306736	G
SNP	37	191	NC_000913	1310770	G
SNP	38	193	NC_000913	1337394	G
SNP	39	195	NC_000913	1357202	T
SNP	40	196	NC_000913	1358859	C
SNP	41	197	NC_000913	1439093	T
SNP	42	202	NC_000913	1585944	T
SNP	43	203	NC_000913	1643214	T
SNP	44	204	NC_000913	1643679	T
SNP	45	206	NC_000913	1652331	C
SNP	46	207	NC_000913	1721136	T
SNP	47	208	NC_000913	1776715	T
MOB	48	383,384	NC_000913	1825993	IS5	1	4
SNP	49	210	NC_000913	1894839	C
SNP	50	211	NC_000913	1952099	A
SNP	51	212	NC_000913	1964169	A
SNP	52	213	NC_000913	1964254	C
SNP	53	215	NC_000913	2040433	A
DEL	54	219,220	NC_000913	2173363	2
SNP	55	221	NC_000913	2174134	T
SNP	56	222	NC_000913	2177239	A
SNP	57	223	NC_000913	2177241	A
SNP	58	224	NC_000913	2188087	C
SUB	59	226,227	NC_000913	2304522	2	TC
SNP	60	228	NC_000913	2304537	G
SNP	61	229	NC_000913	2304540	T
SNP	62	234	NC_000913	2384808	T
SNP	63	235	NC_000913	2410419	A
SNP	64	240	NC_000913	2484827	T
SNP	65	241	NC_000913	2564496	T
SNP	66	242	NC_000913	2604192	A
DEL	67	244	NC_000913	2716880	1
INS	68	246	NC_000913	2737383	T
MOB	69	397,398	NC_000913	2913392	IS2	-1	5
SNP	70	254	NC_000913	2959673	A
SUB	71	257,258	NC_000913	3088010	2	TT
DEL	72	336,400	NC_000913	3131341	16426	mediated=IS5
SNP	73	259	NC_000913	3161772	A
SNP	74	263	NC_000913	3251380	A
SUB	75	264,265	NC_000913	3336411	2	AT
SNP	76	266	NC_000913	3388041	G
SNP	77	269	NC_000913	3436697	A
INS	78	270	NC_000913	3560455	G
SNP	79	272	NC_000913	3682515	T
SNP	80	273	NC_000913	3707947	A
DEL	81	338,409	NC_000913	3708467	168
SNP	82	274	NC_000913	3719481	A
SNP	83	276	NC_000913	3725176	G
SNP	84	279	NC_000913	3771979	T
DEL	85	280	NC_000913	3773173	1
SNP	86	281	NC_000913	3773176	T
SNP	87	282	NC_000913	3801769	T
SNP	88	283	NC_000913	3806894	A
SNP	89	284	NC_000913	3814002	T
INS	90	285	NC_000913	3815883	C
SNP	91	286	NC_000913	3817167	T
INS	92	411	NC_000913	3822651	CAGGAT	repeat_length=6	repeat_new_copies=2	repeat_ref_copies=1	repeat_seq=CAGGAT
SNP	93	288	NC_000913	3823162	T
SNP	94	290	NC_000913	3869637	A
SNP	95	291	NC_000913	3878536	A
SNP	96	293	NC_000913	3926250	G
SNP	97	294	NC_000913	3993531	C
SNP	98	295	NC_000913	3996049	A
SNP	99	296	NC_000913	4011802	T
SNP	100	298	NC_000913	4084903	G
SNP	101	299	NC_000913	4091686	T
SNP	102	300	NC_000913	4092703	G
SNP	103	301	NC_000913	4113851	A
SNP	104	302	NC_000913	4143377	T
SNP	105	303	NC_000913	4161248	T
SNP	106	304	NC_000913	4164123	G
SNP	107	306	NC_000913	4193996	G
SNP	108	307	NC_000913	4196331	G
SNP	109	309	NC_000913	4215347	A
SNP	110	310	NC_000913	4223638	C
INS	111	311	NC_000913	4282332	A	repeat_length=1	repeat_new_copies=6	repeat_ref_copies=5	repeat_seq=A
SUB	112	312,313	NC_000913	4293781	2	AT
INS	113	315,316	NC_000913	4296381	GC
SNP	114	317	NC_000913	4325644	T
SNP	115	318	NC_000913	4358565	T
SNP	116	320	NC_000913	4380402	A
SNP	117	321	NC_000913	4392997	A
SNP	118	322	NC_000913	4393552	A
SNP	119	323	NC_000913	4396373	T
SNP	120	324	NC_000913	4396772	C
SNP	121	325	NC_000913	4425688	A
SNP	122	326	NC_000913	4425696	A
SNP	123	327	NC_000913	4510238	G
SNP	124	328	NC_000913	4532409	G
SNP	125	330	NC_000913	4546601	T
SNP	126	331	NC_000913	4636925	C
SNP	127	332	NC_000913	4638240	A
RA	128	.	NC_000913	12152	0	G	T	bias_e_value=0.0182078	bias_p_value=3.92269e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=200.2	fisher_strand_p_value=1.66823e-10	frequency=3.442e-01	ks_quality_p_value=1	major_base=G	major_cov=44/57	major_frequency=6.558e-01	minor_base=T	minor_cov=0/53	new_cov=0/53	polymorphism_frequency=3.442e-01	polymorphism_score=31.1	prediction=polymorphism	ref_cov=44/57	total_cov=44/110
RA	129	.	NC_000913	58065	0	C	A	bias_e_value=6.30283e-05	bias_p_value=1.35789e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=225.8	fisher_strand_p_value=4.61809e-13	frequency=3.101e-01	ks_quality_p_value=1	major_base=C	major_cov=34/55	major_frequency=6.899e-01	minor_base=A	minor_cov=40/0	new_cov=40/0	polymorphism_frequency=3.101e-01	polymorphism_score=20.6	prediction=polymorphism	ref_cov=34/55	total_cov=74/55
RA	130	.	NC_000913	123074	0	G	A	bias_e_value=4641610	bias_p_value=0.999991	consensus_score=384.4	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.995762	major_base=A	major_cov=37/71	major_frequency=9.908e-01	minor_base=G	minor_cov=0/1	new_cov=37/71	polymorphism_frequency=9.908e-01	polymorphism_score=-4.3	prediction=consensus	ref_cov=0/1	total_cov=37/72
RA	131	.	NC_000913	147802	0	C	A	bias_e_value=0.0430824	bias_p_value=9.28169e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=180.2	fisher_strand_p_value=4.10444e-10	frequency=3.223e-01	ks_quality_p_value=1	major_base=C	major_cov=39/43	major_frequency=6.777e-01	minor_base=A	minor_cov=39/0	new_cov=39/0	polymorphism_frequency=3.223e-01	polymorphism_score=15.1	prediction=polymorphism	ref_cov=39/43	total_cov=78/43
RA	132	.	NC_000913	204044	0	G	A	consensus_score=350.4	frequency=1	major_base=A	major_cov=51/48	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/48	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/48
RA	133	.	NC_000913	206765	0	A	T	consensus_score=398.2	frequency=1	major_base=T	major_cov=43/67	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=43/67	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/67
RA	134	.	NC_000913	211869	0	G	T	bias_e_value=0.391045	bias_p_value=8.4247e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=271.1	fisher_strand_p_value=4.15007e-09	frequency=2.049e-01	ks_quality_p_value=1	major_base=G	major_cov=59/38	major_frequency=7.951e-01	minor_base=T	minor_cov=0/25	new_cov=0/25	polymorphism_frequency=2.049e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=59/38	total_cov=59/63
RA	135	.	NC_000913	240066	0	C	A	bias_e_value=0.00162607	bias_p_value=3.50321e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=290.2	fisher_strand_p_value=1.34576e-11	frequency=2.365e-01	ks_quality_p_value=1	major_base=C	major_cov=46/67	major_frequency=7.635e-01	minor_base=A	minor_cov=35/0	new_cov=35/0	polymorphism_frequency=2.365e-01	polymorphism_score=12.6	prediction=polymorphism	ref_cov=46/67	total_cov=81/68
RA	136	.	NC_000913	246747	0	G	T	bias_e_value=3878080	bias_p_value=0.835496	consensus_score=459.2	fisher_strand_p_value=0.484375	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=66/61	major_frequency=9.922e-01	minor_base=G	minor_cov=0/1	new_cov=66/61	polymorphism_frequency=9.922e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=66/62
RA	137	.	NC_000913	284535	0	T	G	bias_e_value=3930350	bias_p_value=0.846757	consensus_score=214.9	fisher_strand_p_value=0.500264	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=27/33	major_frequency=9.677e-01	minor_base=A	minor_cov=0/2	new_cov=27/33	polymorphism_frequency=9.677e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/35
RA	138	.	NC_000913	286119	0	C	A	consensus_score=295.8	frequency=1	major_base=A	major_cov=59/27	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=59/27	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=59/27
RA	139	.	NC_000913	313543	0	G	A	consensus_score=489.7	frequency=1	major_base=A	major_cov=81/62	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=81/62	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=81/62
RA	140	.	NC_000913	317618	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=628.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=85/90	major_frequency=9.943e-01	minor_base=G	minor_cov=0/1	new_cov=85/90	polymorphism_frequency=9.943e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=85/91
RA	141	.	NC_000913	339935	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=144.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=26/31	major_frequency=9.828e-01	minor_base=C	minor_cov=0/1	new_cov=26/31	polymorphism_frequency=9.828e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=26/32
RA	142	.	NC_000913	339941	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=143.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=26/31	major_frequency=9.828e-01	minor_base=G	minor_cov=0/1	new_cov=26/31	polymorphism_frequency=9.828e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/32
RA	143	.	NC_000913	339958	0	G	A	consensus_score=167.0	frequency=1	major_base=A	major_cov=29/34	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=29/34	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=29/34
RA	144	.	NC_000913	339979	0	G	A	bias_e_value=4156600	bias_p_value=0.8955	consensus_reject=FREQUENCY_CUTOFF	consensus_score=55.9	fisher_strand_p_value=0.579191	frequency=6.885e-01	ks_quality_p_value=1	major_base=A	major_cov=20/22	major_frequency=6.885e-01	minor_base=G	minor_cov=7/12	new_cov=20/22	polymorphism_frequency=6.885e-01	polymorphism_score=44.5	prediction=polymorphism	ref_cov=7/12	total_cov=27/34
RA	145	.	NC_000913	339986	0	G	A	bias_e_value=4139530	bias_p_value=0.891824	consensus_reject=FREQUENCY_CUTOFF	consensus_score=76.3	fisher_strand_p_value=0.572529	frequency=7.143e-01	ks_quality_p_value=1	major_base=A	major_cov=20/25	major_frequency=7.143e-01	minor_base=G	minor_cov=6/12	new_cov=20/25	polymorphism_frequency=7.143e-01	polymorphism_score=40.2	prediction=polymorphism	ref_cov=6/12	total_cov=26/37
RA	146	.	NC_000913	339992	0	C	.	bias_e_value=4638220	bias_p_value=0.99926	consensus_reject=FREQUENCY_CUTOFF	consensus_score=122.5	fisher_strand_p_value=1	frequency=2.143e-01	ks_quality_p_value=0.961788	major_base=C	major_cov=19/25	major_frequency=7.857e-01	minor_base=.	minor_cov=5/7	new_cov=5/7	polymorphism_frequency=2.143e-01	polymorphism_score=39.9	prediction=polymorphism	ref_cov=19/25	total_cov=25/32
RA	147	.	NC_000913	382995	0	C	A	consensus_score=444.7	frequency=1	major_base=A	major_cov=51/72	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/72	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/72
RA	148	.	NC_000913	430299	0	C	A	bias_e_value=295.187	bias_p_value=6.35952e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=267.5	fisher_strand_p_value=4.80082e-06	frequency=2.537e-01	ks_quality_p_value=1	major_base=C	major_cov=58/42	major_frequency=7.463e-01	minor_base=A	minor_cov=33/1	new_cov=33/1	polymorphism_frequency=2.537e-01	polymorphism_score=13.4	prediction=polymorphism	ref_cov=58/42	total_cov=91/43
RA	149	.	NC_000913	480295	0	G	A	consensus_score=576.1	frequency=1	major_base=A	major_cov=80/83	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=80/83	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=80/83
RA	150	.	NC_000913	480296	0	G	A	bias_e_value=4641640	bias_p_value=0.999998	consensus_score=563.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.998108	major_base=A	major_cov=80/82	major_frequency=9.939e-01	minor_base=C	minor_cov=0/1	new_cov=80/82	polymorphism_frequency=9.939e-01	polymorphism_score=-5.3	prediction=consensus	ref_cov=0/0	total_cov=80/83
RA	151	.	NC_000913	485468	0	T	A	consensus_score=485.5	frequency=1	major_base=A	major_cov=76/61	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=76/61	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=76/61
RA	152	.	NC_000913	571586	0	G	T	bias_e_value=5.05048e-08	bias_p_value=1.08808e-14	consensus_reject=FREQUENCY_CUTOFF	consensus_score=414.9	fisher_strand_p_value=2.96027e-16	frequency=2.258e-01	ks_quality_p_value=1	major_base=G	major_cov=94/50	major_frequency=7.742e-01	minor_base=T	minor_cov=0/42	new_cov=0/42	polymorphism_frequency=2.258e-01	polymorphism_score=15.7	prediction=polymorphism	ref_cov=94/50	total_cov=94/92
RA	153	.	NC_000913	590946	0	C	T	bias_e_value=108.034	bias_p_value=2.32748e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=180.6	fisher_strand_p_value=1.62414e-06	frequency=2.143e-01	ks_quality_p_value=1	major_base=C	major_cov=35/42	major_frequency=7.857e-01	minor_base=T	minor_cov=21/0	new_cov=21/0	polymorphism_frequency=2.143e-01	polymorphism_score=17.2	prediction=polymorphism	ref_cov=35/42	total_cov=57/42
RA	154	.	NC_000913	690948	0	G	A	consensus_score=398.9	frequency=1	major_base=A	major_cov=52/61	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/61	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/61
RA	155	.	NC_000913	700038	0	G	A	consensus_score=315.9	frequency=1	major_base=A	major_cov=34/51	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=34/51	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=34/51
RA	156	.	NC_000913	736147	0	C	A	bias_e_value=6.49207e-09	bias_p_value=1.39865e-15	consensus_reject=FREQUENCY_CUTOFF	consensus_score=423.9	fisher_strand_p_value=3.59891e-17	frequency=2.452e-01	ks_quality_p_value=1	major_base=C	major_cov=62/95	major_frequency=7.548e-01	minor_base=A	minor_cov=51/0	new_cov=51/0	polymorphism_frequency=2.452e-01	polymorphism_score=12.5	prediction=polymorphism	ref_cov=62/95	total_cov=113/95
RA	157	.	NC_000913	782194	0	T	G	bias_e_value=1.1414e-05	bias_p_value=2.45903e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=308.4	fisher_strand_p_value=7.8889e-14	frequency=2.527e-01	ks_quality_p_value=1	major_base=T	major_cov=77/59	major_frequency=7.473e-01	minor_base=G	minor_cov=0/46	new_cov=0/46	polymorphism_frequency=2.527e-01	polymorphism_score=19.2	prediction=polymorphism	ref_cov=77/59	total_cov=77/105
RA	158	.	NC_000913	808080	0	A	T	bias_e_value=2421110	bias_p_value=0.521604	consensus_reject=FREQUENCY_CUTOFF	consensus_score=102.5	fisher_strand_p_value=0.199824	frequency=5.935e-01	ks_quality_p_value=1	major_base=T	major_cov=33/40	major_frequency=5.935e-01	minor_base=A	minor_cov=29/21	new_cov=33/40	polymorphism_frequency=5.935e-01	polymorphism_score=197.5	prediction=polymorphism	ref_cov=29/21	total_cov=63/61
RA	159	.	NC_000913	809217	0	C	A	bias_e_value=4641650	bias_p_value=1	consensus_score=292.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=52/33	major_frequency=9.884e-01	minor_base=C	minor_cov=1/0	new_cov=52/33	polymorphism_frequency=9.884e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=53/34
RA	160	.	NC_000913	809218	0	A	G	consensus_score=321.6	frequency=1	major_base=G	major_cov=53/34	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=53/34	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=53/34
RA	161	.	NC_000913	847955	0	G	A	bias_e_value=1.87045e-11	bias_p_value=4.02971e-18	consensus_reject=FREQUENCY_CUTOFF	consensus_score=230.0	fisher_strand_p_value=8.9836e-20	frequency=3.315e-01	ks_quality_p_value=1	major_base=G	major_cov=82/41	major_frequency=6.685e-01	minor_base=A	minor_cov=1/60	new_cov=1/60	polymorphism_frequency=3.315e-01	polymorphism_score=85.8	prediction=polymorphism	ref_cov=82/41	total_cov=84/102
RA	162	.	NC_000913	926334	0	G	T	bias_e_value=0.000104102	bias_p_value=2.24279e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=333.8	fisher_strand_p_value=7.7648e-13	frequency=2.593e-01	ks_quality_p_value=1	major_base=G	major_cov=68/52	major_frequency=7.407e-01	minor_base=T	minor_cov=0/42	new_cov=0/42	polymorphism_frequency=2.593e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=68/52	total_cov=68/94
RA	163	.	NC_000913	939398	0	C	A	bias_e_value=0.0235077	bias_p_value=5.06452e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=179.5	fisher_strand_p_value=2.17855e-10	frequency=2.609e-01	ks_quality_p_value=1	major_base=C	major_cov=20/48	major_frequency=7.391e-01	minor_base=A	minor_cov=24/0	new_cov=24/0	polymorphism_frequency=2.609e-01	polymorphism_score=17.7	prediction=polymorphism	ref_cov=20/48	total_cov=44/48
RA	164	.	NC_000913	964392	0	G	T	bias_e_value=46.3823	bias_p_value=9.99263e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=319.7	fisher_strand_p_value=6.55795e-07	frequency=2.115e-01	ks_quality_p_value=1	major_base=G	major_cov=64/59	major_frequency=7.885e-01	minor_base=T	minor_cov=2/31	new_cov=2/31	polymorphism_frequency=2.115e-01	polymorphism_score=16.7	prediction=polymorphism	ref_cov=64/59	total_cov=66/90
RA	165	.	NC_000913	968837	0	G	A	bias_e_value=3866720	bias_p_value=0.833047	consensus_score=262.1	fisher_strand_p_value=0.481013	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=37/41	major_frequency=9.873e-01	minor_base=C	minor_cov=1/0	new_cov=37/41	polymorphism_frequency=9.873e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/41
RA	166	.	NC_000913	1040126	0	G	T	consensus_score=406.4	frequency=1	major_base=T	major_cov=55/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=55/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=55/57
RA	167	.	NC_000913	1061935	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=255.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=42/36	major_frequency=9.873e-01	minor_base=C	minor_cov=1/0	new_cov=42/36	polymorphism_frequency=9.873e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/36
RA	168	.	NC_000913	1069743	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=381.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=44/72	major_frequency=9.915e-01	minor_base=G	minor_cov=0/1	new_cov=44/72	polymorphism_frequency=9.915e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/73
RA	169	.	NC_000913	1098620	0	T	A	consensus_score=390.9	frequency=1	major_base=A	major_cov=52/55	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/55	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/55
RA	170	.	NC_000913	1111727	0	C	T	consensus_score=444.7	frequency=1	major_base=T	major_cov=74/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=74/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=74/54
RA	171	.	NC_000913	1111728	0	C	T	consensus_score=456.2	frequency=1	major_base=T	major_cov=74/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=74/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=74/54
RA	172	.	NC_000913	1169836	0	A	G	consensus_score=404.5	frequency=1	major_base=G	major_cov=48/61	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=48/61	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=48/61
