#=GENOME_DIFF	1.0
#=CREATED	03:27:39 11 Oct 2025
#=PROGRAM	breseq 0.39.0 
#=COMMAND	breseq -j 8 -o /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_run15_rmdup_trimmng-adaptors-polyG/ME9770_S42_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/ME9770_S42_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/ME9770_S42_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/ME9770_S42_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/ME9770_S42_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=CONVERTED-BASES	451856549
#=CONVERTED-READS	1538416
#=INPUT-BASES	451936994
#=INPUT-READS	1538690
#=MAPPED-BASES	429913234
#=MAPPED-READS	1464018
DEL	1	137,147	NC_000913	257908	776
SNP	2	27	NC_000913	309381	T
SNP	3	28	NC_000913	309985	A
SNP	4	29	NC_000913	321260	T
DEL	5	140,168	NC_000913	1978503	776
MOB	6	166,169	NC_000913	1995620	IS5	-1	4
DEL	7	122,123	NC_000913	2173363	2
INS	8	129	NC_000913	3560455	G
INS	9	134,135	NC_000913	4296381	GC
RA	10	.	NC_000913	36	0	C	A	bias_e_value=2.23503	bias_p_value=4.81517e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=330.7	fisher_strand_p_value=2.60815e-08	frequency=2.000e-01	ks_quality_p_value=1	major_base=C	major_cov=86/30	major_frequency=8.000e-01	minor_base=A	minor_cov=5/24	new_cov=5/24	polymorphism_frequency=2.000e-01	polymorphism_score=24.4	prediction=polymorphism	ref_cov=86/30	total_cov=92/54
RA	11	.	NC_000913	12152	0	G	T	bias_e_value=178.4	bias_p_value=3.84345e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=128.9	fisher_strand_p_value=2.78702e-06	frequency=3.218e-01	ks_quality_p_value=1	major_base=G	major_cov=27/32	major_frequency=6.782e-01	minor_base=T	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=3.218e-01	polymorphism_score=14.0	prediction=polymorphism	ref_cov=27/32	total_cov=27/60
RA	12	.	NC_000913	42395	0	G	T	bias_e_value=481.758	bias_p_value=0.00010379	consensus_reject=FREQUENCY_CUTOFF	consensus_score=198.5	fisher_strand_p_value=8.16217e-06	frequency=2.500e-01	ks_quality_p_value=1	major_base=G	major_cov=34/50	major_frequency=7.500e-01	minor_base=T	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=2.500e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=34/50	total_cov=34/78
RA	13	.	NC_000913	58065	0	C	A	bias_e_value=2.94192	bias_p_value=6.33808e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=143.1	fisher_strand_p_value=3.48795e-08	frequency=3.034e-01	ks_quality_p_value=1	major_base=C	major_cov=26/36	major_frequency=6.966e-01	minor_base=A	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=3.034e-01	polymorphism_score=15.1	prediction=polymorphism	ref_cov=26/36	total_cov=53/36
RA	14	.	NC_000913	70289	0	G	T	bias_e_value=1351590	bias_p_value=0.291188	consensus_reject=SCORE_CUTOFF,FREQUENCY_CUTOFF	consensus_score=6.4	fisher_strand_p_value=0.0999722	frequency=5.229e-01	ks_quality_p_value=0.836703	major_base=T	major_cov=40/74	major_frequency=5.229e-01	minor_base=G	minor_cov=48/56	new_cov=40/74	polymorphism_frequency=5.229e-01	polymorphism_score=inf	prediction=polymorphism	ref_cov=48/56	total_cov=88/130
RA	15	.	NC_000913	70371	0	T	C	bias_e_value=1801870	bias_p_value=0.388196	consensus_reject=SCORE_CUTOFF,FREQUENCY_CUTOFF	consensus_score=-2.7	fisher_strand_p_value=0.143589	frequency=5.175e-01	ks_quality_p_value=0.881508	major_base=C	major_cov=48/70	major_frequency=5.175e-01	minor_base=T	minor_cov=56/54	new_cov=48/70	polymorphism_frequency=5.175e-01	polymorphism_score=inf	prediction=polymorphism	ref_cov=56/54	total_cov=105/126
RA	16	.	NC_000913	70434	0	C	T	bias_e_value=2590770	bias_p_value=0.558157	consensus_reject=SCORE_CUTOFF,FREQUENCY_CUTOFF	consensus_score=9.1	fisher_strand_p_value=0.275617	frequency=5.045e-01	ks_quality_p_value=0.810369	major_base=T	major_cov=43/68	major_frequency=5.045e-01	minor_base=C	minor_cov=51/58	new_cov=43/68	polymorphism_frequency=5.045e-01	polymorphism_score=inf	prediction=polymorphism	ref_cov=51/58	total_cov=95/126
RA	17	.	NC_000913	70581	0	C	T	bias_e_value=3847030	bias_p_value=0.828807	consensus_reject=SCORE_CUTOFF,FREQUENCY_CUTOFF	consensus_score=3.8	fisher_strand_p_value=0.634525	frequency=4.906e-01	ks_quality_p_value=0.74901	major_base=C	major_cov=35/46	major_frequency=5.094e-01	minor_base=T	minor_cov=37/41	new_cov=37/41	polymorphism_frequency=4.906e-01	polymorphism_score=268.3	prediction=polymorphism	ref_cov=35/46	total_cov=72/87
RA	18	.	NC_000913	70740	0	T	G	bias_e_value=4482390	bias_p_value=0.965688	consensus_reject=FREQUENCY_CUTOFF	consensus_score=55.1	fisher_strand_p_value=0.749745	frequency=5.195e-01	ks_quality_p_value=1	major_base=G	major_cov=40/40	major_frequency=5.195e-01	minor_base=T	minor_cov=35/39	new_cov=40/40	polymorphism_frequency=5.195e-01	polymorphism_score=221.1	prediction=polymorphism	ref_cov=35/39	total_cov=75/79