RA	173	.	NC_000913	1186081	0	G	A	bias_e_value=4617830	bias_p_value=0.994868	consensus_reject=FREQUENCY_CUTOFF	consensus_score=187.9	fisher_strand_p_value=1	frequency=2.524e-01	ks_quality_p_value=0.90041	major_base=G	major_cov=34/43	major_frequency=7.476e-01	minor_base=A	minor_cov=12/14	new_cov=12/14	polymorphism_frequency=2.524e-01	polymorphism_score=75.3	prediction=polymorphism	ref_cov=34/43	total_cov=46/57
RA	174	.	NC_000913	1189980	0	A	G	bias_e_value=4641650	bias_p_value=1	consensus_score=338.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999756	major_base=G	major_cov=44/46	major_frequency=9.890e-01	minor_base=T	minor_cov=0/1	new_cov=44/46	polymorphism_frequency=9.890e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/47
RA	175	.	NC_000913	1196220	0	C	T	consensus_score=195.9	frequency=1	major_base=T	major_cov=39/26	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/26	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/26
RA	176	.	NC_000913	1196232	0	C	T	consensus_score=182.0	frequency=1	major_base=T	major_cov=38/23	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/23	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/23
RA	177	.	NC_000913	1196245	0	T	C	consensus_score=170.2	frequency=1	major_base=C	major_cov=36/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=36/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=36/21
RA	178	.	NC_000913	1196247	0	A	G	consensus_score=175.5	frequency=1	major_base=G	major_cov=36/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=36/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=36/21
RA	179	.	NC_000913	1196277	0	C	T	consensus_score=113.3	frequency=1	major_base=T	major_cov=30/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/13
RA	180	.	NC_000913	1196280	0	G	C	bias_e_value=4641650	bias_p_value=1	consensus_score=102.9	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=28/13	major_frequency=9.535e-01	minor_base=A	minor_cov=2/0	new_cov=28/13	polymorphism_frequency=9.535e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/13
RA	181	.	NC_000913	1196283	0	A	G	consensus_score=120.9	frequency=1	major_base=G	major_cov=30/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/13
RA	182	.	NC_000913	1196292	0	C	T	consensus_score=109.1	frequency=1	major_base=T	major_cov=30/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/12
RA	183	.	NC_000913	1196304	0	G	A	consensus_score=90.2	deleted=1	frequency=1	major_base=A	major_cov=26/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=26/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/11
RA	184	.	NC_000913	1196316	0	T	A	consensus_score=81.3	deleted=1	frequency=1	major_base=A	major_cov=25/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=25/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=25/9
RA	185	.	NC_000913	1196325	0	A	G	consensus_score=47.0	deleted=1	frequency=1	major_base=G	major_cov=16/6	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=16/6	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=16/6
RA	186	.	NC_000913	1196352	0	C	A	consensus_score=36.0	deleted=1	frequency=1	major_base=A	major_cov=15/4	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/4	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/4
RA	187	.	NC_000913	1286870	0	C	A	bias_e_value=9639.22	bias_p_value=0.00207668	consensus_reject=FREQUENCY_CUTOFF	consensus_score=215.8	fisher_strand_p_value=0.000220459	frequency=2.277e-01	ks_quality_p_value=1	major_base=C	major_cov=26/52	major_frequency=7.723e-01	minor_base=A	minor_cov=18/5	new_cov=18/5	polymorphism_frequency=2.277e-01	polymorphism_score=20.7	prediction=polymorphism	ref_cov=26/52	total_cov=44/60
RA	188	.	NC_000913	1301992	0	A	T	consensus_score=424.2	frequency=1	major_base=T	major_cov=46/76	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=46/76	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/76
RA	189	.	NC_000913	1302200	0	C	T	bias_e_value=3682190	bias_p_value=0.793293	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.0	fisher_strand_p_value=0.430457	frequency=3.727e-01	ks_quality_p_value=1	major_base=C	major_cov=32/37	major_frequency=6.273e-01	minor_base=T	minor_cov=23/18	new_cov=23/18	polymorphism_frequency=3.727e-01	polymorphism_score=125.0	prediction=polymorphism	ref_cov=32/37	total_cov=55/55
RA	190	.	NC_000913	1306736	0	T	G	bias_e_value=1913730	bias_p_value=0.412296	consensus_score=398.3	fisher_strand_p_value=0.144595	frequency=1	ks_quality_p_value=0.957835	major_base=G	major_cov=66/39	major_frequency=9.813e-01	minor_base=C	minor_cov=0/2	new_cov=66/39	polymorphism_frequency=9.813e-01	polymorphism_score=-2.2	prediction=consensus	ref_cov=0/1	total_cov=66/42
RA	191	.	NC_000913	1310770	0	A	G	consensus_score=505.6	frequency=1	major_base=G	major_cov=83/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=83/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=83/50
RA	192	.	NC_000913	1334966	0	A	C	bias_e_value=0.00135253	bias_p_value=2.91389e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=312.0	fisher_strand_p_value=1.1112e-11	frequency=2.551e-01	ks_quality_p_value=1	major_base=A	major_cov=78/68	major_frequency=7.449e-01	minor_base=C	minor_cov=50/0	new_cov=50/0	polymorphism_frequency=2.551e-01	polymorphism_score=26.8	prediction=polymorphism	ref_cov=78/68	total_cov=128/68
RA	193	.	NC_000913	1337394	0	A	G	consensus_score=315.7	frequency=1	major_base=G	major_cov=45/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/40
RA	194	.	NC_000913	1351463	0	C	A	bias_e_value=40.8137	bias_p_value=8.79292e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=122.5	fisher_strand_p_value=5.71925e-07	frequency=3.652e-01	ks_quality_p_value=1	major_base=C	major_cov=46/27	major_frequency=6.348e-01	minor_base=A	minor_cov=42/0	new_cov=42/0	polymorphism_frequency=3.652e-01	polymorphism_score=18.8	prediction=polymorphism	ref_cov=46/27	total_cov=88/27
RA	195	.	NC_000913	1357202	0	C	T	consensus_score=398.0	frequency=1	major_base=T	major_cov=52/58	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/58	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/58
RA	196	.	NC_000913	1358859	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_score=339.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=39/51	major_frequency=9.890e-01	minor_base=T	minor_cov=0/1	new_cov=39/51	polymorphism_frequency=9.890e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=39/52
RA	197	.	NC_000913	1439093	0	C	T	consensus_score=283.4	frequency=1	major_base=T	major_cov=41/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/40
RA	198	.	NC_000913	1466562	0	G	A	bias_e_value=4557340	bias_p_value=0.981836	consensus_reject=FREQUENCY_CUTOFF	consensus_score=145.6	fisher_strand_p_value=0.815555	frequency=2.637e-01	ks_quality_p_value=1	major_base=G	major_cov=34/33	major_frequency=7.363e-01	minor_base=A	minor_cov=13/11	new_cov=13/11	polymorphism_frequency=2.637e-01	polymorphism_score=40.9	prediction=polymorphism	ref_cov=34/33	total_cov=47/44
RA	199	.	NC_000913	1502770	0	T	C	bias_e_value=0.000271308	bias_p_value=5.84507e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=205.5	fisher_strand_p_value=2.09567e-12	frequency=2.929e-01	ks_quality_p_value=1	major_base=T	major_cov=57/42	major_frequency=7.071e-01	minor_base=C	minor_cov=0/41	new_cov=0/41	polymorphism_frequency=2.929e-01	polymorphism_score=45.0	prediction=polymorphism	ref_cov=57/42	total_cov=57/83
RA	200	.	NC_000913	1502772	0	G	A	bias_e_value=0.0169409	bias_p_value=3.64977e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=218.5	fisher_strand_p_value=1.54721e-10	frequency=2.555e-01	ks_quality_p_value=1	major_base=G	major_cov=57/45	major_frequency=7.445e-01	minor_base=A	minor_cov=0/35	new_cov=0/35	polymorphism_frequency=2.555e-01	polymorphism_score=34.1	prediction=polymorphism	ref_cov=57/45	total_cov=57/81
RA	201	.	NC_000913	1579973	0	C	A	bias_e_value=0.324079	bias_p_value=6.98198e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=286.9	fisher_strand_p_value=3.40623e-09	frequency=2.400e-01	ks_quality_p_value=1	major_base=C	major_cov=58/56	major_frequency=7.600e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=2.400e-01	polymorphism_score=17.6	prediction=polymorphism	ref_cov=58/56	total_cov=94/57
RA	202	.	NC_000913	1585944	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=579.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=91/69	major_frequency=9.877e-01	minor_base=G	minor_cov=1/1	new_cov=91/69	polymorphism_frequency=9.877e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=92/70
RA	203	.	NC_000913	1643214	0	A	T	consensus_score=496.2	frequency=1	major_base=T	major_cov=59/85	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=59/85	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=59/85
RA	204	.	NC_000913	1643679	0	A	T	bias_e_value=4641650	bias_p_value=1	consensus_score=346.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=46/52	major_frequency=9.899e-01	minor_base=G	minor_cov=0/1	new_cov=46/52	polymorphism_frequency=9.899e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/53
RA	205	.	NC_000913	1650358	0	C	A	bias_e_value=0.0179768	bias_p_value=3.87293e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=324.7	fisher_strand_p_value=1.64614e-10	frequency=2.171e-01	ks_quality_p_value=1	major_base=C	major_cov=52/67	major_frequency=7.829e-01	minor_base=A	minor_cov=33/0	new_cov=33/0	polymorphism_frequency=2.171e-01	polymorphism_score=10.0	prediction=polymorphism	ref_cov=52/67	total_cov=85/67
RA	206	.	NC_000913	1652331	0	T	C	consensus_score=593.2	frequency=1	major_base=C	major_cov=74/80	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=74/80	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=74/80
RA	207	.	NC_000913	1721136	0	C	T	consensus_score=484.6	frequency=1	major_base=T	major_cov=49/94	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/94	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/94
RA	208	.	NC_000913	1776715	0	A	T	consensus_score=444.2	frequency=1	major_base=T	major_cov=65/63	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=65/63	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/63
RA	209	.	NC_000913	1812509	0	G	T	bias_e_value=3.98851e-10	bias_p_value=8.59287e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=369.2	fisher_strand_p_value=2.05945e-18	frequency=2.974e-01	ks_quality_p_value=1	major_base=G	major_cov=88/49	major_frequency=7.026e-01	minor_base=T	minor_cov=1/57	new_cov=1/57	polymorphism_frequency=2.974e-01	polymorphism_score=29.4	prediction=polymorphism	ref_cov=88/49	total_cov=89/106
RA	210	.	NC_000913	1894839	0	T	C	consensus_score=479.6	frequency=1	major_base=C	major_cov=83/44	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=83/44	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=83/44
RA	211	.	NC_000913	1952099	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=412.4	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=48/65	major_frequency=9.912e-01	minor_base=G	minor_cov=0/1	new_cov=48/65	polymorphism_frequency=9.912e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=48/66
RA	212	.	NC_000913	1964169	0	T	A	consensus_score=270.9	frequency=1	major_base=A	major_cov=28/47	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=28/47	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=28/47
RA	213	.	NC_000913	1964254	0	A	C	consensus_score=284.1	frequency=1	major_base=C	major_cov=46/30	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=46/30	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/30
RA	214	.	NC_000913	2013023	0	C	A	bias_e_value=0.427419	bias_p_value=9.20834e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=216.6	fisher_strand_p_value=4.5571e-09	frequency=2.960e-01	ks_quality_p_value=1	major_base=C	major_cov=45/43	major_frequency=7.040e-01	minor_base=A	minor_cov=37/0	new_cov=37/0	polymorphism_frequency=2.960e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=45/43	total_cov=82/43
RA	215	.	NC_000913	2040433	0	C	A	bias_e_value=3919900	bias_p_value=0.844506	consensus_score=401.2	fisher_strand_p_value=0.49703	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=60/56	major_frequency=9.831e-01	minor_base=C	minor_cov=2/0	new_cov=60/56	polymorphism_frequency=9.831e-01	polymorphism_score=NA	prediction=consensus	ref_cov=2/0	total_cov=62/56
RA	216	.	NC_000913	2047219	0	C	A	bias_e_value=1.0114e-05	bias_p_value=2.17897e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=256.9	fisher_strand_p_value=6.96255e-14	frequency=3.188e-01	ks_quality_p_value=1	major_base=C	major_cov=37/57	major_frequency=6.812e-01	minor_base=A	minor_cov=44/0	new_cov=44/0	polymorphism_frequency=3.188e-01	polymorphism_score=11.3	prediction=polymorphism	ref_cov=37/57	total_cov=81/57
RA	217	.	NC_000913	2073613	0	G	T	bias_e_value=3.6273	bias_p_value=7.81468e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=159.1	fisher_strand_p_value=4.35366e-08	frequency=2.717e-01	ks_quality_p_value=1	major_base=G	major_cov=39/28	major_frequency=7.283e-01	minor_base=T	minor_cov=0/25	new_cov=0/25	polymorphism_frequency=2.717e-01	polymorphism_score=13.4	prediction=polymorphism	ref_cov=39/28	total_cov=39/53
RA	218	.	NC_000913	2099484	0	G	T	bias_e_value=1.19804e-05	bias_p_value=2.58107e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=366.3	fisher_strand_p_value=8.29374e-14	frequency=2.486e-01	ks_quality_p_value=1	major_base=G	major_cov=76/54	major_frequency=7.514e-01	minor_base=T	minor_cov=0/43	new_cov=0/43	polymorphism_frequency=2.486e-01	polymorphism_score=14.7	prediction=polymorphism	ref_cov=76/54	total_cov=76/97
RA	219	.	NC_000913	2173363	0	C	.	bias_e_value=4641650	bias_p_value=1	consensus_score=500.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=.	major_cov=52/53	major_frequency=9.906e-01	minor_base=C	minor_cov=1/0	new_cov=52/53	polymorphism_frequency=9.906e-01	polymorphism_score=-4.2	prediction=consensus	ref_cov=1/0	total_cov=53/53
RA	220	.	NC_000913	2173364	0	C	.	bias_e_value=4641350	bias_p_value=0.999934	consensus_score=499.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.988565	major_base=.	major_cov=52/53	major_frequency=9.906e-01	minor_base=C	minor_cov=1/0	new_cov=52/53	polymorphism_frequency=9.906e-01	polymorphism_score=-3.5	prediction=consensus	ref_cov=1/0	total_cov=53/53
RA	221	.	NC_000913	2174134	0	C	T	consensus_score=428.0	frequency=1	major_base=T	major_cov=71/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=71/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=71/54
RA	222	.	NC_000913	2177239	0	T	A	bias_e_value=4641650	bias_p_value=1	consensus_score=447.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=64/64	major_frequency=9.922e-01	minor_base=C	minor_cov=1/0	new_cov=64/64	polymorphism_frequency=9.922e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/64
RA	223	.	NC_000913	2177241	0	T	A	bias_e_value=4641650	bias_p_value=1	consensus_score=446.9	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=64/64	major_frequency=9.922e-01	minor_base=C	minor_cov=1/0	new_cov=64/64	polymorphism_frequency=9.922e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/64
RA	224	.	NC_000913	2188087	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_score=629.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=88/76	major_frequency=9.939e-01	minor_base=A	minor_cov=1/0	new_cov=88/76	polymorphism_frequency=9.939e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=89/76
RA	225	.	NC_000913	2288418	0	G	T	bias_e_value=1.77113e-06	bias_p_value=3.81574e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=288.5	fisher_strand_p_value=1.15301e-14	frequency=2.901e-01	ks_quality_p_value=1	major_base=G	major_cov=68/47	major_frequency=7.099e-01	minor_base=T	minor_cov=0/47	new_cov=0/47	polymorphism_frequency=2.901e-01	polymorphism_score=17.7	prediction=polymorphism	ref_cov=68/47	total_cov=68/94
RA	226	.	NC_000913	2304522	0	G	T	bias_e_value=1647920	bias_p_value=0.35503	consensus_score=87.2	fisher_strand_p_value=0.111012	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=20/19	major_frequency=9.070e-01	minor_base=G	minor_cov=0/4	new_cov=20/19	polymorphism_frequency=9.070e-01	polymorphism_score=0.5	prediction=consensus	ref_cov=0/4	total_cov=20/23
RA	227	.	NC_000913	2304523	0	G	C	bias_e_value=4040270	bias_p_value=0.870438	consensus_score=105.1	fisher_strand_p_value=0.60788	frequency=1	ks_quality_p_value=0.88222	major_base=C	major_cov=19/19	major_frequency=9.048e-01	minor_base=G	minor_cov=1/3	new_cov=19/19	polymorphism_frequency=9.048e-01	polymorphism_score=5.0	prediction=consensus	ref_cov=1/3	total_cov=20/23
RA	228	.	NC_000913	2304537	0	A	G	bias_e_value=3359930	bias_p_value=0.723865	consensus_score=97.3	fisher_strand_p_value=0.356174	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=19/20	major_frequency=8.864e-01	minor_base=A	minor_cov=1/4	new_cov=19/20	polymorphism_frequency=8.864e-01	polymorphism_score=4.8	prediction=consensus	ref_cov=1/4	total_cov=20/24
RA	229	.	NC_000913	2304540	0	C	T	bias_e_value=3579150	bias_p_value=0.771094	consensus_score=96.8	fisher_strand_p_value=0.60788	frequency=1	ks_quality_p_value=0.6663	major_base=T	major_cov=19/19	major_frequency=9.048e-01	minor_base=C	minor_cov=1/3	new_cov=19/19	polymorphism_frequency=9.048e-01	polymorphism_score=5.0	prediction=consensus	ref_cov=1/3	total_cov=20/24
RA	230	.	NC_000913	2304549	0	C	T	bias_e_value=3819740	bias_p_value=0.822927	consensus_reject=FREQUENCY_CUTOFF	consensus_score=75.7	fisher_strand_p_value=0.467449	frequency=7.907e-01	ks_quality_p_value=1	major_base=T	major_cov=17/17	major_frequency=7.907e-01	minor_base=C	minor_cov=3/6	new_cov=17/17	polymorphism_frequency=7.907e-01	polymorphism_score=14.3	prediction=polymorphism	ref_cov=3/6	total_cov=20/24
RA	231	.	NC_000913	2304567	0	C	T	bias_e_value=1507740	bias_p_value=0.324827	consensus_reject=FREQUENCY_CUTOFF	consensus_score=39.7	fisher_strand_p_value=0.0976533	frequency=6.977e-01	ks_quality_p_value=1	major_base=T	major_cov=16/14	major_frequency=6.977e-01	minor_base=C	minor_cov=3/10	new_cov=16/14	polymorphism_frequency=6.977e-01	polymorphism_score=31.3	prediction=polymorphism	ref_cov=3/10	total_cov=19/24
RA	232	.	NC_000913	2304575	0	G	A	bias_e_value=1019830	bias_p_value=0.219713	consensus_reject=FREQUENCY_CUTOFF	consensus_score=31.0	fisher_strand_p_value=0.0567994	frequency=6.591e-01	ks_quality_p_value=1	major_base=A	major_cov=15/14	major_frequency=6.591e-01	minor_base=G	minor_cov=3/12	new_cov=15/14	polymorphism_frequency=6.591e-01	polymorphism_score=32.5	prediction=polymorphism	ref_cov=3/12	total_cov=18/27
RA	233	.	NC_000913	2365840	0	T	G	bias_e_value=0.0315273	bias_p_value=6.79226e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=380.2	fisher_strand_p_value=2.96083e-10	frequency=2.029e-01	ks_quality_p_value=1	major_base=T	major_cov=76/89	major_frequency=7.971e-01	minor_base=G	minor_cov=0/42	new_cov=0/42	polymorphism_frequency=2.029e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=76/89	total_cov=76/131
RA	234	.	NC_000913	2384808	0	C	T	bias_e_value=1267290	bias_p_value=0.273026	consensus_score=456.8	fisher_strand_p_value=0.0764556	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=80/57	major_frequency=9.786e-01	minor_base=C	minor_cov=0/3	new_cov=80/57	polymorphism_frequency=9.786e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/3	total_cov=80/60
RA	235	.	NC_000913	2410419	0	G	A	consensus_score=422.5	frequency=1	major_base=A	major_cov=65/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=65/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/54
RA	236	.	NC_000913	2433340	0	G	T	bias_e_value=0.0063814	bias_p_value=1.37481e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=145.9	fisher_strand_p_value=5.58685e-11	frequency=3.474e-01	ks_quality_p_value=1	major_base=G	major_cov=40/22	major_frequency=6.526e-01	minor_base=T	minor_cov=0/33	new_cov=0/33	polymorphism_frequency=3.474e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=40/22	total_cov=40/55
RA	237	.	NC_000913	2466633	0	C	A	bias_e_value=0.000406645	bias_p_value=8.76078e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=322.1	fisher_strand_p_value=3.18907e-12	frequency=2.323e-01	ks_quality_p_value=1	major_base=C	major_cov=48/71	major_frequency=7.677e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=2.323e-01	polymorphism_score=13.2	prediction=polymorphism	ref_cov=48/71	total_cov=84/71
RA	238	.	NC_000913	2470094	0	C	A	bias_e_value=0.00815586	bias_p_value=1.7571e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=349.6	fisher_strand_p_value=7.21537e-11	frequency=2.486e-01	ks_quality_p_value=1	major_base=C	major_cov=71/65	major_frequency=7.514e-01	minor_base=A	minor_cov=45/0	new_cov=45/0	polymorphism_frequency=2.486e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=71/65	total_cov=116/65
RA	239	.	NC_000913	2472817	0	C	A	bias_e_value=0.000418155	bias_p_value=9.00876e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=227.8	fisher_strand_p_value=3.2828e-12	frequency=2.917e-01	ks_quality_p_value=1	major_base=C	major_cov=31/54	major_frequency=7.083e-01	minor_base=A	minor_cov=35/0	new_cov=35/0	polymorphism_frequency=2.917e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=31/54	total_cov=66/54
RA	240	.	NC_000913	2484827	0	C	T	bias_e_value=4638710	bias_p_value=0.999367	consensus_score=534.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.964629	major_base=T	major_cov=77/79	major_frequency=9.936e-01	minor_base=.	minor_cov=0/1	new_cov=77/79	polymorphism_frequency=9.936e-01	polymorphism_score=-2.9	prediction=consensus	ref_cov=0/0	total_cov=77/80
RA	241	.	NC_000913	2564496	0	G	T	consensus_score=562.2	frequency=1	major_base=T	major_cov=70/94	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=70/94	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=70/94
RA	242	.	NC_000913	2604192	0	C	A	bias_e_value=2475930	bias_p_value=0.533415	consensus_score=410.2	fisher_strand_p_value=0.207243	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=57/70	major_frequency=9.845e-01	minor_base=C	minor_cov=2/0	new_cov=57/70	polymorphism_frequency=9.845e-01	polymorphism_score=NA	prediction=consensus	ref_cov=2/0	total_cov=59/70
RA	243	.	NC_000913	2613312	0	C	A	bias_e_value=0.504828	bias_p_value=1.0876e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=225.1	fisher_strand_p_value=5.42949e-09	frequency=2.677e-01	ks_quality_p_value=1	major_base=C	major_cov=36/57	major_frequency=7.323e-01	minor_base=A	minor_cov=32/2	new_cov=32/2	polymorphism_frequency=2.677e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=36/57	total_cov=68/59
RA	244	.	NC_000913	2716880	0	G	.	bias_e_value=3354680	bias_p_value=0.722735	consensus_score=533.5	fisher_strand_p_value=0.357143	frequency=1	ks_quality_p_value=0.994225	major_base=.	major_cov=39/72	major_frequency=9.911e-01	minor_base=A	minor_cov=1/0	new_cov=39/72	polymorphism_frequency=9.911e-01	polymorphism_score=-2.1	prediction=consensus	ref_cov=0/0	total_cov=40/72
RA	245	.	NC_000913	2722838	0	G	T	bias_e_value=7.36632e-14	bias_p_value=1.587e-20	consensus_reject=FREQUENCY_CUTOFF	consensus_score=242.5	fisher_strand_p_value=3.14183e-22	frequency=3.782e-01	ks_quality_p_value=1	major_base=G	major_cov=70/27	major_frequency=6.218e-01	minor_base=T	minor_cov=0/59	new_cov=0/59	polymorphism_frequency=3.782e-01	polymorphism_score=23.6	prediction=polymorphism	ref_cov=70/27	total_cov=70/86
RA	246	.	NC_000913	2737383	1	.	T	bias_e_value=4641650	bias_p_value=1	consensus_score=456.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999777	major_base=T	major_cov=55/78	major_frequency=9.852e-01	minor_base=.	minor_cov=1/1	new_cov=55/78	polymorphism_frequency=9.852e-01	polymorphism_score=0.3	prediction=consensus	ref_cov=1/1	total_cov=56/79
RA	247	.	NC_000913	2772966	0	G	T	bias_e_value=0.580711	bias_p_value=1.25109e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=181.9	fisher_strand_p_value=6.29193e-09	frequency=3.077e-01	ks_quality_p_value=1	major_base=G	major_cov=41/40	major_frequency=6.923e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=3.077e-01	polymorphism_score=11.3	prediction=polymorphism	ref_cov=41/40	total_cov=41/76
RA	248	.	NC_000913	2815937	0	G	T	bias_e_value=0.0116665	bias_p_value=2.51345e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=244.7	fisher_strand_p_value=1.0482e-10	frequency=2.754e-01	ks_quality_p_value=1	major_base=G	major_cov=54/46	major_frequency=7.246e-01	minor_base=T	minor_cov=0/38	new_cov=0/38	polymorphism_frequency=2.754e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=54/46	total_cov=54/84
RA	249	.	NC_000913	2818324	0	G	A	bias_e_value=2922910	bias_p_value=0.629713	consensus_reject=FREQUENCY_CUTOFF	consensus_score=147.8	fisher_strand_p_value=0.607497	frequency=2.469e-01	ks_quality_p_value=0.452285	major_base=G	major_cov=33/28	major_frequency=7.531e-01	minor_base=A	minor_cov=9/11	new_cov=9/11	polymorphism_frequency=2.469e-01	polymorphism_score=54.3	prediction=polymorphism	ref_cov=33/28	total_cov=42/39
RA	250	.	NC_000913	2818331	0	G	T	bias_e_value=4515050	bias_p_value=0.972724	consensus_reject=FREQUENCY_CUTOFF	consensus_score=183.5	fisher_strand_p_value=1	frequency=2.222e-01	ks_quality_p_value=0.775716	major_base=G	major_cov=32/31	major_frequency=7.778e-01	minor_base=T	minor_cov=9/9	new_cov=9/9	polymorphism_frequency=2.222e-01	polymorphism_score=36.0	prediction=polymorphism	ref_cov=32/31	total_cov=41/40
RA	251	.	NC_000913	2855852	0	C	A	bias_e_value=3.04291	bias_p_value=6.55567e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=142.8	fisher_strand_p_value=3.6148e-08	frequency=3.438e-01	ks_quality_p_value=1	major_base=C	major_cov=31/32	major_frequency=6.562e-01	minor_base=A	minor_cov=33/0	new_cov=33/0	polymorphism_frequency=3.438e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=31/32	total_cov=64/32
RA	252	.	NC_000913	2895349	0	G	T	bias_e_value=0.0420667	bias_p_value=9.06286e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=175.5	fisher_strand_p_value=4.00325e-10	frequency=2.667e-01	ks_quality_p_value=1	major_base=G	major_cov=46/20	major_frequency=7.333e-01	minor_base=T	minor_cov=0/24	new_cov=0/24	polymorphism_frequency=2.667e-01	polymorphism_score=12.9	prediction=polymorphism	ref_cov=46/20	total_cov=46/44
RA	253	.	NC_000913	2913085	0	G	T	bias_e_value=7.65685e-05	bias_p_value=1.6496e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=352.2	fisher_strand_p_value=5.64889e-13	frequency=2.316e-01	ks_quality_p_value=1	major_base=G	major_cov=78/58	major_frequency=7.684e-01	minor_base=T	minor_cov=0/41	new_cov=0/41	polymorphism_frequency=2.316e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=78/58	total_cov=78/99
RA	254	.	NC_000913	2959673	0	G	A	consensus_score=477.9	frequency=1	major_base=A	major_cov=85/53	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=85/53	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=85/53
RA	255	.	NC_000913	3032307	0	C	T	bias_e_value=0.0625556	bias_p_value=1.3477e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=281.9	fisher_strand_p_value=6.06433e-10	frequency=2.015e-01	ks_quality_p_value=1	major_base=C	major_cov=35/72	major_frequency=7.985e-01	minor_base=T	minor_cov=26/1	new_cov=26/1	polymorphism_frequency=2.015e-01	polymorphism_score=20.2	prediction=polymorphism	ref_cov=35/72	total_cov=61/73
RA	256	.	NC_000913	3054886	0	G	T	bias_e_value=0.0117279	bias_p_value=2.52666e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=248.1	fisher_strand_p_value=1.05395e-10	frequency=2.124e-01	ks_quality_p_value=1	major_base=G	major_cov=27/62	major_frequency=7.876e-01	minor_base=T	minor_cov=24/0	new_cov=24/0	polymorphism_frequency=2.124e-01	polymorphism_score=14.1	prediction=polymorphism	ref_cov=27/62	total_cov=51/62
RA	257	.	NC_000913	3088010	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=531.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=76/84	major_frequency=9.938e-01	minor_base=G	minor_cov=0/1	new_cov=76/84	polymorphism_frequency=9.938e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=76/85
RA	258	.	NC_000913	3088011	0	C	T	consensus_score=540.8	frequency=1	major_base=T	major_cov=76/85	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=76/85	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=76/85
RA	259	.	NC_000913	3161772	0	T	A	consensus_score=443.0	frequency=1	major_base=A	major_cov=77/49	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=77/49	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=77/49
RA	260	.	NC_000913	3168264	0	G	T	bias_e_value=0.0507984	bias_p_value=1.0944e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=332.3	fisher_strand_p_value=4.87673e-10	frequency=2.349e-01	ks_quality_p_value=1	major_base=G	major_cov=62/65	major_frequency=7.651e-01	minor_base=T	minor_cov=0/39	new_cov=0/39	polymorphism_frequency=2.349e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=62/65	total_cov=62/104
RA	261	.	NC_000913	3191376	0	G	T	bias_e_value=0.00911399	bias_p_value=1.96352e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=352.4	fisher_strand_p_value=8.10156e-11	frequency=2.353e-01	ks_quality_p_value=1	major_base=G	major_cov=68/75	major_frequency=7.647e-01	minor_base=T	minor_cov=0/44	new_cov=0/44	polymorphism_frequency=2.353e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=68/75	total_cov=68/119
RA	262	.	NC_000913	3226224	0	G	T	bias_e_value=0.00206417	bias_p_value=4.44706e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=270.7	fisher_strand_p_value=1.72478e-11	frequency=2.653e-01	ks_quality_p_value=1	major_base=G	major_cov=60/48	major_frequency=7.347e-01	minor_base=T	minor_cov=0/39	new_cov=0/39	polymorphism_frequency=2.653e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=60/48	total_cov=60/87
RA	263	.	NC_000913	3251380	0	T	A	consensus_score=372.0	frequency=1	major_base=A	major_cov=44/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/57
RA	264	.	NC_000913	3336411	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=396.4	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.99983	major_base=A	major_cov=55/53	major_frequency=9.908e-01	minor_base=G	minor_cov=1/0	new_cov=55/53	polymorphism_frequency=9.908e-01	polymorphism_score=-5.5	prediction=consensus	ref_cov=1/0	total_cov=56/53
RA	265	.	NC_000913	3336412	0	A	T	bias_e_value=4641650	bias_p_value=1	consensus_score=365.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999321	major_base=T	major_cov=55/53	major_frequency=9.908e-01	minor_base=A	minor_cov=1/0	new_cov=55/53	polymorphism_frequency=9.908e-01	polymorphism_score=-4.5	prediction=consensus	ref_cov=1/0	total_cov=56/53
RA	266	.	NC_000913	3388041	0	T	G	consensus_score=402.8	frequency=1	major_base=G	major_cov=53/55	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=53/55	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=53/55
RA	267	.	NC_000913	3410397	0	G	T	bias_e_value=9.06669e-05	bias_p_value=1.95333e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=357.0	fisher_strand_p_value=6.72933e-13	frequency=2.236e-01	ks_quality_p_value=1	major_base=G	major_cov=77/48	major_frequency=7.764e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=2.236e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=77/48	total_cov=77/84
RA	268	.	NC_000913	3431396	0	C	A	bias_e_value=0.0945048	bias_p_value=2.03602e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=294.3	fisher_strand_p_value=9.3433e-10	frequency=2.564e-01	ks_quality_p_value=1	major_base=C	major_cov=60/56	major_frequency=7.436e-01	minor_base=A	minor_cov=40/0	new_cov=40/0	polymorphism_frequency=2.564e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=60/56	total_cov=100/57
RA	269	.	NC_000913	3436697	0	G	A	consensus_score=332.3	frequency=1	major_base=A	major_cov=41/55	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/55	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/55
RA	270	.	NC_000913	3560455	1	.	G	consensus_score=447.0	frequency=1	major_base=G	major_cov=55/64	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=55/64	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=55/64
RA	271	.	NC_000913	3669715	0	G	T	bias_e_value=0.0629489	bias_p_value=1.35617e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=290.2	fisher_strand_p_value=6.10426e-10	frequency=2.137e-01	ks_quality_p_value=1	major_base=G	major_cov=62/41	major_frequency=7.863e-01	minor_base=T	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=2.137e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=62/41	total_cov=62/70
RA	272	.	NC_000913	3682515	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=402.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=64/53	major_frequency=9.915e-01	minor_base=C	minor_cov=1/0	new_cov=64/53	polymorphism_frequency=9.915e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=65/53
RA	273	.	NC_000913	3707947	0	C	A	consensus_score=554.8	frequency=1	major_base=A	major_cov=107/56	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=107/56	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=107/56
RA	274	.	NC_000913	3719481	0	G	A	consensus_score=459.6	frequency=1	major_base=A	major_cov=63/70	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=63/70	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=63/70
RA	275	.	NC_000913	3722230	0	G	T	bias_e_value=3.62266e-11	bias_p_value=7.80468e-18	consensus_reject=FREQUENCY_CUTOFF	consensus_score=436.8	fisher_strand_p_value=1.76656e-19	frequency=2.714e-01	ks_quality_p_value=1	major_base=G	major_cov=96/57	major_frequency=7.286e-01	minor_base=T	minor_cov=0/57	new_cov=0/57	polymorphism_frequency=2.714e-01	polymorphism_score=14.4	prediction=polymorphism	ref_cov=96/57	total_cov=96/114
RA	276	.	NC_000913	3725176	0	T	G	consensus_score=311.1	frequency=1	major_base=G	major_cov=48/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=48/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=48/39
RA	277	.	NC_000913	3732301	0	C	A	bias_e_value=9.34946e-05	bias_p_value=2.01425e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=377.6	fisher_strand_p_value=6.94682e-13	frequency=2.197e-01	ks_quality_p_value=1	major_base=C	major_cov=55/80	major_frequency=7.803e-01	minor_base=A	minor_cov=38/0	new_cov=38/0	polymorphism_frequency=2.197e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=55/80	total_cov=93/80
RA	278	.	NC_000913	3768435	0	C	A	bias_e_value=3.22136e-10	bias_p_value=6.94011e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=379.3	fisher_strand_p_value=1.65466e-18	frequency=2.864e-01	ks_quality_p_value=1	major_base=C	major_cov=59/88	major_frequency=7.136e-01	minor_base=A	minor_cov=59/0	new_cov=59/0	polymorphism_frequency=2.864e-01	polymorphism_score=19.3	prediction=polymorphism	ref_cov=59/88	total_cov=118/88
RA	279	.	NC_000913	3771979	0	G	T	consensus_score=491.5	frequency=1	major_base=T	major_cov=59/83	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=59/83	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=59/83
RA	280	.	NC_000913	3773173	0	G	.	bias_e_value=3969680	bias_p_value=0.855229	consensus_score=620.8	fisher_strand_p_value=0.512838	frequency=1	ks_quality_p_value=0.999767	major_base=.	major_cov=76/54	major_frequency=9.848e-01	minor_base=G	minor_cov=2/0	new_cov=76/54	polymorphism_frequency=9.848e-01	polymorphism_score=0.3	prediction=consensus	ref_cov=2/0	total_cov=78/54