RA	19	.	NC_000913	71079	0	C	T	bias_e_value=2846410	bias_p_value=0.613233	consensus_reject=FREQUENCY_CUTOFF	consensus_score=109.4	fisher_strand_p_value=0.2684	frequency=5.774e-01	ks_quality_p_value=0.977009	major_base=T	major_cov=60/37	major_frequency=5.774e-01	minor_base=C	minor_cov=37/34	new_cov=60/37	polymorphism_frequency=5.774e-01	polymorphism_score=220.4	prediction=polymorphism	ref_cov=37/34	total_cov=97/71
RA	20	.	NC_000913	71082	0	T	C	bias_e_value=1658250	bias_p_value=0.357255	consensus_reject=FREQUENCY_CUTOFF	consensus_score=66.5	fisher_strand_p_value=0.117059	frequency=5.655e-01	ks_quality_p_value=0.957006	major_base=C	major_cov=60/35	major_frequency=5.655e-01	minor_base=T	minor_cov=37/36	new_cov=60/35	polymorphism_frequency=5.655e-01	polymorphism_score=238.9	prediction=polymorphism	ref_cov=37/36	total_cov=97/72
RA	21	.	NC_000913	71085	0	T	C	bias_e_value=1705810	bias_p_value=0.367501	consensus_reject=FREQUENCY_CUTOFF	consensus_score=60.9	fisher_strand_p_value=0.121137	frequency=5.621e-01	ks_quality_p_value=0.963798	major_base=C	major_cov=59/36	major_frequency=5.621e-01	minor_base=T	minor_cov=37/37	new_cov=59/36	polymorphism_frequency=5.621e-01	polymorphism_score=249.5	prediction=polymorphism	ref_cov=37/37	total_cov=97/73
RA	22	.	NC_000913	71109	0	T	C	bias_e_value=2540670	bias_p_value=0.547363	consensus_reject=FREQUENCY_CUTOFF	consensus_score=56.7	fisher_strand_p_value=0.230885	frequency=5.580e-01	ks_quality_p_value=0.936516	major_base=C	major_cov=61/40	major_frequency=5.580e-01	minor_base=T	minor_cov=41/39	new_cov=61/40	polymorphism_frequency=5.580e-01	polymorphism_score=265.2	prediction=polymorphism	ref_cov=41/39	total_cov=102/79
RA	23	.	NC_000913	71175	0	A	G	bias_e_value=3452960	bias_p_value=0.743907	consensus_reject=FREQUENCY_CUTOFF	consensus_score=71.5	fisher_strand_p_value=0.376119	frequency=5.532e-01	ks_quality_p_value=1	major_base=G	major_cov=61/43	major_frequency=5.532e-01	minor_base=A	minor_cov=43/41	new_cov=61/43	polymorphism_frequency=5.532e-01	polymorphism_score=268.6	prediction=polymorphism	ref_cov=43/41	total_cov=106/84
RA	24	.	NC_000913	71214	0	T	C	bias_e_value=1030140	bias_p_value=0.221934	consensus_reject=FREQUENCY_CUTOFF	consensus_score=61.6	fisher_strand_p_value=0.389874	frequency=5.729e-01	ks_quality_p_value=0.147677	major_base=C	major_cov=64/50	major_frequency=5.729e-01	minor_base=T	minor_cov=42/43	new_cov=64/50	polymorphism_frequency=5.729e-01	polymorphism_score=287.6	prediction=polymorphism	ref_cov=42/43	total_cov=106/93
RA	25	.	NC_000913	141849	0	C	A	bias_e_value=1.70141e-05	bias_p_value=3.66553e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=266.9	fisher_strand_p_value=1.19172e-13	frequency=2.761e-01	ks_quality_p_value=1	major_base=C	major_cov=33/64	major_frequency=7.239e-01	minor_base=A	minor_cov=37/0	new_cov=37/0	polymorphism_frequency=2.761e-01	polymorphism_score=12.9	prediction=polymorphism	ref_cov=33/64	total_cov=70/64
RA	26	.	NC_000913	190843	0	C	A	bias_e_value=0.0154879	bias_p_value=3.33671e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=85.3	fisher_strand_p_value=1.4089e-10	frequency=4.943e-01	ks_quality_p_value=1	major_base=C	major_cov=18/26	major_frequency=5.057e-01	minor_base=A	minor_cov=43/0	new_cov=43/0	polymorphism_frequency=4.943e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=18/26	total_cov=61/26
RA	27	.	NC_000913	309381	0	C	T	bias_e_value=3740410	bias_p_value=0.805836	consensus_score=313.8	fisher_strand_p_value=0.445652	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=40/51	major_frequency=9.891e-01	minor_base=C	minor_cov=1/0	new_cov=40/51	polymorphism_frequency=9.891e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=41/51
RA	28	.	NC_000913	309985	0	T	A	consensus_score=268.2	frequency=1	major_base=A	major_cov=37/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=37/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=37/41
RA	29	.	NC_000913	321260	0	A	T	bias_e_value=4641650	bias_p_value=1	consensus_score=518.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=66/87	major_frequency=9.935e-01	minor_base=C	minor_cov=0/1	new_cov=66/87	polymorphism_frequency=9.935e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=66/88
RA	30	.	NC_000913	581127	0	G	A	bias_e_value=81992.8	bias_p_value=0.0176646	consensus_reject=FREQUENCY_CUTOFF	consensus_score=167.4	fisher_strand_p_value=0.00266775	frequency=2.045e-01	ks_quality_p_value=0.948762	major_base=G	major_cov=45/25	major_frequency=7.955e-01	minor_base=A	minor_cov=4/14	new_cov=4/14	polymorphism_frequency=2.045e-01	polymorphism_score=51.3	prediction=polymorphism	ref_cov=45/25	total_cov=49/39
RA	31	.	NC_000913	581130	0	G	A	bias_e_value=51559.8	bias_p_value=0.0111081	consensus_reject=FREQUENCY_CUTOFF	consensus_score=160.4	fisher_strand_p_value=0.0037786	frequency=2.000e-01	ks_quality_p_value=0.391062	major_base=G	major_cov=44/28	major_frequency=8.000e-01	minor_base=A	minor_cov=4/14	new_cov=4/14	polymorphism_frequency=2.000e-01	polymorphism_score=51.0	prediction=polymorphism	ref_cov=44/28	total_cov=48/43
RA	32	.	NC_000913	581196	0	C	G	bias_e_value=13824.6	bias_p_value=0.00297838	consensus_reject=FREQUENCY_CUTOFF	consensus_score=196.1	fisher_strand_p_value=0.000332349	frequency=2.211e-01	ks_quality_p_value=0.994043	major_base=C	major_cov=48/26	major_frequency=7.789e-01	minor_base=G	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.211e-01	polymorphism_score=66.5	prediction=polymorphism	ref_cov=48/26	total_cov=52/43
RA	33	.	NC_000913	581199	0	A	C	bias_e_value=14205.5	bias_p_value=0.00306044	consensus_reject=FREQUENCY_CUTOFF	consensus_score=148.8	fisher_strand_p_value=0.00034907	frequency=2.234e-01	ks_quality_p_value=0.975815	major_base=A	major_cov=47/26	major_frequency=7.766e-01	minor_base=C	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.234e-01	polymorphism_score=59.7	prediction=polymorphism	ref_cov=47/26	total_cov=51/43
RA	34	.	NC_000913	581202	0	T	A	bias_e_value=13521.2	bias_p_value=0.00291302	consensus_reject=FREQUENCY_CUTOFF	consensus_score=207.5	fisher_strand_p_value=0.000399549	frequency=2.211e-01	ks_quality_p_value=0.806478	major_base=T	major_cov=47/27	major_frequency=7.789e-01	minor_base=A	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.211e-01	polymorphism_score=79.8	prediction=polymorphism	ref_cov=47/27	total_cov=51/44
RA	35	.	NC_000913	581206	0	A	G	bias_e_value=16366.9	bias_p_value=0.00352609	consensus_reject=FREQUENCY_CUTOFF	consensus_score=192.5	fisher_strand_p_value=0.000399549	frequency=2.211e-01	ks_quality_p_value=1	major_base=A	major_cov=47/27	major_frequency=7.789e-01	minor_base=G	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.211e-01	polymorphism_score=47.7	prediction=polymorphism	ref_cov=47/27	total_cov=51/44
RA	36	.	NC_000913	581208	0	T	A	bias_e_value=14334.7	bias_p_value=0.00308827	consensus_reject=FREQUENCY_CUTOFF	consensus_score=212.8	fisher_strand_p_value=0.000399549	frequency=2.211e-01	ks_quality_p_value=0.861259	major_base=T	major_cov=47/27	major_frequency=7.789e-01	minor_base=A	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.211e-01	polymorphism_score=79.8	prediction=polymorphism	ref_cov=47/27	total_cov=51/44
RA	37	.	NC_000913	581214	0	T	C	bias_e_value=27368.5	bias_p_value=0.00589628	consensus_reject=FREQUENCY_CUTOFF	consensus_score=202.0	fisher_strand_p_value=0.00102143	frequency=2.143e-01	ks_quality_p_value=0.700322	major_base=T	major_cov=47/30	major_frequency=7.857e-01	minor_base=C	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.143e-01	polymorphism_score=56.1	prediction=polymorphism	ref_cov=47/30	total_cov=51/47
RA	38	.	NC_000913	581220	0	C	T	bias_e_value=45973.5	bias_p_value=0.00990457	consensus_reject=FREQUENCY_CUTOFF	consensus_score=182.2	fisher_strand_p_value=0.00253918	frequency=2.143e-01	ks_quality_p_value=0.509936	major_base=C	major_cov=45/32	major_frequency=7.857e-01	minor_base=T	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.143e-01	polymorphism_score=60.8	prediction=polymorphism	ref_cov=45/32	total_cov=50/49
RA	39	.	NC_000913	581223	0	C	T	bias_e_value=45673.7	bias_p_value=0.00983996	consensus_reject=FREQUENCY_CUTOFF	consensus_score=194.7	fisher_strand_p_value=0.00131337	frequency=2.121e-01	ks_quality_p_value=0.978479	major_base=C	major_cov=46/32	major_frequency=7.879e-01	minor_base=T	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.121e-01	polymorphism_score=59.4	prediction=polymorphism	ref_cov=46/32	total_cov=50/49
RA	40	.	NC_000913	581226	0	G	A	bias_e_value=39250	bias_p_value=0.00845603	consensus_reject=FREQUENCY_CUTOFF	consensus_score=189.0	fisher_strand_p_value=0.00131337	frequency=2.121e-01	ks_quality_p_value=0.822173	major_base=G	major_cov=46/32	major_frequency=7.879e-01	minor_base=A	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.121e-01	polymorphism_score=61.0	prediction=polymorphism	ref_cov=46/32	total_cov=50/49
RA	41	.	NC_000913	581227	0	A	G	bias_e_value=41351.6	bias_p_value=0.0089088	consensus_reject=FREQUENCY_CUTOFF	consensus_score=205.3	fisher_strand_p_value=0.00131337	frequency=2.121e-01	ks_quality_p_value=0.872864	major_base=A	major_cov=46/32	major_frequency=7.879e-01	minor_base=G	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.121e-01	polymorphism_score=57.7	prediction=polymorphism	ref_cov=46/32	total_cov=50/49