RA	281	.	NC_000913	3773176	0	C	T	bias_e_value=3968690	bias_p_value=0.855016	consensus_score=469.0	fisher_strand_p_value=0.5124	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=77/55	major_frequency=9.851e-01	minor_base=C	minor_cov=2/0	new_cov=77/55	polymorphism_frequency=9.851e-01	polymorphism_score=NA	prediction=consensus	ref_cov=2/0	total_cov=79/55
RA	282	.	NC_000913	3801769	0	C	T	consensus_score=777.3	frequency=1	major_base=T	major_cov=128/81	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=128/81	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=128/81
RA	283	.	NC_000913	3806894	0	G	A	bias_e_value=3901420	bias_p_value=0.840523	consensus_score=395.2	fisher_strand_p_value=0.491379	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=56/59	major_frequency=9.914e-01	minor_base=G	minor_cov=1/0	new_cov=56/59	polymorphism_frequency=9.914e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=57/59
RA	284	.	NC_000913	3814002	0	C	T	bias_e_value=3123160	bias_p_value=0.672855	consensus_score=384.0	fisher_strand_p_value=0.310924	frequency=1	ks_quality_p_value=0.996446	major_base=T	major_cov=36/82	major_frequency=9.916e-01	minor_base=C	minor_cov=1/0	new_cov=36/82	polymorphism_frequency=9.916e-01	polymorphism_score=-6.2	prediction=consensus	ref_cov=1/0	total_cov=37/82
RA	285	.	NC_000913	3815883	1	.	C	bias_e_value=686864	bias_p_value=0.147978	consensus_score=444.0	fisher_strand_p_value=0.0337078	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=47/66	major_frequency=9.658e-01	minor_base=A	minor_cov=4/0	new_cov=47/66	polymorphism_frequency=9.658e-01	polymorphism_score=-4.3	prediction=consensus	ref_cov=2/2	total_cov=53/68
RA	286	.	NC_000913	3817167	0	C	T	bias_e_value=3916130	bias_p_value=0.843692	consensus_score=408.3	fisher_strand_p_value=0.495868	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=61/59	major_frequency=9.917e-01	minor_base=G	minor_cov=0/1	new_cov=61/59	polymorphism_frequency=9.917e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=61/60
RA	287	.	NC_000913	3823064	0	G	A	bias_e_value=4178970	bias_p_value=0.90032	consensus_reject=FREQUENCY_CUTOFF	consensus_score=109.9	fisher_strand_p_value=0.588142	frequency=6.045e-01	ks_quality_p_value=1	major_base=A	major_cov=34/47	major_frequency=6.045e-01	minor_base=G	minor_cov=19/34	new_cov=34/47	polymorphism_frequency=6.045e-01	polymorphism_score=157.7	prediction=polymorphism	ref_cov=19/34	total_cov=53/82
RA	288	.	NC_000913	3823162	0	C	T	consensus_score=368.6	frequency=1	major_base=T	major_cov=33/78	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=33/78	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=33/78
RA	289	.	NC_000913	3843750	0	C	A	bias_e_value=0.00261766	bias_p_value=5.63949e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=357.4	fisher_strand_p_value=2.20843e-11	frequency=2.461e-01	ks_quality_p_value=1	major_base=C	major_cov=76/68	major_frequency=7.539e-01	minor_base=A	minor_cov=47/0	new_cov=47/0	polymorphism_frequency=2.461e-01	polymorphism_score=13.2	prediction=polymorphism	ref_cov=76/68	total_cov=123/68
RA	290	.	NC_000913	3869637	0	C	A	consensus_score=372.9	frequency=1	major_base=A	major_cov=42/63	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=42/63	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=42/63
RA	291	.	NC_000913	3878536	0	G	A	consensus_score=356.1	frequency=1	major_base=A	major_cov=36/63	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=36/63	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=36/63
RA	292	.	NC_000913	3911533	0	C	A	bias_e_value=1.77901e-10	bias_p_value=3.83272e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=255.2	fisher_strand_p_value=9.00734e-19	frequency=3.642e-01	ks_quality_p_value=1	major_base=C	major_cov=43/67	major_frequency=6.358e-01	minor_base=A	minor_cov=63/0	new_cov=63/0	polymorphism_frequency=3.642e-01	polymorphism_score=28.3	prediction=polymorphism	ref_cov=43/67	total_cov=106/67
RA	293	.	NC_000913	3926250	0	A	G	bias_e_value=911362	bias_p_value=0.196344	consensus_score=495.9	fisher_strand_p_value=0.0488553	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=57/93	major_frequency=9.554e-01	minor_base=T	minor_cov=0/7	new_cov=57/93	polymorphism_frequency=9.554e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=57/100
RA	294	.	NC_000913	3993531	0	T	C	consensus_score=398.5	frequency=1	major_base=C	major_cov=57/49	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=57/49	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=57/49
RA	295	.	NC_000913	3996049	0	T	A	consensus_score=313.6	frequency=1	major_base=A	major_cov=43/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=43/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/46
RA	296	.	NC_000913	4011802	0	C	T	consensus_score=419.5	frequency=1	major_base=T	major_cov=43/79	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=43/79	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/79
RA	297	.	NC_000913	4074572	0	C	A	bias_e_value=4.8618	bias_p_value=1.04743e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=214.2	fisher_strand_p_value=5.93804e-08	frequency=2.764e-01	ks_quality_p_value=1	major_base=C	major_cov=42/47	major_frequency=7.236e-01	minor_base=A	minor_cov=33/1	new_cov=33/1	polymorphism_frequency=2.764e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=42/47	total_cov=75/48
RA	298	.	NC_000913	4084903	0	T	G	bias_e_value=579156	bias_p_value=0.124774	consensus_score=379.5	fisher_strand_p_value=0.0270697	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=55/49	major_frequency=9.541e-01	minor_base=T	minor_cov=0/5	new_cov=55/49	polymorphism_frequency=9.541e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/5	total_cov=55/54
RA	299	.	NC_000913	4091686	0	A	T	bias_e_value=4641650	bias_p_value=1	consensus_score=389.4	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=56/52	major_frequency=9.908e-01	minor_base=C	minor_cov=1/0	new_cov=56/52	polymorphism_frequency=9.908e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=57/52
RA	300	.	NC_000913	4092703	0	A	G	consensus_score=487.1	frequency=1	major_base=G	major_cov=73/55	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=73/55	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=73/55
RA	301	.	NC_000913	4113851	0	G	A	consensus_score=475.3	frequency=1	major_base=A	major_cov=74/64	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=74/64	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=74/64
RA	302	.	NC_000913	4143377	0	C	T	bias_e_value=3855680	bias_p_value=0.830669	consensus_score=323.1	fisher_strand_p_value=0.477778	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=47/42	major_frequency=9.889e-01	minor_base=G	minor_cov=0/1	new_cov=47/42	polymorphism_frequency=9.889e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/43
RA	303	.	NC_000913	4161248	0	G	T	bias_e_value=4641650	bias_p_value=1	consensus_score=356.9	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=38/68	major_frequency=9.907e-01	minor_base=G	minor_cov=0/1	new_cov=38/68	polymorphism_frequency=9.907e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=38/69
RA	304	.	NC_000913	4164123	0	C	G	bias_e_value=3924520	bias_p_value=0.8455	consensus_score=530.9	fisher_strand_p_value=0.498455	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=71/78	major_frequency=9.868e-01	minor_base=T	minor_cov=0/2	new_cov=71/78	polymorphism_frequency=9.868e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=71/80
RA	305	.	NC_000913	4175583	0	G	T	bias_e_value=0.00121938	bias_p_value=2.62704e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=264.5	fisher_strand_p_value=9.9771e-12	frequency=2.583e-01	ks_quality_p_value=1	major_base=G	major_cov=58/31	major_frequency=7.417e-01	minor_base=T	minor_cov=0/31	new_cov=0/31	polymorphism_frequency=2.583e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=58/31	total_cov=58/62
RA	306	.	NC_000913	4193996	0	T	G	consensus_score=301.4	frequency=1	major_base=G	major_cov=38/44	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/44	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/44
RA	307	.	NC_000913	4196331	0	C	G	consensus_score=566.2	frequency=1	major_base=G	major_cov=82/66	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=82/66	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=82/66
RA	308	.	NC_000913	4213310	0	G	T	bias_e_value=1.2875e-10	bias_p_value=2.7738e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=327.2	fisher_strand_p_value=6.46841e-19	frequency=2.930e-01	ks_quality_p_value=1	major_base=G	major_cov=79/32	major_frequency=7.070e-01	minor_base=T	minor_cov=0/46	new_cov=0/46	polymorphism_frequency=2.930e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=79/32	total_cov=79/78
RA	309	.	NC_000913	4215347	0	T	A	bias_e_value=3798710	bias_p_value=0.818395	consensus_score=664.1	fisher_strand_p_value=0.461538	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=89/105	major_frequency=9.949e-01	minor_base=C	minor_cov=1/0	new_cov=89/105	polymorphism_frequency=9.949e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=90/105
RA	310	.	NC_000913	4223638	0	T	C	bias_e_value=3920950	bias_p_value=0.844732	consensus_score=526.3	fisher_strand_p_value=0.497353	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=72/68	major_frequency=9.859e-01	minor_base=A	minor_cov=2/0	new_cov=72/68	polymorphism_frequency=9.859e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=74/68
RA	311	.	NC_000913	4282332	1	.	A	bias_e_value=4641650	bias_p_value=1	consensus_score=648.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=89/89	major_frequency=9.944e-01	minor_base=.	minor_cov=0/1	new_cov=89/89	polymorphism_frequency=9.944e-01	polymorphism_score=-4.2	prediction=consensus	ref_cov=0/1	total_cov=89/90
RA	312	.	NC_000913	4293781	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=352.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=45/56	major_frequency=9.902e-01	minor_base=G	minor_cov=0/1	new_cov=45/56	polymorphism_frequency=9.902e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=45/57
RA	313	.	NC_000913	4293782	0	C	T	consensus_score=349.1	frequency=1	major_base=T	major_cov=45/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/57
RA	314	.	NC_000913	4296268	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=87.0	fisher_strand_p_value=1	frequency=2.917e-01	ks_quality_p_value=1	major_base=T	major_cov=20/14	major_frequency=7.083e-01	minor_base=C	minor_cov=9/5	new_cov=9/5	polymorphism_frequency=2.917e-01	polymorphism_score=29.6	prediction=polymorphism	ref_cov=20/14	total_cov=29/19
RA	315	.	NC_000913	4296380	1	.	C	bias_e_value=4016640	bias_p_value=0.865348	consensus_score=295.5	fisher_strand_p_value=0.582051	frequency=1	ks_quality_p_value=0.907503	major_base=C	major_cov=48/37	major_frequency=9.659e-01	minor_base=T	minor_cov=1/2	new_cov=48/37	polymorphism_frequency=9.659e-01	polymorphism_score=1.0	prediction=consensus	ref_cov=0/0	total_cov=49/39
RA	316	.	NC_000913	4296380	2	.	G	consensus_score=308.8	frequency=1	major_base=G	major_cov=49/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/39
RA	317	.	NC_000913	4325644	0	C	T	bias_e_value=4040240	bias_p_value=0.870432	consensus_score=367.7	fisher_strand_p_value=0.536275	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=43/75	major_frequency=9.833e-01	minor_base=G	minor_cov=0/2	new_cov=43/75	polymorphism_frequency=9.833e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/77
RA	318	.	NC_000913	4358565	0	G	T	consensus_score=551.7	frequency=1	major_base=T	major_cov=75/79	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=75/79	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=75/79
RA	319	.	NC_000913	4360965	0	C	A	bias_e_value=5.69471e-08	bias_p_value=1.22687e-14	consensus_reject=FREQUENCY_CUTOFF	consensus_score=367.6	fisher_strand_p_value=3.34912e-16	frequency=2.440e-01	ks_quality_p_value=1	major_base=C	major_cov=42/85	major_frequency=7.560e-01	minor_base=A	minor_cov=41/0	new_cov=41/0	polymorphism_frequency=2.440e-01	polymorphism_score=12.4	prediction=polymorphism	ref_cov=42/85	total_cov=83/85
RA	320	.	NC_000913	4380402	0	T	A	consensus_score=399.3	frequency=1	major_base=A	major_cov=57/58	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=57/58	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=57/58
RA	321	.	NC_000913	4392997	0	G	A	bias_e_value=3424680	bias_p_value=0.737816	consensus_score=614.8	fisher_strand_p_value=0.369942	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=63/109	major_frequency=9.942e-01	minor_base=C	minor_cov=1/0	new_cov=63/109	polymorphism_frequency=9.942e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=64/109
RA	322	.	NC_000913	4393552	0	G	A	consensus_score=426.0	frequency=1	major_base=A	major_cov=71/51	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=71/51	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=71/51
RA	323	.	NC_000913	4396373	0	C	T	bias_e_value=3694960	bias_p_value=0.796043	consensus_score=292.4	fisher_strand_p_value=0.433735	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=47/35	major_frequency=9.880e-01	minor_base=G	minor_cov=0/1	new_cov=47/35	polymorphism_frequency=9.880e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/36
RA	324	.	NC_000913	4396772	0	T	C	consensus_score=332.8	frequency=1	major_base=C	major_cov=47/45	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=47/45	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/45
RA	325	.	NC_000913	4425688	0	C	A	bias_e_value=4641650	bias_p_value=1	consensus_score=463.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=65/65	major_frequency=9.924e-01	minor_base=G	minor_cov=0/1	new_cov=65/65	polymorphism_frequency=9.924e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/66
RA	326	.	NC_000913	4425696	0	C	A	consensus_score=453.7	frequency=1	major_base=A	major_cov=63/65	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=63/65	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=63/65
RA	327	.	NC_000913	4510238	0	T	G	bias_e_value=23909.2	bias_p_value=0.00515101	consensus_score=555.2	fisher_strand_p_value=0.000613482	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=98/60	major_frequency=9.518e-01	minor_base=T	minor_cov=0/8	new_cov=98/60	polymorphism_frequency=9.518e-01	polymorphism_score=-5.6	prediction=consensus	ref_cov=0/8	total_cov=98/68
RA	328	.	NC_000913	4532409	0	T	G	consensus_score=422.7	frequency=1	major_base=G	major_cov=65/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=65/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/46
RA	329	.	NC_000913	4540411	0	C	A	bias_e_value=4.64072e-09	bias_p_value=9.998e-16	consensus_reject=FREQUENCY_CUTOFF	consensus_score=384.7	fisher_strand_p_value=2.55e-17	frequency=2.714e-01	ks_quality_p_value=1	major_base=C	major_cov=65/88	major_frequency=7.286e-01	minor_base=A	minor_cov=57/0	new_cov=57/0	polymorphism_frequency=2.714e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=65/88	total_cov=122/88
RA	330	.	NC_000913	4546601	0	C	T	bias_e_value=3897080	bias_p_value=0.839589	consensus_score=515.2	fisher_strand_p_value=0.490066	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=77/73	major_frequency=9.934e-01	minor_base=G	minor_cov=0/1	new_cov=77/73	polymorphism_frequency=9.934e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=77/74
RA	331	.	NC_000913	4636925	0	G	C	consensus_score=359.9	frequency=1	major_base=C	major_cov=44/51	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/51	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/51
RA	332	.	NC_000913	4638240	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=407.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999449	major_base=A	major_cov=61/59	major_frequency=9.917e-01	minor_base=C	minor_cov=1/0	new_cov=61/59	polymorphism_frequency=9.917e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=62/59
MC	333	.	NC_000913	257908	258683	766	0	left_inside_cov=0	left_outside_cov=172	right_inside_cov=0	right_outside_cov=172
MC	334	.	NC_000913	1196299	1211460	0	0	left_inside_cov=41	left_outside_cov=42	right_inside_cov=39	right_outside_cov=44
MC	335	.	NC_000913	1978495	1979270	0	0	left_inside_cov=0	left_outside_cov=138	right_inside_cov=0	right_outside_cov=129
MC	336	.	NC_000913	3130357	3147766	988	0	left_inside_cov=40	left_outside_cov=42	right_inside_cov=0	right_outside_cov=134
MC	337	.	NC_000913	3423815	3424467	419	228	left_inside_cov=41	left_outside_cov=43	right_inside_cov=41	right_outside_cov=42
MC	338	.	NC_000913	3708467	3708634	0	0	left_inside_cov=0	left_outside_cov=52	right_inside_cov=23	right_outside_cov=75
JC	339	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=87	coverage_plus=69	flanking_left=300	flanking_right=300	frequency=1	ignore=CIRCULAR_CHROMOSOME	junction_possible_overlap_registers=294	key=NC_000913__1__1__NC_000913__4641652__-1__0____300__300__0__0	max_left=297	max_left_minus=297	max_left_plus=229	max_min_left=148	max_min_left_minus=148	max_min_left_plus=148	max_min_right=144	max_min_right_minus=141	max_min_right_plus=144	max_pos_hash_score=588	max_right=295	max_right_minus=289	max_right_plus=295	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.33	new_junction_read_count=161	polymorphism_frequency=1.000e+00	pos_hash_score=81	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	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=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=156