RA	42	.	NC_000913	581229	0	C	T	bias_e_value=83758.5	bias_p_value=0.018045	consensus_reject=FREQUENCY_CUTOFF	consensus_score=184.1	fisher_strand_p_value=0.00261	frequency=2.188e-01	ks_quality_p_value=0.994184	major_base=C	major_cov=43/32	major_frequency=7.812e-01	minor_base=T	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.188e-01	polymorphism_score=59.7	prediction=polymorphism	ref_cov=43/32	total_cov=47/49
RA	43	.	NC_000913	581232	0	C	T	bias_e_value=133403	bias_p_value=0.0287403	consensus_reject=FREQUENCY_CUTOFF	consensus_score=165.2	fisher_strand_p_value=0.00545013	frequency=2.258e-01	ks_quality_p_value=0.823081	major_base=C	major_cov=40/32	major_frequency=7.742e-01	minor_base=T	minor_cov=4/17	new_cov=4/17	polymorphism_frequency=2.258e-01	polymorphism_score=59.9	prediction=polymorphism	ref_cov=40/32	total_cov=45/49
RA	44	.	NC_000913	581241	0	G	T	bias_e_value=507257	bias_p_value=0.109284	consensus_reject=FREQUENCY_CUTOFF	consensus_score=200.7	fisher_strand_p_value=0.0228733	frequency=2.549e-01	ks_quality_p_value=1	major_base=G	major_cov=44/32	major_frequency=7.451e-01	minor_base=T	minor_cov=8/18	new_cov=8/18	polymorphism_frequency=2.549e-01	polymorphism_score=53.5	prediction=polymorphism	ref_cov=44/32	total_cov=52/50
RA	45	.	NC_000913	581250	0	T	C	bias_e_value=503582	bias_p_value=0.108492	consensus_reject=FREQUENCY_CUTOFF	consensus_score=140.5	fisher_strand_p_value=0.0240607	frequency=2.947e-01	ks_quality_p_value=0.941951	major_base=T	major_cov=37/30	major_frequency=7.053e-01	minor_base=C	minor_cov=8/20	new_cov=8/20	polymorphism_frequency=2.947e-01	polymorphism_score=80.4	prediction=polymorphism	ref_cov=37/30	total_cov=45/50
RA	46	.	NC_000913	581253	0	T	C	bias_e_value=527937	bias_p_value=0.113739	consensus_reject=FREQUENCY_CUTOFF	consensus_score=147.7	fisher_strand_p_value=0.0240607	frequency=2.947e-01	ks_quality_p_value=1	major_base=T	major_cov=37/30	major_frequency=7.053e-01	minor_base=C	minor_cov=8/20	new_cov=8/20	polymorphism_frequency=2.947e-01	polymorphism_score=70.2	prediction=polymorphism	ref_cov=37/30	total_cov=45/50
RA	47	.	NC_000913	581259	0	A	G	bias_e_value=1253340	bias_p_value=0.270021	consensus_reject=FREQUENCY_CUTOFF	consensus_score=131.6	fisher_strand_p_value=0.0855705	frequency=3.100e-01	ks_quality_p_value=0.879858	major_base=A	major_cov=38/31	major_frequency=6.900e-01	minor_base=G	minor_cov=11/20	new_cov=11/20	polymorphism_frequency=3.100e-01	polymorphism_score=91.5	prediction=polymorphism	ref_cov=38/31	total_cov=49/51
RA	48	.	NC_000913	581275	0	G	A	bias_e_value=1489500	bias_p_value=0.320899	consensus_reject=FREQUENCY_CUTOFF	consensus_score=68.4	fisher_strand_p_value=0.0959708	frequency=4.000e-01	ks_quality_p_value=1	major_base=G	major_cov=36/39	major_frequency=6.000e-01	minor_base=A	minor_cov=16/34	new_cov=16/34	polymorphism_frequency=4.000e-01	polymorphism_score=162.6	prediction=polymorphism	ref_cov=36/39	total_cov=52/73
RA	49	.	NC_000913	581286	0	G	C	bias_e_value=1803340	bias_p_value=0.388514	consensus_reject=FREQUENCY_CUTOFF	consensus_score=69.4	fisher_strand_p_value=0.130285	frequency=4.083e-01	ks_quality_p_value=0.972709	major_base=G	major_cov=32/39	major_frequency=5.917e-01	minor_base=C	minor_cov=15/34	new_cov=15/34	polymorphism_frequency=4.083e-01	polymorphism_score=159.6	prediction=polymorphism	ref_cov=32/39	total_cov=48/75
RA	50	.	NC_000913	581289	0	A	G	bias_e_value=2822980	bias_p_value=0.608184	consensus_reject=FREQUENCY_CUTOFF	consensus_score=108.0	fisher_strand_p_value=0.258478	frequency=4.016e-01	ks_quality_p_value=1	major_base=A	major_cov=32/41	major_frequency=5.984e-01	minor_base=G	minor_cov=16/33	new_cov=16/33	polymorphism_frequency=4.016e-01	polymorphism_score=129.9	prediction=polymorphism	ref_cov=32/41	total_cov=48/75
RA	51	.	NC_000913	581290	0	C	A	bias_e_value=2369910	bias_p_value=0.510575	consensus_reject=FREQUENCY_CUTOFF	consensus_score=88.6	fisher_strand_p_value=0.195209	frequency=4.065e-01	ks_quality_p_value=0.988925	major_base=C	major_cov=32/41	major_frequency=5.935e-01	minor_base=A	minor_cov=16/34	new_cov=16/34	polymorphism_frequency=4.065e-01	polymorphism_score=145.9	prediction=polymorphism	ref_cov=32/41	total_cov=48/75
RA	52	.	NC_000913	581291	0	G	A	bias_e_value=2350010	bias_p_value=0.506288	consensus_reject=FREQUENCY_CUTOFF	consensus_score=95.6	fisher_strand_p_value=0.190451	frequency=4.098e-01	ks_quality_p_value=1	major_base=G	major_cov=32/40	major_frequency=5.902e-01	minor_base=A	minor_cov=16/34	new_cov=16/34	polymorphism_frequency=4.098e-01	polymorphism_score=122.9	prediction=polymorphism	ref_cov=32/40	total_cov=48/76
RA	53	.	NC_000913	581295	0	T	C	bias_e_value=2852940	bias_p_value=0.61464	consensus_reject=FREQUENCY_CUTOFF	consensus_score=93.3	fisher_strand_p_value=0.263282	frequency=4.000e-01	ks_quality_p_value=1	major_base=T	major_cov=32/43	major_frequency=6.000e-01	minor_base=C	minor_cov=16/34	new_cov=16/34	polymorphism_frequency=4.000e-01	polymorphism_score=153.7	prediction=polymorphism	ref_cov=32/43	total_cov=48/77
RA	54	.	NC_000913	581301	0	C	T	bias_e_value=2359380	bias_p_value=0.508305	consensus_reject=FREQUENCY_CUTOFF	consensus_score=65.0	fisher_strand_p_value=0.19167	frequency=4.113e-01	ks_quality_p_value=1	major_base=C	major_cov=32/41	major_frequency=5.887e-01	minor_base=T	minor_cov=16/35	new_cov=16/35	polymorphism_frequency=4.113e-01	polymorphism_score=164.5	prediction=polymorphism	ref_cov=32/41	total_cov=48/76
RA	55	.	NC_000913	581322	0	C	T	bias_e_value=3069580	bias_p_value=0.661313	consensus_reject=FREQUENCY_CUTOFF	consensus_score=10.1	fisher_strand_p_value=0.31416	frequency=4.930e-01	ks_quality_p_value=0.955247	major_base=C	major_cov=34/38	major_frequency=5.070e-01	minor_base=T	minor_cov=27/43	new_cov=27/43	polymorphism_frequency=4.930e-01	polymorphism_score=237.0	prediction=polymorphism	ref_cov=34/38	total_cov=61/81
RA	56	.	NC_000913	581335	0	C	A	bias_e_value=3192940	bias_p_value=0.687889	consensus_reject=FREQUENCY_CUTOFF	consensus_score=42.3	fisher_strand_p_value=0.322881	frequency=4.865e-01	ks_quality_p_value=1	major_base=C	major_cov=36/40	major_frequency=5.135e-01	minor_base=A	minor_cov=28/44	new_cov=28/44	polymorphism_frequency=4.865e-01	polymorphism_score=205.8	prediction=polymorphism	ref_cov=36/40	total_cov=64/84
RA	57	.	NC_000913	581337	0	G	A	bias_e_value=3192940	bias_p_value=0.687889	consensus_reject=SCORE_CUTOFF,FREQUENCY_CUTOFF	consensus_score=-4.6	fisher_strand_p_value=0.322881	frequency=4.865e-01	ks_quality_p_value=1	major_base=G	major_cov=36/40	major_frequency=5.135e-01	minor_base=A	minor_cov=28/44	new_cov=28/44	polymorphism_frequency=4.865e-01	polymorphism_score=241.7	prediction=polymorphism	ref_cov=36/40	total_cov=64/84
RA	58	.	NC_000913	581380	0	C	G	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=73.9	fisher_strand_p_value=1	frequency=4.551e-01	ks_quality_p_value=1	major_base=C	major_cov=40/45	major_frequency=5.449e-01	minor_base=G	minor_cov=33/38	new_cov=33/38	polymorphism_frequency=4.551e-01	polymorphism_score=237.5	prediction=polymorphism	ref_cov=40/45	total_cov=73/84
RA	59	.	NC_000913	581381	0	A	G	bias_e_value=4641370	bias_p_value=0.99994	consensus_reject=FREQUENCY_CUTOFF	consensus_score=52.5	fisher_strand_p_value=1	frequency=4.615e-01	ks_quality_p_value=0.989071	major_base=A	major_cov=39/45	major_frequency=5.385e-01	minor_base=G	minor_cov=33/39	new_cov=33/39	polymorphism_frequency=4.615e-01	polymorphism_score=230.1	prediction=polymorphism	ref_cov=39/45	total_cov=72/84
RA	60	.	NC_000913	581388	0	G	A	bias_e_value=4624920	bias_p_value=0.996396	consensus_reject=FREQUENCY_CUTOFF	consensus_score=45.8	fisher_strand_p_value=1	frequency=4.348e-01	ks_quality_p_value=0.916308	major_base=G	major_cov=37/41	major_frequency=5.652e-01	minor_base=A	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.348e-01	polymorphism_score=196.6	prediction=polymorphism	ref_cov=37/41	total_cov=66/72
RA	61	.	NC_000913	581392	0	T	C	bias_e_value=4293830	bias_p_value=0.925066	consensus_reject=FREQUENCY_CUTOFF	consensus_score=55.6	fisher_strand_p_value=0.728731	frequency=4.478e-01	ks_quality_p_value=0.876528	major_base=T	major_cov=33/41	major_frequency=5.522e-01	minor_base=C	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.478e-01	polymorphism_score=189.2	prediction=polymorphism	ref_cov=33/41	total_cov=62/72
RA	62	.	NC_000913	581394	0	T	C	bias_e_value=4439790	bias_p_value=0.956512	consensus_reject=FREQUENCY_CUTOFF	consensus_score=60.2	fisher_strand_p_value=0.728731	frequency=4.478e-01	ks_quality_p_value=0.987971	major_base=T	major_cov=33/41	major_frequency=5.522e-01	minor_base=C	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.478e-01	polymorphism_score=193.1	prediction=polymorphism	ref_cov=33/41	total_cov=62/72
RA	63	.	NC_000913	581397	0	T	C	bias_e_value=4347720	bias_p_value=0.936676	consensus_reject=FREQUENCY_CUTOFF	consensus_score=62.8	fisher_strand_p_value=0.728369	frequency=4.444e-01	ks_quality_p_value=0.91427	major_base=T	major_cov=33/42	major_frequency=5.556e-01	minor_base=C	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.444e-01	polymorphism_score=193.9	prediction=polymorphism	ref_cov=33/42	total_cov=62/73
RA	64	.	NC_000913	581398	0	C	G	bias_e_value=4044890	bias_p_value=0.871433	consensus_reject=FREQUENCY_CUTOFF	consensus_score=64.6	fisher_strand_p_value=0.605789	frequency=4.412e-01	ks_quality_p_value=0.88791	major_base=C	major_cov=33/43	major_frequency=5.588e-01	minor_base=G	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.412e-01	polymorphism_score=213.8	prediction=polymorphism	ref_cov=33/43	total_cov=62/74