JC	340	.	NC_000913	126288	-1	NC_000913	126829	1	0	alignment_overlap=18	coverage_minus=4	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=7.579e-02	junction_possible_overlap_registers=276	key=NC_000913__126288__-1__NC_000913__126811__1__18____300__300__0__0	max_left=105	max_left_minus=105	max_left_plus=34	max_min_left=34	max_min_left_minus=31	max_min_left_plus=34	max_min_right=23	max_min_right_minus=23	max_min_right_plus=0	max_pos_hash_score=552	max_right=133	max_right_minus=133	max_right_plus=133	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.07	new_junction_read_count=8	polymorphism_frequency=7.579e-02	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.80	side_1_overlap=18	side_1_possible_overlap_registers=294	side_1_read_count=96	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.93	side_2_overlap=0	side_2_possible_overlap_registers=276	side_2_read_count=105	side_2_redundant=0	total_non_overlap_reads=8
JC	341	.	NC_000913	248161	-1	NC_000913	248263	1	0	alignment_overlap=24	coverage_minus=5	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.050e-02	junction_possible_overlap_registers=270	key=NC_000913__248161__-1__NC_000913__248239__1__24____300__300__0__0	max_left=214	max_left_minus=94	max_left_plus=214	max_min_left=94	max_min_left_minus=94	max_min_left_plus=94	max_min_right=60	max_min_right_minus=0	max_min_right_plus=60	max_pos_hash_score=540	max_right=267	max_right_minus=267	max_right_plus=267	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.07	new_junction_read_count=8	polymorphism_frequency=7.050e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.02	side_1_overlap=24	side_1_possible_overlap_registers=294	side_1_read_count=123	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.88	side_2_overlap=0	side_2_possible_overlap_registers=270	side_2_read_count=98	side_2_redundant=0	total_non_overlap_reads=8
JC	342	.	NC_000913	257907	-1	NC_000913	258684	1	0	alignment_overlap=8	coverage_minus=65	coverage_plus=103	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=286	key=NC_000913__257907__-1__NC_000913__258676__1__8____300__300__0__0	max_left=291	max_left_minus=291	max_left_plus=282	max_min_left=144	max_min_left_minus=144	max_min_left_plus=137	max_min_right=144	max_min_right_minus=140	max_min_right_plus=144	max_pos_hash_score=572	max_right=289	max_right_minus=289	max_right_plus=267	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.47	new_junction_read_count=172	polymorphism_frequency=1.000e+00	pos_hash_score=77	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=294	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=286	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=168
JC	343	.	NC_000913	271761	-1	NC_000913	1067753	1	0	alignment_overlap=3	coverage_minus=7	coverage_plus=12	flanking_left=300	flanking_right=300	frequency=1.031e-01	junction_possible_overlap_registers=291	key=NC_000913__271764__-1__NC_000913__1067753__1__3____300__300__0__0	max_left=174	max_left_minus=174	max_left_plus=126	max_min_left=126	max_min_left_minus=111	max_min_left_plus=126	max_min_right=136	max_min_right_minus=136	max_min_right_plus=0	max_pos_hash_score=582	max_right=287	max_right_minus=208	max_right_plus=287	neg_log10_pos_hash_p_value=6.3	new_junction_coverage=0.16	new_junction_read_count=19	polymorphism_frequency=1.031e-01	pos_hash_score=13	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	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=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.38	side_2_overlap=3	side_2_possible_overlap_registers=294	side_2_read_count=167	side_2_redundant=0	total_non_overlap_reads=19
JC	344	.	NC_000913	271761	-1	NC_000913	4233865	-1	0	alignment_overlap=1	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=1.720e-02	junction_possible_overlap_registers=293	key=NC_000913__271762__-1__NC_000913__4233865__-1__1____300__300__0__0	max_left=91	max_left_minus=91	max_left_plus=50	max_min_left=91	max_min_left_minus=91	max_min_left_plus=50	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=586	max_right=272	max_right_minus=272	max_right_plus=249	neg_log10_pos_hash_p_value=10.7	new_junction_coverage=0.02	new_junction_read_count=3	polymorphism_frequency=1.720e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	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=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.43	side_2_overlap=1	side_2_possible_overlap_registers=294	side_2_read_count=172	side_2_redundant=0	total_non_overlap_reads=3
JC	345	.	NC_000913	273955	1	NC_000913	313727	-1	0	alignment_overlap=0	coverage_minus=25	coverage_plus=37	flanking_left=300	flanking_right=300	frequency=3.119e-01	junction_possible_overlap_registers=294	key=NC_000913__273955__1__NC_000913__313727__-1__0____300__300__1__0	max_left=281	max_left_minus=281	max_left_plus=260	max_min_left=133	max_min_left_minus=133	max_min_left_plus=131	max_min_right=147	max_min_right_minus=135	max_min_right_plus=147	max_pos_hash_score=588	max_right=298	max_right_minus=298	max_right_plus=280	neg_log10_pos_hash_p_value=1.5	new_junction_coverage=0.52	new_junction_read_count=63	polymorphism_frequency=3.119e-01	pos_hash_score=44	prediction=polymorphism	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.15	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=139	side_2_redundant=0	total_non_overlap_reads=62
JC	346	.	NC_000913	275149	-1	NC_000913	313724	1	0	alignment_overlap=0	coverage_minus=44	coverage_plus=26	flanking_left=300	flanking_right=300	frequency=3.365e-01	junction_possible_overlap_registers=294	key=NC_000913__275149__-1__NC_000913__313724__1__0____300__300__1__0	max_left=293	max_left_minus=288	max_left_plus=293	max_min_left=146	max_min_left_minus=146	max_min_left_plus=121	max_min_right=144	max_min_right_minus=144	max_min_right_plus=114	max_pos_hash_score=588	max_right=296	max_right_minus=296	max_right_plus=283	neg_log10_pos_hash_p_value=1.4	new_junction_coverage=0.59	new_junction_read_count=71	polymorphism_frequency=3.365e-01	pos_hash_score=45	prediction=polymorphism	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.16	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=140	side_2_redundant=0	total_non_overlap_reads=70
JC	347	.	NC_000913	280111	-1	NC_000913	1067753	1	0	alignment_overlap=0	coverage_minus=7	coverage_plus=12	flanking_left=300	flanking_right=300	frequency=1.022e-01	junction_possible_overlap_registers=294	key=NC_000913__280111__-1__NC_000913__1067753__1__0____300__300__0__0	max_left=174	max_left_minus=174	max_left_plus=126	max_min_left=126	max_min_left_minus=111	max_min_left_plus=126	max_min_right=139	max_min_right_minus=139	max_min_right_plus=0	max_pos_hash_score=588	max_right=290	max_right_minus=211	max_right_plus=290	neg_log10_pos_hash_p_value=6.3	new_junction_coverage=0.16	new_junction_read_count=19	polymorphism_frequency=1.022e-01	pos_hash_score=13	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	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=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.38	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=167	side_2_redundant=0	total_non_overlap_reads=19
JC	348	.	NC_000913	280111	-1	NC_000913	4233865	-1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=1.714e-02	junction_possible_overlap_registers=294	key=NC_000913__280111__-1__NC_000913__4233865__-1__0____300__300__0__0	max_left=91	max_left_minus=91	max_left_plus=50	max_min_left=91	max_min_left_minus=91	max_min_left_plus=50	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=588	max_right=273	max_right_minus=273	max_right_plus=250	neg_log10_pos_hash_p_value=10.8	new_junction_coverage=0.02	new_junction_read_count=3	polymorphism_frequency=1.714e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	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=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.43	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=172	side_2_redundant=0	total_non_overlap_reads=3
JC	349	.	NC_000913	308155	1	NC_000913	382590	-1	0	alignment_overlap=2	coverage_minus=6	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=9.016e-02	junction_possible_overlap_registers=292	key=NC_000913__308153__1__NC_000913__382590__-1__2____300__300__0__1	max_left=282	max_left_minus=282	max_left_plus=194	max_min_left=148	max_min_left_minus=148	max_min_left_plus=118	max_min_right=144	max_min_right_minus=144	max_min_right_plus=137	max_pos_hash_score=584	max_right=233	max_right_minus=233	max_right_plus=189	neg_log10_pos_hash_p_value=6.9	new_junction_coverage=0.09	new_junction_read_count=11	polymorphism_frequency=9.016e-02	pos_hash_score=11	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.93	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=111	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=2	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=11
JC	350	.	NC_000913	308159	-1	NC_000913	1469240	-1	0	alignment_overlap=3	coverage_minus=5	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.080e-02	junction_possible_overlap_registers=291	key=NC_000913__308162__-1__NC_000913__1469240__-1__3____300__300__0__1	max_left=295	max_left_minus=270	max_left_plus=295	max_min_left=132	max_min_left_minus=127	max_min_left_plus=132	max_min_right=125	max_min_right_minus=125	max_min_right_plus=17	max_pos_hash_score=582	max_right=293	max_right_minus=293	max_right_plus=165	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.07	new_junction_read_count=8	polymorphism_frequency=7.080e-02	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.88	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=105	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=3	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=8
JC	351	.	NC_000913	315369	-1	NC_000913	1979134	1	-8	alignment_overlap=-8	coverage_minus=3	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=1.191e-01	junction_possible_overlap_registers=286	key=NC_000913__315369__-1__NC_000913__1979134__1__-8__GGATCCGG__300__300__0__0	max_left=134	max_left_minus=134	max_left_plus=0	max_min_left=134	max_min_left_minus=134	max_min_left_plus=0	max_min_right=111	max_min_right_minus=111	max_min_right_plus=0	max_pos_hash_score=572	max_right=138	max_right_minus=138	max_right_plus=0	neg_log10_pos_hash_p_value=10.6	new_junction_coverage=0.04	new_junction_read_count=5	polymorphism_frequency=1.191e-01	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.63	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=76	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=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=3	unique_read_sequence=GGATCCGG
JC	352	.	NC_000913	349641	-1	NC_000913	349921	1	0	alignment_overlap=26	coverage_minus=5	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.095e-01	junction_possible_overlap_registers=268	key=NC_000913__349641__-1__NC_000913__349895__1__26____300__300__0__0	max_left=243	max_left_minus=243	max_left_plus=177	max_min_left=92	max_min_left_minus=0	max_min_left_plus=92	max_min_right=133	max_min_right_minus=133	max_min_right_plus=93	max_pos_hash_score=536	max_right=261	max_right_minus=133	max_right_plus=261	neg_log10_pos_hash_p_value=7.1	new_junction_coverage=0.09	new_junction_read_count=10	polymorphism_frequency=1.095e-01	pos_hash_score=9	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.69	side_1_overlap=26	side_1_possible_overlap_registers=294	side_1_read_count=83	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.79	side_2_overlap=0	side_2_possible_overlap_registers=268	side_2_read_count=87	side_2_redundant=0	total_non_overlap_reads=10
JC	353	.	NC_000913	382590	-1	NC_000913	572857	1	0	alignment_overlap=0	coverage_minus=0	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=2.516e-02	junction_possible_overlap_registers=294	key=NC_000913__382590__-1__NC_000913__572857__1__0____300__300__1__0	max_left=280	max_left_minus=0	max_left_plus=280	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=135	max_min_right_minus=0	max_min_right_plus=135	max_pos_hash_score=588	max_right=135	max_right_minus=0	max_right_plus=135	neg_log10_pos_hash_p_value=10.8	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=2.516e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.28	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=155	side_2_redundant=0	total_non_overlap_reads=3
JC	354	.	NC_000913	392823	1	NC_000913	1979134	1	-8	alignment_overlap=-8	coverage_minus=4	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=2.634e-01	junction_possible_overlap_registers=286	key=NC_000913__392823__1__NC_000913__1979134__1__-8__GGATCCGG__300__300__0__0	max_left=142	max_left_minus=142	max_left_plus=0	max_min_left=134	max_min_left_minus=134	max_min_left_plus=0	max_min_right=135	max_min_right_minus=135	max_min_right_plus=0	max_pos_hash_score=572	max_right=138	max_right_minus=138	max_right_plus=0	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.10	new_junction_read_count=12	polymorphism_frequency=2.634e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.57	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=69	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=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=GGATCCGG
JC	355	.	NC_000913	566920	-1	NC_000913	1979134	1	-8	alignment_overlap=-8	coverage_minus=4	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=2.984e-01	junction_possible_overlap_registers=286	key=NC_000913__566920__-1__NC_000913__1979134__1__-8__GGATCCGG__300__300__0__0	max_left=142	max_left_minus=142	max_left_plus=0	max_min_left=134	max_min_left_minus=134	max_min_left_plus=0	max_min_right=135	max_min_right_minus=135	max_min_right_plus=0	max_pos_hash_score=572	max_right=138	max_right_minus=138	max_right_plus=0	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.10	new_junction_read_count=12	polymorphism_frequency=2.984e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.48	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=58	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=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=GGATCCGG
JC	356	.	NC_000913	676984	-1	NC_000913	687851	1	0	alignment_overlap=0	coverage_minus=28	coverage_plus=30	flanking_left=300	flanking_right=300	frequency=6.020e-01	junction_possible_overlap_registers=294	key=NC_000913__676984__-1__NC_000913__687851__1__0____300__300__0__1	max_left=298	max_left_minus=295	max_left_plus=298	max_min_left=146	max_min_left_minus=146	max_min_left_plus=135	max_min_right=146	max_min_right_minus=146	max_min_right_plus=112	max_pos_hash_score=588	max_right=294	max_right_minus=294	max_right_plus=263	neg_log10_pos_hash_p_value=1.7	new_junction_coverage=0.49	new_junction_read_count=59	polymorphism_frequency=6.020e-01	pos_hash_score=41	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.32	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=39	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=58
JC	357	.	NC_000913	696578	-1	NC_000913	696902	1	0	alignment_overlap=10	coverage_minus=4	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=9.990e-02	junction_possible_overlap_registers=284	key=NC_000913__696578__-1__NC_000913__696892__1__10____300__300__0__0	max_left=189	max_left_minus=107	max_left_plus=189	max_min_left=107	max_min_left_minus=107	max_min_left_plus=74	max_min_right=101	max_min_right_minus=0	max_min_right_plus=101	max_pos_hash_score=568	max_right=215	max_right_minus=189	max_right_plus=215	neg_log10_pos_hash_p_value=7.5	new_junction_coverage=0.08	new_junction_read_count=9	polymorphism_frequency=9.990e-02	pos_hash_score=9	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.69	side_1_overlap=10	side_1_possible_overlap_registers=294	side_1_read_count=83	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.70	side_2_overlap=0	side_2_possible_overlap_registers=284	side_2_read_count=82	side_2_redundant=0	total_non_overlap_reads=9
JC	358	.	NC_000913	732239	-1	NC_000913	3622029	1	0	alignment_overlap=12	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=9.987e-02	junction_possible_overlap_registers=282	key=NC_000913__732239__-1__NC_000913__3622017__1__12____300__300__0__0	max_left=215	max_left_minus=215	max_left_plus=40	max_min_left=122	max_min_left_minus=122	max_min_left_plus=40	max_min_right=73	max_min_right_minus=73	max_min_right_plus=0	max_pos_hash_score=564	max_right=275	max_right_minus=165	max_right_plus=275	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=9.987e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.59	side_1_overlap=12	side_1_possible_overlap_registers=294	side_1_read_count=71	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=4	side_2_redundant=0	total_non_overlap_reads=4
JC	359	.	NC_000913	732239	-1	NC_000913	3765020	1	0	alignment_overlap=12	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=7.884e-02	junction_possible_overlap_registers=282	key=NC_000913__732239__-1__NC_000913__3765008__1__12____300__300__0__0	max_left=215	max_left_minus=215	max_left_plus=40	max_min_left=122	max_min_left_minus=122	max_min_left_plus=40	max_min_right=73	max_min_right_minus=73	max_min_right_plus=0	max_pos_hash_score=564	max_right=248	max_right_minus=165	max_right_plus=248	neg_log10_pos_hash_p_value=10.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=7.884e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.59	side_1_overlap=12	side_1_possible_overlap_registers=294	side_1_read_count=71	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.02	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=2	side_2_redundant=0	total_non_overlap_reads=3