RA	65	.	NC_000913	581404	0	C	G	bias_e_value=3813600	bias_p_value=0.821604	consensus_reject=FREQUENCY_CUTOFF	consensus_score=66.2	fisher_strand_p_value=0.488106	frequency=4.403e-01	ks_quality_p_value=0.954121	major_base=C	major_cov=32/43	major_frequency=5.597e-01	minor_base=G	minor_cov=29/30	new_cov=29/30	polymorphism_frequency=4.403e-01	polymorphism_score=207.9	prediction=polymorphism	ref_cov=32/43	total_cov=61/74
RA	66	.	NC_000913	581407	0	G	T	bias_e_value=4104020	bias_p_value=0.884171	consensus_reject=FREQUENCY_CUTOFF	consensus_score=69.9	fisher_strand_p_value=0.602079	frequency=4.444e-01	ks_quality_p_value=0.928603	major_base=G	major_cov=32/43	major_frequency=5.556e-01	minor_base=T	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.444e-01	polymorphism_score=183.9	prediction=polymorphism	ref_cov=32/43	total_cov=61/74
RA	67	.	NC_000913	581410	0	T	A	bias_e_value=4212550	bias_p_value=0.907554	consensus_reject=FREQUENCY_CUTOFF	consensus_score=71.4	fisher_strand_p_value=0.602079	frequency=4.444e-01	ks_quality_p_value=1	major_base=T	major_cov=32/43	major_frequency=5.556e-01	minor_base=A	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.444e-01	polymorphism_score=255.7	prediction=polymorphism	ref_cov=32/43	total_cov=61/74
RA	68	.	NC_000913	581412	0	G	T	bias_e_value=4212550	bias_p_value=0.907554	consensus_reject=FREQUENCY_CUTOFF	consensus_score=84.7	fisher_strand_p_value=0.602079	frequency=4.444e-01	ks_quality_p_value=1	major_base=G	major_cov=32/43	major_frequency=5.556e-01	minor_base=T	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.444e-01	polymorphism_score=171.8	prediction=polymorphism	ref_cov=32/43	total_cov=61/74
RA	69	.	NC_000913	581413	0	C	T	bias_e_value=4212550	bias_p_value=0.907554	consensus_reject=FREQUENCY_CUTOFF	consensus_score=44.5	fisher_strand_p_value=0.602079	frequency=4.444e-01	ks_quality_p_value=1	major_base=C	major_cov=32/43	major_frequency=5.556e-01	minor_base=T	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.444e-01	polymorphism_score=201.3	prediction=polymorphism	ref_cov=32/43	total_cov=61/74
RA	70	.	NC_000913	581416	0	A	G	bias_e_value=3671760	bias_p_value=0.791045	consensus_reject=FREQUENCY_CUTOFF	consensus_score=63.2	fisher_strand_p_value=0.491854	frequency=4.412e-01	ks_quality_p_value=0.869771	major_base=A	major_cov=32/44	major_frequency=5.588e-01	minor_base=G	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.412e-01	polymorphism_score=189.9	prediction=polymorphism	ref_cov=32/44	total_cov=61/75
RA	71	.	NC_000913	581421	0	T	A	bias_e_value=4430010	bias_p_value=0.954403	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.0	fisher_strand_p_value=0.733088	frequency=4.255e-01	ks_quality_p_value=0.973461	major_base=T	major_cov=36/45	major_frequency=5.745e-01	minor_base=A	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.255e-01	polymorphism_score=252.6	prediction=polymorphism	ref_cov=36/45	total_cov=65/76
RA	72	.	NC_000913	581423	0	A	C	bias_e_value=4233290	bias_p_value=0.912022	consensus_reject=FREQUENCY_CUTOFF	consensus_score=37.5	fisher_strand_p_value=0.611016	frequency=4.286e-01	ks_quality_p_value=1	major_base=A	major_cov=35/45	major_frequency=5.714e-01	minor_base=C	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.286e-01	polymorphism_score=199.2	prediction=polymorphism	ref_cov=35/45	total_cov=64/76
RA	73	.	NC_000913	581425	0	G	A	bias_e_value=4434890	bias_p_value=0.955455	consensus_reject=FREQUENCY_CUTOFF	consensus_score=53.5	fisher_strand_p_value=0.731552	frequency=4.317e-01	ks_quality_p_value=0.979796	major_base=G	major_cov=35/44	major_frequency=5.683e-01	minor_base=A	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.317e-01	polymorphism_score=201.0	prediction=polymorphism	ref_cov=35/44	total_cov=64/75
RA	74	.	NC_000913	581428	0	G	T	bias_e_value=3848420	bias_p_value=0.829106	consensus_reject=FREQUENCY_CUTOFF	consensus_score=65.8	fisher_strand_p_value=1	frequency=4.412e-01	ks_quality_p_value=0.475669	major_base=G	major_cov=36/40	major_frequency=5.588e-01	minor_base=T	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.412e-01	polymorphism_score=186.2	prediction=polymorphism	ref_cov=36/40	total_cov=65/71
RA	75	.	NC_000913	581434	0	A	G	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=67.8	fisher_strand_p_value=1	frequency=4.444e-01	ks_quality_p_value=1	major_base=A	major_cov=36/39	major_frequency=5.556e-01	minor_base=G	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.444e-01	polymorphism_score=181.0	prediction=polymorphism	ref_cov=36/39	total_cov=65/70