JC	360	.	NC_000913	781369	1	NC_000913	2521006	-1	-2	alignment_overlap=-2	coverage_minus=4	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=9.288e-02	junction_possible_overlap_registers=292	key=NC_000913__781369__1__NC_000913__2521006__-1__-2__GG__300__300__0__0	max_left=278	max_left_minus=278	max_left_plus=111	max_min_left=75	max_min_left_minus=0	max_min_left_plus=75	max_min_right=63	max_min_right_minus=45	max_min_right_plus=63	max_pos_hash_score=584	max_right=220	max_right_minus=45	max_right_plus=220	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.08	new_junction_read_count=9	polymorphism_frequency=9.288e-02	pos_hash_score=9	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.70	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=85	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.76	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=92	side_2_redundant=0	total_non_overlap_reads=9	unique_read_sequence=GG
JC	361	.	NC_000913	781369	1	NC_000913	2521127	-1	-1	alignment_overlap=-1	coverage_minus=4	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=9.119e-02	junction_possible_overlap_registers=293	key=NC_000913__781369__1__NC_000913__2521127__-1__-1__G__300__300__0__0	max_left=278	max_left_minus=278	max_left_plus=111	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=64	max_min_right_minus=46	max_min_right_plus=64	max_pos_hash_score=586	max_right=64	max_right_minus=46	max_right_plus=64	neg_log10_pos_hash_p_value=8.1	new_junction_coverage=0.07	new_junction_read_count=8	polymorphism_frequency=9.119e-02	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.70	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=85	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.62	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=75	side_2_redundant=0	total_non_overlap_reads=8	unique_read_sequence=G
JC	362	.	NC_000913	781446	-1	NC_000913	781655	1	0	alignment_overlap=78	coverage_minus=6	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.676e-01	junction_possible_overlap_registers=216	key=NC_000913__781446__-1__NC_000913__781577__1__78____300__300__0__0	max_left=154	max_left_minus=154	max_left_plus=82	max_min_left=82	max_min_left_minus=66	max_min_left_plus=82	max_min_right=109	max_min_right_minus=109	max_min_right_plus=0	max_pos_hash_score=432	max_right=220	max_right_minus=208	max_right_plus=220	neg_log10_pos_hash_p_value=6.7	new_junction_coverage=0.14	new_junction_read_count=12	polymorphism_frequency=1.676e-01	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.71	side_1_overlap=78	side_1_possible_overlap_registers=294	side_1_read_count=86	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.63	side_2_overlap=0	side_2_possible_overlap_registers=216	side_2_read_count=56	side_2_redundant=0	total_non_overlap_reads=11
JC	363	.	NC_000913	1067753	1	NC_000913	1470516	-1	0	alignment_overlap=0	coverage_minus=16	coverage_plus=23	flanking_left=300	flanking_right=300	frequency=1.893e-01	junction_possible_overlap_registers=294	key=NC_000913__1067753__1__NC_000913__1470516__-1__0____300__300__0__1	max_left=290	max_left_minus=290	max_left_plus=211	max_min_left=139	max_min_left_minus=91	max_min_left_plus=139	max_min_right=126	max_min_right_minus=126	max_min_right_plus=111	max_pos_hash_score=588	max_right=298	max_right_minus=298	max_right_plus=289	neg_log10_pos_hash_p_value=3.3	new_junction_coverage=0.32	new_junction_read_count=39	polymorphism_frequency=1.893e-01	pos_hash_score=27	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.38	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=167	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=39
JC	364	.	NC_000913	1067754	-1	NC_000913	1469296	1	0	alignment_overlap=0	coverage_minus=7	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.587e-02	junction_possible_overlap_registers=294	key=NC_000913__1067754__-1__NC_000913__1469296__1__0____300__300__0__1	max_left=281	max_left_minus=281	max_left_plus=217	max_min_left=146	max_min_left_minus=146	max_min_left_plus=117	max_min_right=134	max_min_right_minus=134	max_min_right_plus=82	max_pos_hash_score=588	max_right=232	max_right_minus=222	max_right_plus=232	neg_log10_pos_hash_p_value=7.3	new_junction_coverage=0.08	new_junction_read_count=10	polymorphism_frequency=5.587e-02	pos_hash_score=10	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.40	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=169	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=10
JC	365	.	NC_000913	1095359	1	NC_000913	1979134	1	-8	alignment_overlap=-8	coverage_minus=4	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=2.814e-01	junction_possible_overlap_registers=286	key=NC_000913__1095359__1__NC_000913__1979134__1__-8__GGATCCGG__300__300__0__0	max_left=142	max_left_minus=142	max_left_plus=0	max_min_left=134	max_min_left_minus=134	max_min_left_plus=0	max_min_right=135	max_min_right_minus=135	max_min_right_plus=0	max_pos_hash_score=572	max_right=138	max_right_minus=138	max_right_plus=0	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.10	new_junction_read_count=12	polymorphism_frequency=2.814e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.52	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=63	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=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=GGATCCGG
JC	366	.	NC_000913	1134476	-1	NC_000913	1134847	1	0	alignment_overlap=10	coverage_minus=3	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.033e-02	junction_possible_overlap_registers=284	key=NC_000913__1134476__-1__NC_000913__1134837__1__10____300__300__0__0	max_left=262	max_left_minus=262	max_left_plus=262	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=102	max_min_right_minus=102	max_min_right_plus=102	max_pos_hash_score=568	max_right=102	max_right_minus=102	max_right_plus=102	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.05	new_junction_read_count=6	polymorphism_frequency=5.033e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.87	side_1_overlap=10	side_1_possible_overlap_registers=294	side_1_read_count=105	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=284	side_2_read_count=125	side_2_redundant=0	total_non_overlap_reads=6
JC	367	.	NC_000913	1149703	-1	NC_000913	1150028	1	0	alignment_overlap=13	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.593e-02	junction_possible_overlap_registers=281	key=NC_000913__1149703__-1__NC_000913__1150015__1__13____300__300__0__0	max_left=116	max_left_minus=116	max_left_plus=101	max_min_left=116	max_min_left_minus=116	max_min_left_plus=101	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=562	max_right=284	max_right_minus=171	max_right_plus=284	neg_log10_pos_hash_p_value=10.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.593e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.75	side_1_overlap=13	side_1_possible_overlap_registers=294	side_1_read_count=91	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.64	side_2_overlap=0	side_2_possible_overlap_registers=281	side_2_read_count=74	side_2_redundant=0	total_non_overlap_reads=3
JC	368	.	NC_000913	1274289	-1	NC_000913	1274467	1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.347e-02	junction_possible_overlap_registers=285	key=NC_000913__1274289__-1__NC_000913__1274458__1__9____300__300__0__0	max_left=255	max_left_minus=255	max_left_plus=223	max_min_left=130	max_min_left_minus=0	max_min_left_plus=130	max_min_right=100	max_min_right_minus=100	max_min_right_plus=68	max_pos_hash_score=570	max_right=161	max_right_minus=100	max_right_plus=161	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=3.347e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.07	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=129	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.91	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=106	side_2_redundant=0	total_non_overlap_reads=4
JC	369	.	NC_000913	1286728	-1	NC_000913	1287263	1	0	alignment_overlap=21	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.690e-02	junction_possible_overlap_registers=273	key=NC_000913__1286728__-1__NC_000913__1287242__1__21____300__300__0__0	max_left=102	max_left_minus=102	max_left_plus=102	max_min_left=30	max_min_left_minus=30	max_min_left_plus=22	max_min_right=100	max_min_right_minus=16	max_min_right_plus=100	max_pos_hash_score=546	max_right=100	max_right_minus=41	max_right_plus=100	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.690e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.19	side_1_overlap=21	side_1_possible_overlap_registers=294	side_1_read_count=143	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.68	side_2_overlap=0	side_2_possible_overlap_registers=273	side_2_read_count=76	side_2_redundant=0	total_non_overlap_reads=4
JC	370	.	NC_000913	1286906	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=8	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=1.307e-01	junction_possible_overlap_registers=274	key=NC_000913__1286906__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=270	max_left_minus=270	max_left_plus=254	max_min_left=4	max_min_left_minus=0	max_min_left_plus=4	max_min_right=76	max_min_right_minus=76	max_min_right_plus=71	max_pos_hash_score=548	max_right=276	max_right_minus=76	max_right_plus=276	neg_log10_pos_hash_p_value=6.6	new_junction_coverage=0.11	new_junction_read_count=12	polymorphism_frequency=1.307e-01	pos_hash_score=11	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.77	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=93	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.65	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=73	side_2_redundant=0	total_non_overlap_reads=12
JC	371	.	NC_000913	1287084	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.993e-02	junction_possible_overlap_registers=274	key=NC_000913__1287084__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=225	max_left_minus=225	max_left_plus=4	max_min_left=4	max_min_left_minus=0	max_min_left_plus=4	max_min_right=1	max_min_right_minus=1	max_min_right_plus=0	max_pos_hash_score=548	max_right=276	max_right_minus=1	max_right_plus=276	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=4.993e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.70	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=85	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.65	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=73	side_2_redundant=0	total_non_overlap_reads=4
JC	372	.	NC_000913	1287329	-1	NC_000913	1287624	1	0	alignment_overlap=87	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=8.666e-02	junction_possible_overlap_registers=207	key=NC_000913__1287329__-1__NC_000913__1287537__1__87____300__300__0__0	max_left=163	max_left_minus=163	max_left_plus=78	max_min_left=78	max_min_left_minus=0	max_min_left_plus=78	max_min_right=94	max_min_right_minus=94	max_min_right_plus=0	max_pos_hash_score=414	max_right=209	max_right_minus=94	max_right_plus=209	neg_log10_pos_hash_p_value=7.5	new_junction_coverage=0.06	new_junction_read_count=5	polymorphism_frequency=8.666e-02	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.60	side_1_overlap=87	side_1_possible_overlap_registers=294	side_1_read_count=73	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.64	side_2_overlap=0	side_2_possible_overlap_registers=207	side_2_read_count=54	side_2_redundant=0	total_non_overlap_reads=5
JC	373	.	NC_000913	1299498	-1	NC_000913	1300698	1	0	alignment_overlap=4	coverage_minus=88	coverage_plus=86	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=290	key=NC_000913__1299498__-1__NC_000913__1300694__1__4____300__300__0__0	max_left=294	max_left_minus=290	max_left_plus=294	max_min_left=146	max_min_left_minus=139	max_min_left_plus=146	max_min_right=142	max_min_right_minus=139	max_min_right_plus=142	max_pos_hash_score=580	max_right=295	max_right_minus=294	max_right_plus=295	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.50	new_junction_read_count=179	polymorphism_frequency=1.000e+00	pos_hash_score=107	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=294	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=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=174
JC	374	.	NC_000913	1330356	-1	NC_000913	1330742	1	0	alignment_overlap=12	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.554e-02	junction_possible_overlap_registers=282	key=NC_000913__1330356__-1__NC_000913__1330730__1__12____300__300__0__0	max_left=70	max_left_minus=70	max_left_plus=70	max_min_left=70	max_min_left_minus=70	max_min_left_plus=70	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=564	max_right=137	max_right_minus=137	max_right_plus=137	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=3.554e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.79	side_1_overlap=12	side_1_possible_overlap_registers=294	side_1_read_count=95	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.09	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=126	side_2_redundant=0	total_non_overlap_reads=4
JC	375	.	NC_000913	1397238	-1	NC_000913	1978494	-1	0	alignment_overlap=0	coverage_minus=64	coverage_plus=72	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1397238__-1__NC_000913__1978494__-1__0____300__300__1__0	max_left=294	max_left_minus=293	max_left_plus=294	max_min_left=146	max_min_left_minus=146	max_min_left_plus=142	max_min_right=143	max_min_right_minus=143	max_min_right_plus=143	max_pos_hash_score=588	max_right=297	max_right_minus=297	max_right_plus=296	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.14	new_junction_read_count=138	polymorphism_frequency=1.000e+00	pos_hash_score=88	prediction=consensus	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=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=136
JC	376	.	NC_000913	1411899	1	NC_000913	1434958	-1	0	alignment_overlap=26	coverage_minus=5	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=7.131e-02	junction_possible_overlap_registers=268	key=NC_000913__1411899__1__NC_000913__1434984__-1__26____300__300__0__0	max_left=260	max_left_minus=260	max_left_plus=236	max_min_left=88	max_min_left_minus=59	max_min_left_plus=88	max_min_right=92	max_min_right_minus=36	max_min_right_plus=92	max_pos_hash_score=536	max_right=226	max_right_minus=226	max_right_plus=213	neg_log10_pos_hash_p_value=6.4	new_junction_coverage=0.10	new_junction_read_count=11	polymorphism_frequency=7.131e-02	pos_hash_score=11	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.17	side_1_overlap=26	side_1_possible_overlap_registers=294	side_1_read_count=141	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.44	side_2_overlap=0	side_2_possible_overlap_registers=268	side_2_read_count=158	side_2_redundant=0	total_non_overlap_reads=11
JC	377	.	NC_000913	1469240	-1	NC_000913	1757241	-1	0	alignment_overlap=0	coverage_minus=3	coverage_plus=7	flanking_left=300	flanking_right=300	frequency=5.587e-02	junction_possible_overlap_registers=294	key=NC_000913__1469240__-1__NC_000913__1757241__-1__0____300__300__1__0	max_left=296	max_left_minus=137	max_left_plus=296	max_min_left=137	max_min_left_minus=137	max_min_left_plus=135	max_min_right=34	max_min_right_minus=0	max_min_right_plus=34	max_pos_hash_score=588	max_right=253	max_right_minus=253	max_right_plus=248	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.08	new_junction_read_count=10	polymorphism_frequency=5.587e-02	pos_hash_score=9	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.40	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=169	side_2_redundant=0	total_non_overlap_reads=10
JC	378	.	NC_000913	1471695	1	NC_000913	2290113	-1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=3.937e-02	junction_possible_overlap_registers=294	key=NC_000913__1471695__1__NC_000913__2290113__-1__0____300__300__0__1	max_left=186	max_left_minus=107	max_left_plus=186	max_min_left=107	max_min_left_minus=107	max_min_left_plus=75	max_min_right=114	max_min_right_minus=0	max_min_right_plus=114	max_pos_hash_score=588	max_right=290	max_right_minus=290	max_right_plus=235	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.04	new_junction_read_count=5	polymorphism_frequency=3.937e-02	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.01	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=122	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=5
JC	379	.	NC_000913	1471698	-1	NC_000913	2101749	1	0	alignment_overlap=0	coverage_minus=4	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=6.767e-02	junction_possible_overlap_registers=294	key=NC_000913__1471698__-1__NC_000913__2101749__1__0____300__300__0__1	max_left=254	max_left_minus=249	max_left_plus=254	max_min_left=131	max_min_left_minus=92	max_min_left_plus=131	max_min_right=141	max_min_right_minus=53	max_min_right_plus=141	max_pos_hash_score=588	max_right=254	max_right_minus=206	max_right_plus=254	neg_log10_pos_hash_p_value=8.1	new_junction_coverage=0.07	new_junction_read_count=9	polymorphism_frequency=6.767e-02	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.03	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=124	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=9
JC	380	.	NC_000913	1651548	-1	NC_000913	1757237	1	0	alignment_overlap=0	coverage_minus=8	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.618e-02	junction_possible_overlap_registers=294	key=NC_000913__1651548__-1__NC_000913__1757237__1__0____300__300__1__0	max_left=241	max_left_minus=241	max_left_plus=60	max_min_left=120	max_min_left_minus=120	max_min_left_plus=60	max_min_right=74	max_min_right_minus=74	max_min_right_plus=0	max_pos_hash_score=588	max_right=284	max_right_minus=265	max_right_plus=284	neg_log10_pos_hash_p_value=8.1	new_junction_coverage=0.08	new_junction_read_count=10	polymorphism_frequency=5.618e-02	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.39	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=168	side_2_redundant=0	total_non_overlap_reads=10