RA	76	.	NC_000913	581437	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=35.1	fisher_strand_p_value=1	frequency=4.511e-01	ks_quality_p_value=1	major_base=G	major_cov=35/38	major_frequency=5.489e-01	minor_base=A	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.511e-01	polymorphism_score=199.5	prediction=polymorphism	ref_cov=35/38	total_cov=64/69
RA	77	.	NC_000913	581440	0	C	G	bias_e_value=4451020	bias_p_value=0.958929	consensus_reject=FREQUENCY_CUTOFF	consensus_score=71.7	fisher_strand_p_value=0.727442	frequency=4.427e-01	ks_quality_p_value=1	major_base=C	major_cov=34/39	major_frequency=5.573e-01	minor_base=G	minor_cov=29/29	new_cov=29/29	polymorphism_frequency=4.427e-01	polymorphism_score=203.4	prediction=polymorphism	ref_cov=34/39	total_cov=64/70
RA	78	.	NC_000913	581443	0	C	G	bias_e_value=4199470	bias_p_value=0.904735	consensus_reject=FREQUENCY_CUTOFF	consensus_score=57.6	fisher_strand_p_value=1	frequency=4.478e-01	ks_quality_p_value=0.596574	major_base=C	major_cov=35/39	major_frequency=5.522e-01	minor_base=G	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.478e-01	polymorphism_score=214.5	prediction=polymorphism	ref_cov=35/39	total_cov=64/70
RA	79	.	NC_000913	581455	0	G	A	bias_e_value=4436470	bias_p_value=0.955796	consensus_reject=FREQUENCY_CUTOFF	consensus_score=34.4	fisher_strand_p_value=0.726723	frequency=4.511e-01	ks_quality_p_value=0.987716	major_base=G	major_cov=32/41	major_frequency=5.489e-01	minor_base=A	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.511e-01	polymorphism_score=199.7	prediction=polymorphism	ref_cov=32/41	total_cov=61/72
RA	80	.	NC_000913	581458	0	T	C	bias_e_value=4449950	bias_p_value=0.9587	consensus_reject=FREQUENCY_CUTOFF	consensus_score=63.7	fisher_strand_p_value=0.726723	frequency=4.511e-01	ks_quality_p_value=1	major_base=T	major_cov=32/41	major_frequency=5.489e-01	minor_base=C	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.511e-01	polymorphism_score=187.4	prediction=polymorphism	ref_cov=32/41	total_cov=61/72
RA	81	.	NC_000913	581460	0	C	A	bias_e_value=4317210	bias_p_value=0.930103	consensus_reject=FREQUENCY_CUTOFF	consensus_score=68.9	fisher_strand_p_value=0.726723	frequency=4.511e-01	ks_quality_p_value=0.894727	major_base=C	major_cov=32/41	major_frequency=5.489e-01	minor_base=A	minor_cov=29/31	new_cov=29/31	polymorphism_frequency=4.511e-01	polymorphism_score=177.0	prediction=polymorphism	ref_cov=32/41	total_cov=61/72
RA	82	.	NC_000913	581476	0	G	C	bias_e_value=2408980	bias_p_value=0.518991	consensus_reject=FREQUENCY_CUTOFF	consensus_score=24.4	fisher_strand_p_value=0.722563	frequency=4.574e-01	ks_quality_p_value=0.274309	major_base=G	major_cov=30/40	major_frequency=5.426e-01	minor_base=C	minor_cov=28/31	new_cov=28/31	polymorphism_frequency=4.574e-01	polymorphism_score=204.5	prediction=polymorphism	ref_cov=30/40	total_cov=59/72
RA	83	.	NC_000913	581482	0	A	G	bias_e_value=3446610	bias_p_value=0.74254	consensus_reject=FREQUENCY_CUTOFF	consensus_score=68.6	fisher_strand_p_value=0.374723	frequency=4.453e-01	ks_quality_p_value=1	major_base=A	major_cov=30/41	major_frequency=5.547e-01	minor_base=G	minor_cov=29/28	new_cov=29/28	polymorphism_frequency=4.453e-01	polymorphism_score=168.6	prediction=polymorphism	ref_cov=30/41	total_cov=59/69
RA	84	.	NC_000913	581485	0	C	G	bias_e_value=3431220	bias_p_value=0.739225	consensus_reject=FREQUENCY_CUTOFF	consensus_score=64.2	fisher_strand_p_value=0.373845	frequency=4.419e-01	ks_quality_p_value=0.993358	major_base=C	major_cov=30/42	major_frequency=5.581e-01	minor_base=G	minor_cov=29/28	new_cov=29/28	polymorphism_frequency=4.419e-01	polymorphism_score=200.6	prediction=polymorphism	ref_cov=30/42	total_cov=59/70
RA	85	.	NC_000913	581488	0	A	C	bias_e_value=2995160	bias_p_value=0.645279	consensus_reject=FREQUENCY_CUTOFF	consensus_score=33.9	fisher_strand_p_value=0.28702	frequency=4.453e-01	ks_quality_p_value=1	major_base=A	major_cov=29/42	major_frequency=5.547e-01	minor_base=C	minor_cov=29/28	new_cov=29/28	polymorphism_frequency=4.453e-01	polymorphism_score=175.6	prediction=polymorphism	ref_cov=29/42	total_cov=58/70
RA	86	.	NC_000913	581512	0	A	G	bias_e_value=4592400	bias_p_value=0.989388	consensus_reject=FREQUENCY_CUTOFF	consensus_score=71.2	fisher_strand_p_value=0.857898	frequency=4.320e-01	ks_quality_p_value=1	major_base=A	major_cov=34/37	major_frequency=5.680e-01	minor_base=G	minor_cov=27/27	new_cov=27/27	polymorphism_frequency=4.320e-01	polymorphism_score=165.5	prediction=polymorphism	ref_cov=34/37	total_cov=61/64