JC	381	.	NC_000913	1651548	-1	NC_000913	1787500	-1	0	alignment_overlap=2	coverage_minus=7	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.844e-02	junction_possible_overlap_registers=292	key=NC_000913__1651548__-1__NC_000913__1787502__-1__2____300__300__1__0	max_left=262	max_left_minus=190	max_left_plus=262	max_min_left=140	max_min_left_minus=140	max_min_left_plus=0	max_min_right=145	max_min_right_minus=108	max_min_right_plus=145	max_pos_hash_score=584	max_right=294	max_right_minus=294	max_right_plus=145	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.08	new_junction_read_count=9	polymorphism_frequency=5.844e-02	pos_hash_score=9	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	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=gene	side_2_continuation=0	side_2_coverage=1.21	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=145	side_2_redundant=0	total_non_overlap_reads=9
JC	382	.	NC_000913	1787496	1	NC_000913	2070271	-1	0	alignment_overlap=1	coverage_minus=2	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=4.321e-02	junction_possible_overlap_registers=293	key=NC_000913__1787495__1__NC_000913__2070271__-1__1____300__300__0__1	max_left=289	max_left_minus=289	max_left_plus=162	max_min_left=82	max_min_left_minus=0	max_min_left_plus=82	max_min_right=134	max_min_right_minus=45	max_min_right_plus=134	max_pos_hash_score=586	max_right=286	max_right_minus=45	max_right_plus=286	neg_log10_pos_hash_p_value=9.0	new_junction_coverage=0.06	new_junction_read_count=7	polymorphism_frequency=4.321e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.29	side_1_overlap=0	side_1_possible_overlap_registers=293	side_1_read_count=155	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=1	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=6
JC	383	.	NC_000913	1825993	1	NC_000913	2101749	1	0	alignment_overlap=1	coverage_minus=52	coverage_plus=47	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__1825992__1__NC_000913__2101749__1__1____300__300__0__1	max_left=297	max_left_minus=292	max_left_plus=297	max_min_left=149	max_min_left_minus=146	max_min_left_plus=149	max_min_right=145	max_min_right_minus=141	max_min_right_plus=145	max_pos_hash_score=586	max_right=293	max_right_minus=293	max_right_plus=285	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.83	new_junction_read_count=100	polymorphism_frequency=1.000e+00	pos_hash_score=74	prediction=consensus	read_count_offset=4	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=289	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=1	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=99
JC	384	.	NC_000913	1825996	-1	NC_000913	2290113	-1	0	alignment_overlap=0	coverage_minus=40	coverage_plus=105	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1825996__-1__NC_000913__2290113__-1__0____300__300__0__1	max_left=296	max_left_minus=295	max_left_plus=296	max_min_left=149	max_min_left_minus=149	max_min_left_plus=149	max_min_right=149	max_min_right_minus=149	max_min_right_plus=146	max_pos_hash_score=588	max_right=295	max_right_minus=295	max_right_plus=287	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.22	new_junction_read_count=147	polymorphism_frequency=1.000e+00	pos_hash_score=86	prediction=consensus	read_count_offset=4	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=290	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=145
JC	385	.	NC_000913	1979134	1	NC_000913	2170314	-1	-8	alignment_overlap=-8	coverage_minus=0	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=2.579e-01	junction_possible_overlap_registers=286	key=NC_000913__1979134__1__NC_000913__2170314__-1__-8__CCGGATCC__300__300__0__0	max_left=138	max_left_minus=0	max_left_plus=138	max_min_left=135	max_min_left_minus=0	max_min_left_plus=135	max_min_right=134	max_min_right_minus=0	max_min_right_plus=134	max_pos_hash_score=572	max_right=142	max_right_minus=0	max_right_plus=142	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.10	new_junction_read_count=12	polymorphism_frequency=2.579e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.59	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=71	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=CCGGATCC
JC	386	.	NC_000913	1979271	1	NC_000913	2102947	-1	0	alignment_overlap=0	coverage_minus=50	coverage_plus=76	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1979271__1__NC_000913__2102947__-1__0____300__300__0__1	max_left=299	max_left_minus=294	max_left_plus=299	max_min_left=145	max_min_left_minus=145	max_min_left_plus=140	max_min_right=150	max_min_right_minus=145	max_min_right_plus=150	max_pos_hash_score=588	max_right=299	max_right_minus=299	max_right_plus=286	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.07	new_junction_read_count=129	polymorphism_frequency=1.000e+00	pos_hash_score=82	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	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=126
JC	387	.	NC_000913	2066159	1	NC_000913	3840291	-1	0	alignment_overlap=3	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=3.156e-02	junction_possible_overlap_registers=291	key=NC_000913__2066156__1__NC_000913__3840291__-1__3____300__300__0__0	max_left=275	max_left_minus=275	max_left_plus=147	max_min_left=147	max_min_left_minus=0	max_min_left_plus=147	max_min_right=87	max_min_right_minus=87	max_min_right_plus=0	max_pos_hash_score=582	max_right=267	max_right_minus=87	max_right_plus=267	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.04	new_junction_read_count=5	polymorphism_frequency=3.156e-02	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	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=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.28	side_2_overlap=3	side_2_possible_overlap_registers=294	side_2_read_count=155	side_2_redundant=0	total_non_overlap_reads=5
JC	388	.	NC_000913	2357730	-1	NC_000913	2357926	1	0	alignment_overlap=40	coverage_minus=4	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.203e-02	junction_possible_overlap_registers=254	key=NC_000913__2357730__-1__NC_000913__2357886__1__40____300__300__0__0	max_left=207	max_left_minus=207	max_left_plus=207	max_min_left=98	max_min_left_minus=98	max_min_left_plus=63	max_min_right=118	max_min_right_minus=118	max_min_right_plus=52	max_pos_hash_score=508	max_right=197	max_right_minus=162	max_right_plus=197	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.08	new_junction_read_count=8	polymorphism_frequency=7.203e-02	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.03	side_1_overlap=40	side_1_possible_overlap_registers=294	side_1_read_count=124	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.95	side_2_overlap=0	side_2_possible_overlap_registers=254	side_2_read_count=99	side_2_redundant=0	total_non_overlap_reads=7
JC	389	.	NC_000913	2521006	-1	NC_000913	2521127	1	0	alignment_overlap=76	coverage_minus=3	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.155e-01	junction_possible_overlap_registers=218	key=NC_000913__2521006__-1__NC_000913__2521051__1__76____300__300__0__0	max_left=180	max_left_minus=180	max_left_plus=179	max_min_left=103	max_min_left_minus=103	max_min_left_plus=0	max_min_right=84	max_min_right_minus=3	max_min_right_plus=84	max_pos_hash_score=436	max_right=121	max_right_minus=121	max_right_plus=84	neg_log10_pos_hash_p_value=7.2	new_junction_coverage=0.09	new_junction_read_count=8	polymorphism_frequency=1.155e-01	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.75	side_1_overlap=76	side_1_possible_overlap_registers=294	side_1_read_count=91	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.61	side_2_overlap=0	side_2_possible_overlap_registers=218	side_2_read_count=55	side_2_redundant=0	total_non_overlap_reads=8
JC	390	.	NC_000913	2521359	-1	NC_000913	2521516	1	0	alignment_overlap=49	coverage_minus=6	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=1.029e-01	junction_possible_overlap_registers=245	key=NC_000913__2521359__-1__NC_000913__2521467__1__49____300__300__0__0	max_left=209	max_left_minus=209	max_left_plus=4	max_min_left=65	max_min_left_minus=65	max_min_left_plus=4	max_min_right=103	max_min_right_minus=103	max_min_right_plus=0	max_pos_hash_score=490	max_right=247	max_right_minus=244	max_right_plus=247	neg_log10_pos_hash_p_value=7.0	new_junction_coverage=0.08	new_junction_read_count=8	polymorphism_frequency=1.029e-01	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.62	side_1_overlap=49	side_1_possible_overlap_registers=294	side_1_read_count=75	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.77	side_2_overlap=0	side_2_possible_overlap_registers=245	side_2_read_count=77	side_2_redundant=0	total_non_overlap_reads=8
JC	391	.	NC_000913	2653393	-1	NC_000913	2653720	1	0	alignment_overlap=3	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.733e-02	junction_possible_overlap_registers=291	key=NC_000913__2653393__-1__NC_000913__2653717__1__3____300__300__0__0	max_left=187	max_left_minus=187	max_left_plus=162	max_min_left=1	max_min_left_minus=1	max_min_left_plus=1	max_min_right=134	max_min_right_minus=110	max_min_right_plus=134	max_pos_hash_score=582	max_right=280	max_right_minus=280	max_right_plus=280	neg_log10_pos_hash_p_value=10.1	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=2.733e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.02	side_1_overlap=3	side_1_possible_overlap_registers=294	side_1_read_count=123	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.36	side_2_overlap=0	side_2_possible_overlap_registers=291	side_2_read_count=163	side_2_redundant=0	total_non_overlap_reads=4
JC	392	.	NC_000913	2653419	-1	NC_000913	2653746	1	0	alignment_overlap=25	coverage_minus=6	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.106e-02	junction_possible_overlap_registers=269	key=NC_000913__2653419__-1__NC_000913__2653721__1__25____300__300__0__0	max_left=267	max_left_minus=267	max_left_plus=217	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=42	max_min_right_minus=42	max_min_right_plus=42	max_pos_hash_score=538	max_right=42	max_right_minus=42	max_right_plus=42	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.09	new_junction_read_count=10	polymorphism_frequency=7.106e-02	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.03	side_1_overlap=25	side_1_possible_overlap_registers=294	side_1_read_count=124	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.34	side_2_overlap=0	side_2_possible_overlap_registers=269	side_2_read_count=148	side_2_redundant=0	total_non_overlap_reads=9
JC	393	.	NC_000913	2700291	-1	NC_000913	2700540	1	0	alignment_overlap=19	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.846e-02	junction_possible_overlap_registers=275	key=NC_000913__2700291__-1__NC_000913__2700521__1__19____300__300__0__0	max_left=171	max_left_minus=171	max_left_plus=171	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=115	max_min_right_minus=115	max_min_right_plus=115	max_pos_hash_score=550	max_right=115	max_right_minus=115	max_right_plus=115	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=2.846e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.39	side_1_overlap=19	side_1_possible_overlap_registers=294	side_1_read_count=168	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.03	side_2_overlap=0	side_2_possible_overlap_registers=275	side_2_read_count=116	side_2_redundant=0	total_non_overlap_reads=4
JC	394	.	NC_000913	2817942	-1	NC_000913	2818492	1	0	alignment_overlap=20	coverage_minus=4	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.614e-02	junction_possible_overlap_registers=274	key=NC_000913__2817942__-1__NC_000913__2818472__1__20____300__300__0__0	max_left=272	max_left_minus=272	max_left_plus=242	max_min_left=110	max_min_left_minus=95	max_min_left_plus=110	max_min_right=39	max_min_right_minus=9	max_min_right_plus=39	max_pos_hash_score=548	max_right=252	max_right_minus=252	max_right_plus=223	neg_log10_pos_hash_p_value=8.1	new_junction_coverage=0.07	new_junction_read_count=8	polymorphism_frequency=7.614e-02	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.84	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=101	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.89	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=100	side_2_redundant=0	total_non_overlap_reads=7
JC	395	.	NC_000913	2818197	1	NC_000913	2818471	-1	0	alignment_overlap=79	coverage_minus=6	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=1.518e-01	junction_possible_overlap_registers=215	key=NC_000913__2818197__1__NC_000913__2818550__-1__79____300__300__0__0	max_left=138	max_left_minus=138	max_left_plus=138	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=74	max_min_right_minus=74	max_min_right_plus=74	max_pos_hash_score=430	max_right=74	max_right_minus=74	max_right_plus=74	neg_log10_pos_hash_p_value=6.7	new_junction_coverage=0.11	new_junction_read_count=10	polymorphism_frequency=1.518e-01	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.44	side_1_overlap=79	side_1_possible_overlap_registers=294	side_1_read_count=53	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.83	side_2_overlap=0	side_2_possible_overlap_registers=215	side_2_read_count=73	side_2_redundant=0	total_non_overlap_reads=8
JC	396	.	NC_000913	2878159	-1	NC_000913	2878284	1	0	alignment_overlap=2	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.762e-02	junction_possible_overlap_registers=292	key=NC_000913__2878159__-1__NC_000913__2878282__1__2____300__300__0__0	max_left=216	max_left_minus=216	max_left_plus=197	max_min_left=16	max_min_left_minus=0	max_min_left_plus=16	max_min_right=100	max_min_right_minus=82	max_min_right_plus=100	max_pos_hash_score=584	max_right=278	max_right_minus=82	max_right_plus=278	neg_log10_pos_hash_p_value=10.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.762e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.60	side_1_overlap=2	side_1_possible_overlap_registers=294	side_1_read_count=73	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.68	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=81	side_2_redundant=0	total_non_overlap_reads=3
JC	397	.	NC_000913	2913392	1	NC_000913	2997691	-1	0	alignment_overlap=0	coverage_minus=68	coverage_plus=70	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__2913392__1__NC_000913__2997691__-1__0____300__300__0__1	max_left=295	max_left_minus=284	max_left_plus=295	max_min_left=144	max_min_left_minus=144	max_min_left_plus=141	max_min_right=150	max_min_right_minus=144	max_min_right_plus=150	max_pos_hash_score=588	max_right=297	max_right_minus=297	max_right_plus=291	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.16	new_junction_read_count=140	polymorphism_frequency=1.000e+00	pos_hash_score=76	prediction=consensus	read_count_offset=5	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=289	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=138
JC	398	.	NC_000913	2913396	-1	NC_000913	2996361	1	0	alignment_overlap=0	coverage_minus=46	coverage_plus=60	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__2913396__-1__NC_000913__2996361__1__0____300__300__0__1	max_left=295	max_left_minus=295	max_left_plus=295	max_min_left=146	max_min_left_minus=146	max_min_left_plus=141	max_min_right=149	max_min_right_minus=139	max_min_right_plus=149	max_pos_hash_score=588	max_right=296	max_right_minus=296	max_right_plus=276	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.90	new_junction_read_count=108	polymorphism_frequency=1.000e+00	pos_hash_score=76	prediction=consensus	read_count_offset=5	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=289	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=106
JC	399	.	NC_000913	2947467	-1	NC_000913	2947688	1	0	alignment_overlap=83	coverage_minus=3	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=6.002e-02	junction_possible_overlap_registers=211	key=NC_000913__2947467__-1__NC_000913__2947605__1__83____300__300__0__0	max_left=200	max_left_minus=200	max_left_plus=84	max_min_left=84	max_min_left_minus=81	max_min_left_plus=84	max_min_right=11	max_min_right_minus=11	max_min_right_plus=0	max_pos_hash_score=422	max_right=136	max_right_minus=136	max_right_plus=133	neg_log10_pos_hash_p_value=8.1	new_junction_coverage=0.05	new_junction_read_count=4	polymorphism_frequency=6.002e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.70	side_1_overlap=83	side_1_possible_overlap_registers=294	side_1_read_count=84	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.75	side_2_overlap=0	side_2_possible_overlap_registers=211	side_2_read_count=65	side_2_redundant=0	total_non_overlap_reads=4
JC	400	.	NC_000913	3131340	-1	NC_000913	3147767	1	0	alignment_overlap=0	coverage_minus=54	coverage_plus=78	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__3131340__-1__NC_000913__3147767__1__0____300__300__1__0	max_left=284	max_left_minus=284	max_left_plus=284	max_min_left=139	max_min_left_minus=139	max_min_left_plus=128	max_min_right=146	max_min_right_minus=142	max_min_right_plus=146	max_pos_hash_score=588	max_right=294	max_right_minus=294	max_right_plus=280	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=1.11	new_junction_read_count=134	polymorphism_frequency=1.000e+00	pos_hash_score=71	prediction=consensus	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=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=132
JC	401	.	NC_000913	3469097	-1	NC_000913	3469401	1	0	alignment_overlap=13	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.321e-02	junction_possible_overlap_registers=281	key=NC_000913__3469097__-1__NC_000913__3469388__1__13____300__300__0__0	max_left=277	max_left_minus=218	max_left_plus=277	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=107	max_min_right_minus=96	max_min_right_plus=107	max_pos_hash_score=562	max_right=107	max_right_minus=96	max_right_plus=107	neg_log10_pos_hash_p_value=9.8	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=3.321e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.96	side_1_overlap=13	side_1_possible_overlap_registers=294	side_1_read_count=116	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.06	side_2_overlap=0	side_2_possible_overlap_registers=281	side_2_read_count=122	side_2_redundant=0	total_non_overlap_reads=4
JC	402	.	NC_000913	3469405	-1	NC_000913	3469715	1	0	alignment_overlap=16	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.480e-02	junction_possible_overlap_registers=278	key=NC_000913__3469405__-1__NC_000913__3469699__1__16____300__300__0__0	max_left=125	max_left_minus=125	max_left_plus=117	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=99	max_min_right_minus=99	max_min_right_plus=99	max_pos_hash_score=556	max_right=99	max_right_minus=99	max_right_plus=99	neg_log10_pos_hash_p_value=9.2	new_junction_coverage=0.04	new_junction_read_count=5	polymorphism_frequency=3.480e-02	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.01	side_1_overlap=16	side_1_possible_overlap_registers=294	side_1_read_count=122	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.42	side_2_overlap=0	side_2_possible_overlap_registers=278	side_2_read_count=162	side_2_redundant=0	total_non_overlap_reads=5
JC	403	.	NC_000913	3583428	1	NC_000913	3807328	-1	0	alignment_overlap=0	coverage_minus=72	coverage_plus=35	flanking_left=300	flanking_right=300	frequency=6.407e-01	junction_possible_overlap_registers=294	key=NC_000913__3583428__1__NC_000913__3807328__-1__0____300__300__1__0	max_left=294	max_left_minus=289	max_left_plus=294	max_min_left=148	max_min_left_minus=147	max_min_left_plus=148	max_min_right=147	max_min_right_minus=147	max_min_right_plus=137	max_pos_hash_score=588	max_right=288	max_right_minus=288	max_right_plus=269	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.89	new_junction_read_count=107	polymorphism_frequency=6.407e-01	pos_hash_score=65	prediction=polymorphism	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=0.50	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=60	side_2_redundant=0	total_non_overlap_reads=107
JC	404	.	NC_000913	3584195	-1	NC_000913	3807321	1	0	alignment_overlap=0	coverage_minus=40	coverage_plus=28	flanking_left=300	flanking_right=300	frequency=5.349e-01	junction_possible_overlap_registers=294	key=NC_000913__3584195__-1__NC_000913__3807321__1__0____300__300__1__0	max_left=293	max_left_minus=293	max_left_plus=287	max_min_left=149	max_min_left_minus=149	max_min_left_plus=140	max_min_right=139	max_min_right_minus=137	max_min_right_plus=139	max_pos_hash_score=588	max_right=292	max_right_minus=277	max_right_plus=292	neg_log10_pos_hash_p_value=0.9	new_junction_coverage=0.57	new_junction_read_count=69	polymorphism_frequency=5.349e-01	pos_hash_score=54	prediction=polymorphism	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=0.50	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=60	side_2_redundant=0	total_non_overlap_reads=68
JC	405	.	NC_000913	3621836	-1	NC_000913	3622017	1	0	alignment_overlap=12	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.104e-01	junction_possible_overlap_registers=282	key=NC_000913__3621848__-1__NC_000913__3622017__1__12____300__300__1__0	max_left=215	max_left_minus=215	max_left_plus=40	max_min_left=122	max_min_left_minus=122	max_min_left_plus=40	max_min_right=73	max_min_right_minus=73	max_min_right_plus=0	max_pos_hash_score=564	max_right=275	max_right_minus=165	max_right_plus=275	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=5.104e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=12	side_2_possible_overlap_registers=294	side_2_read_count=4	side_2_redundant=0	total_non_overlap_reads=4
JC	406	.	NC_000913	3624360	1	NC_000913	3653230	-1	0	alignment_overlap=1	coverage_minus=3	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=3.535e-02	junction_possible_overlap_registers=293	key=NC_000913__3624359__1__NC_000913__3653230__-1__1____300__300__0__1	max_left=291	max_left_minus=255	max_left_plus=291	max_min_left=95	max_min_left_minus=80	max_min_left_plus=95	max_min_right=65	max_min_right_minus=65	max_min_right_plus=3	max_pos_hash_score=586	max_right=288	max_right_minus=217	max_right_plus=288	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.06	new_junction_read_count=7	polymorphism_frequency=3.535e-02	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.59	side_1_overlap=0	side_1_possible_overlap_registers=293	side_1_read_count=191	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=1	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=7
JC	407	.	NC_000913	3624363	-1	NC_000913	3652036	1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=2.073e-02	junction_possible_overlap_registers=294	key=NC_000913__3624363__-1__NC_000913__3652036__1__0____300__300__0__1	max_left=296	max_left_minus=177	max_left_plus=296	max_min_left=48	max_min_left_minus=0	max_min_left_plus=48	max_min_right=112	max_min_right_minus=112	max_min_right_plus=112	max_pos_hash_score=588	max_right=252	max_right_minus=112	max_right_plus=252	neg_log10_pos_hash_p_value=10.1	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=2.073e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.57	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=189	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=4
JC	408	.	NC_000913	3648146	-1	NC_000913	3648378	1	0	alignment_overlap=58	coverage_minus=6	coverage_plus=7	flanking_left=300	flanking_right=300	frequency=9.774e-02	junction_possible_overlap_registers=236	key=NC_000913__3648146__-1__NC_000913__3648320__1__58____300__300__0__0	max_left=236	max_left_minus=236	max_left_plus=202	max_min_left=114	max_min_left_minus=114	max_min_left_plus=41	max_min_right=74	max_min_right_minus=30	max_min_right_plus=74	max_pos_hash_score=472	max_right=225	max_right_minus=199	max_right_plus=225	neg_log10_pos_hash_p_value=5.1	new_junction_coverage=0.13	new_junction_read_count=13	polymorphism_frequency=9.774e-02	pos_hash_score=13	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.26	side_1_overlap=58	side_1_possible_overlap_registers=294	side_1_read_count=152	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.22	side_2_overlap=0	side_2_possible_overlap_registers=236	side_2_read_count=118	side_2_redundant=0	total_non_overlap_reads=13
JC	409	.	NC_000913	3708466	-1	NC_000913	3708635	1	0	alignment_overlap=108	coverage_minus=19	coverage_plus=32	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=186	key=NC_000913__3708466__-1__NC_000913__3708527__1__108____300__300__0__0	max_left=179	max_left_minus=140	max_left_plus=179	max_min_left=95	max_min_left_minus=90	max_min_left_plus=95	max_min_right=92	max_min_right_minus=90	max_min_right_plus=92	max_pos_hash_score=372	max_right=184	max_right_minus=184	max_right_plus=174	neg_log10_pos_hash_p_value=1.0	new_junction_coverage=0.68	new_junction_read_count=52	polymorphism_frequency=1.000e+00	pos_hash_score=31	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=108	side_1_possible_overlap_registers=294	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=186	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=51
JC	410	.	NC_000913	3764827	-1	NC_000913	3765008	1	0	alignment_overlap=12	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=6.100e-01	junction_possible_overlap_registers=282	key=NC_000913__3764839__-1__NC_000913__3765008__1__12____300__300__1__0	max_left=215	max_left_minus=215	max_left_plus=40	max_min_left=122	max_min_left_minus=122	max_min_left_plus=40	max_min_right=73	max_min_right_minus=73	max_min_right_plus=0	max_pos_hash_score=564	max_right=248	max_right_minus=165	max_right_plus=248	neg_log10_pos_hash_p_value=10.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=6.100e-01	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	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=12	side_2_possible_overlap_registers=294	side_2_read_count=2	side_2_redundant=0	total_non_overlap_reads=3
JC	411	.	NC_000913	3822646	1	NC_000913	3822651	-1	0	alignment_overlap=0	coverage_minus=50	coverage_plus=65	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__3822646__1__NC_000913__3822651__-1__0____300__300__0__0	max_left=296	max_left_minus=293	max_left_plus=296	max_min_left=146	max_min_left_minus=146	max_min_left_plus=145	max_min_right=147	max_min_right_minus=147	max_min_right_plus=147	max_pos_hash_score=588	max_right=290	max_right_minus=290	max_right_plus=288	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.97	new_junction_read_count=117	polymorphism_frequency=9.590e-01	pos_hash_score=72	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=3	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.06	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=7	side_2_redundant=0	total_non_overlap_reads=115
JC	412	.	NC_000913	4233865	-1	NC_000913	4507459	1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.273e-02	junction_possible_overlap_registers=294	key=NC_000913__4233865__-1__NC_000913__4507459__1__0____300__300__0__1	max_left=273	max_left_minus=250	max_left_plus=273	max_min_left=95	max_min_left_minus=95	max_min_left_plus=0	max_min_right=91	max_min_right_minus=50	max_min_right_plus=91	max_pos_hash_score=588	max_right=205	max_right_minus=205	max_right_plus=91	neg_log10_pos_hash_p_value=10.1	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=2.273e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.43	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=172	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=4
JC	413	.	NC_000913	4298937	-1	NC_000913	4299043	1	0	alignment_overlap=3	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.942e-02	junction_possible_overlap_registers=291	key=NC_000913__4298937__-1__NC_000913__4299040__1__3____300__300__0__0	max_left=293	max_left_minus=225	max_left_plus=293	max_min_left=85	max_min_left_minus=0	max_min_left_plus=85	max_min_right=72	max_min_right_minus=72	max_min_right_plus=2	max_pos_hash_score=582	max_right=212	max_right_minus=72	max_right_plus=212	neg_log10_pos_hash_p_value=10.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.942e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.85	side_1_overlap=3	side_1_possible_overlap_registers=294	side_1_read_count=103	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.80	side_2_overlap=0	side_2_possible_overlap_registers=291	side_2_read_count=96	side_2_redundant=0	total_non_overlap_reads=3
JC	414	.	NC_000913	4392437	-1	NC_000913	4392661	1	0	alignment_overlap=78	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=7.127e-02	junction_possible_overlap_registers=216	key=NC_000913__4392437__-1__NC_000913__4392583__1__78____300__300__0__0	max_left=178	max_left_minus=88	max_left_plus=178	max_min_left=61	max_min_left_minus=61	max_min_left_plus=0	max_min_right=79	max_min_right_minus=59	max_min_right_plus=79	max_pos_hash_score=432	max_right=157	max_right_minus=157	max_right_plus=79	neg_log10_pos_hash_p_value=8.3	new_junction_coverage=0.06	new_junction_read_count=5	polymorphism_frequency=7.127e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.65	side_1_overlap=78	side_1_possible_overlap_registers=294	side_1_read_count=78	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.82	side_2_overlap=0	side_2_possible_overlap_registers=216	side_2_read_count=73	side_2_redundant=0	total_non_overlap_reads=4
JC	415	.	NC_000913	4542682	1	NC_000913	4542996	1	0	alignment_overlap=9	coverage_minus=4	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=4.372e-02	junction_possible_overlap_registers=285	key=NC_000913__4542682__1__NC_000913__4542987__1__9____300__300__0__0	max_left=277	max_left_minus=277	max_left_plus=115	max_min_left=115	max_min_left_minus=0	max_min_left_plus=115	max_min_right=81	max_min_right_minus=81	max_min_right_plus=0	max_pos_hash_score=570	max_right=208	max_right_minus=81	max_right_plus=208	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.07	new_junction_read_count=8	polymorphism_frequency=4.372e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.62	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=196	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.37	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=160	side_2_redundant=0	total_non_overlap_reads=8
JC	416	.	NC_000913	4542690	-1	NC_000913	4542986	-1	0	alignment_overlap=9	coverage_minus=1	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=2.131e-02	junction_possible_overlap_registers=285	key=NC_000913__4542690__-1__NC_000913__4542995__-1__9____300__300__0__0	max_left=237	max_left_minus=237	max_left_plus=237	max_min_left=126	max_min_left_minus=0	max_min_left_plus=126	max_min_right=62	max_min_right_minus=15	max_min_right_plus=62	max_pos_hash_score=570	max_right=164	max_right_minus=15	max_right_plus=164	neg_log10_pos_hash_p_value=9.9	new_junction_coverage=0.03	new_junction_read_count=4	polymorphism_frequency=2.131e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.77	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=214	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.37	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=160	side_2_redundant=0	total_non_overlap_reads=4
JC	417	.	NC_000913	4606166	-1	NC_000913	4606403	1	0	alignment_overlap=89	coverage_minus=5	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=1.519e-01	junction_possible_overlap_registers=205	key=NC_000913__4606166__-1__NC_000913__4606314__1__89____300__300__0__0	max_left=204	max_left_minus=159	max_left_plus=204	max_min_left=73	max_min_left_minus=73	max_min_left_plus=73	max_min_right=65	max_min_right_minus=53	max_min_right_plus=65	max_pos_hash_score=410	max_right=143	max_right_minus=138	max_right_plus=143	neg_log10_pos_hash_p_value=5.3	new_junction_coverage=0.13	new_junction_read_count=11	polymorphism_frequency=1.519e-01	pos_hash_score=10	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.77	side_1_overlap=89	side_1_possible_overlap_registers=294	side_1_read_count=93	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.69	side_2_overlap=0	side_2_possible_overlap_registers=205	side_2_read_count=58	side_2_redundant=0	total_non_overlap_reads=11
UN	418	.	NC_000913	15663	16443
UN	419	.	NC_000913	20075	20077
UN	420	.	NC_000913	20079	20285
UN	421	.	NC_000913	224004	224004
UN	422	.	NC_000913	224009	224492
UN	423	.	NC_000913	225164	225323
UN	424	.	NC_000913	227271	228410
UN	425	.	NC_000913	257908	258683
UN	426	.	NC_000913	270791	271023
UN	427	.	NC_000913	274248	274871
UN	428	.	NC_000913	279438	279652
UN	429	.	NC_000913	290918	291141
UN	430	.	NC_000913	315509	315509
UN	431	.	NC_000913	315511	316196
UN	432	.	NC_000913	381547	381547
UN	433	.	NC_000913	381549	382321
UN	434	.	NC_000913	382323	382324
UN	435	.	NC_000913	391987	392684
UN	436	.	NC_000913	392686	392686
UN	437	.	NC_000913	526139	526448
UN	438	.	NC_000913	567046	567747
UN	439	.	NC_000913	574861	575498
UN	440	.	NC_000913	608264	609075
UN	441	.	NC_000913	609079	609079
UN	442	.	NC_000913	609081	609081
UN	443	.	NC_000913	609084	609084
UN	444	.	NC_000913	688124	688765
UN	445	.	NC_000913	1094524	1094524
UN	446	.	NC_000913	1094528	1095218
UN	447	.	NC_000913	1196374	1211413
UN	448	.	NC_000913	1299499	1300697
UN	449	.	NC_000913	1396325	1396960
UN	450	.	NC_000913	1396963	1396963
UN	451	.	NC_000913	1396965	1396965
UN	452	.	NC_000913	1468187	1468953
UN	453	.	NC_000913	1469573	1470228
UN	454	.	NC_000913	1470232	1470232
UN	455	.	NC_000913	1528583	1528890
UN	456	.	NC_000913	1528892	1528893
UN	457	.	NC_000913	1528900	1528901
UN	458	.	NC_000913	1651114	1651273
UN	459	.	NC_000913	1978495	1979270
UN	460	.	NC_000913	2067006	2067006
UN	461	.	NC_000913	2067008	2067030
UN	462	.	NC_000913	2067032	2067032
UN	463	.	NC_000913	2069213	2069998
UN	464	.	NC_000913	2102029	2102656
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UN	466	.	NC_000913	2171159	2171160
UN	467	.	NC_000913	2171163	2171163
UN	468	.	NC_000913	2289201	2289201
UN	469	.	NC_000913	2289209	2289827
UN	470	.	NC_000913	2514536	2515355
UN	471	.	NC_000913	2726341	2726341
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UN	473	.	NC_000913	2726346	2729009
UN	474	.	NC_000913	2729798	2729798
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UN	476	.	NC_000913	2996624	2996625
UN	477	.	NC_000913	2996628	2996628
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UN	480	.	NC_000913	3186357	3186357
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UN	497	.	NC_000913	3762521	3763812
UN	498	.	NC_000913	3764345	3764345
UN	499	.	NC_000913	3764347	3765052
UN	500	.	NC_000913	3765054	3765055
UN	501	.	NC_000913	3942317	3943135
UN	502	.	NC_000913	3944348	3945281
UN	503	.	NC_000913	4035423	4036809
UN	504	.	NC_000913	4036811	4036811
UN	505	.	NC_000913	4036824	4036824
UN	506	.	NC_000913	4038113	4038409
UN	507	.	NC_000913	4038412	4038413
UN	508	.	NC_000913	4038994	4038994
UN	509	.	NC_000913	4039006	4039007
UN	510	.	NC_000913	4039010	4039095
UN	511	.	NC_000913	4039097	4039097
UN	512	.	NC_000913	4039674	4040315
UN	513	.	NC_000913	4166925	4167940
UN	514	.	NC_000913	4168848	4171368
UN	515	.	NC_000913	4208385	4208385
UN	516	.	NC_000913	4208390	4209463
UN	517	.	NC_000913	4210299	4212838
UN	518	.	NC_000913	4498476	4499226
UN	519	.	NC_000913	4507743	4507743
UN	520	.	NC_000913	4507746	4508412