RA	87	.	NC_000913	581513	0	C	T	bias_e_value=4592400	bias_p_value=0.989388	consensus_reject=FREQUENCY_CUTOFF	consensus_score=51.9	fisher_strand_p_value=0.857898	frequency=4.320e-01	ks_quality_p_value=1	major_base=C	major_cov=34/37	major_frequency=5.680e-01	minor_base=T	minor_cov=27/27	new_cov=27/27	polymorphism_frequency=4.320e-01	polymorphism_score=177.3	prediction=polymorphism	ref_cov=34/37	total_cov=61/64
RA	88	.	NC_000913	581518	0	C	G	bias_e_value=4592400	bias_p_value=0.989388	consensus_reject=FREQUENCY_CUTOFF	consensus_score=76.8	fisher_strand_p_value=0.857898	frequency=4.320e-01	ks_quality_p_value=1	major_base=C	major_cov=34/37	major_frequency=5.680e-01	minor_base=G	minor_cov=27/27	new_cov=27/27	polymorphism_frequency=4.320e-01	polymorphism_score=190.3	prediction=polymorphism	ref_cov=34/37	total_cov=61/64
RA	89	.	NC_000913	581524	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=81.5	fisher_strand_p_value=1	frequency=4.146e-01	ks_quality_p_value=1	major_base=G	major_cov=34/38	major_frequency=5.854e-01	minor_base=A	minor_cov=24/27	new_cov=24/27	polymorphism_frequency=4.146e-01	polymorphism_score=155.7	prediction=polymorphism	ref_cov=34/38	total_cov=59/65
RA	90	.	NC_000913	581527	0	G	C	bias_e_value=3916770	bias_p_value=0.843831	consensus_reject=FREQUENCY_CUTOFF	consensus_score=60.7	fisher_strand_p_value=0.856354	frequency=4.194e-01	ks_quality_p_value=0.579277	major_base=G	major_cov=33/39	major_frequency=5.806e-01	minor_base=C	minor_cov=25/27	new_cov=25/27	polymorphism_frequency=4.194e-01	polymorphism_score=189.6	prediction=polymorphism	ref_cov=33/39	total_cov=58/66
RA	91	.	NC_000913	581530	0	C	G	bias_e_value=4413790	bias_p_value=0.95091	consensus_reject=FREQUENCY_CUTOFF	consensus_score=93.4	fisher_strand_p_value=0.711732	frequency=4.132e-01	ks_quality_p_value=0.988427	major_base=C	major_cov=32/39	major_frequency=5.868e-01	minor_base=G	minor_cov=25/25	new_cov=25/25	polymorphism_frequency=4.132e-01	polymorphism_score=172.2	prediction=polymorphism	ref_cov=32/39	total_cov=57/67
RA	92	.	NC_000913	581548	0	C	T	bias_e_value=4367280	bias_p_value=0.940889	consensus_reject=FREQUENCY_CUTOFF	consensus_score=134.1	fisher_strand_p_value=0.839779	frequency=3.243e-01	ks_quality_p_value=0.805561	major_base=C	major_cov=35/40	major_frequency=6.757e-01	minor_base=T	minor_cov=18/18	new_cov=18/18	polymorphism_frequency=3.243e-01	polymorphism_score=115.6	prediction=polymorphism	ref_cov=35/40	total_cov=53/58
RA	93	.	NC_000913	581550	0	G	A	bias_e_value=4520280	bias_p_value=0.973852	consensus_reject=FREQUENCY_CUTOFF	consensus_score=136.7	fisher_strand_p_value=0.839779	frequency=3.243e-01	ks_quality_p_value=0.929068	major_base=G	major_cov=35/40	major_frequency=6.757e-01	minor_base=A	minor_cov=18/18	new_cov=18/18	polymorphism_frequency=3.243e-01	polymorphism_score=112.8	prediction=polymorphism	ref_cov=35/40	total_cov=53/58
RA	94	.	NC_000913	581554	0	C	T	bias_e_value=2978360	bias_p_value=0.64166	consensus_reject=FREQUENCY_CUTOFF	consensus_score=177.1	fisher_strand_p_value=0.319649	frequency=2.917e-01	ks_quality_p_value=0.888885	major_base=C	major_cov=35/50	major_frequency=7.083e-01	minor_base=T	minor_cov=18/17	new_cov=18/17	polymorphism_frequency=2.917e-01	polymorphism_score=107.5	prediction=polymorphism	ref_cov=35/50	total_cov=53/67
RA	95	.	NC_000913	581560	0	C	A	bias_e_value=4372260	bias_p_value=0.941962	consensus_reject=FREQUENCY_CUTOFF	consensus_score=204.0	fisher_strand_p_value=0.684124	frequency=2.895e-01	ks_quality_p_value=0.992878	major_base=C	major_cov=38/43	major_frequency=7.105e-01	minor_base=A	minor_cov=17/16	new_cov=17/16	polymorphism_frequency=2.895e-01	polymorphism_score=81.7	prediction=polymorphism	ref_cov=38/43	total_cov=55/59
RA	96	.	NC_000913	581569	0	G	C	bias_e_value=1035830	bias_p_value=0.223159	consensus_reject=FREQUENCY_CUTOFF	consensus_score=246.9	fisher_strand_p_value=0.0580052	frequency=2.095e-01	ks_quality_p_value=1	major_base=G	major_cov=41/42	major_frequency=7.905e-01	minor_base=C	minor_cov=16/6	new_cov=16/6	polymorphism_frequency=2.095e-01	polymorphism_score=68.9	prediction=polymorphism	ref_cov=41/42	total_cov=57/48
RA	97	.	NC_000913	581572	0	T	C	bias_e_value=1916740	bias_p_value=0.412943	consensus_reject=FREQUENCY_CUTOFF	consensus_score=244.5	fisher_strand_p_value=0.138826	frequency=2.079e-01	ks_quality_p_value=1	major_base=T	major_cov=41/39	major_frequency=7.921e-01	minor_base=C	minor_cov=15/6	new_cov=15/6	polymorphism_frequency=2.079e-01	polymorphism_score=45.7	prediction=polymorphism	ref_cov=41/39	total_cov=57/45
RA	98	.	NC_000913	581575	0	G	T	bias_e_value=1468240	bias_p_value=0.316319	consensus_reject=FREQUENCY_CUTOFF	consensus_score=222.1	fisher_strand_p_value=0.0940252	frequency=2.178e-01	ks_quality_p_value=1	major_base=G	major_cov=41/38	major_frequency=7.822e-01	minor_base=T	minor_cov=16/6	new_cov=16/6	polymorphism_frequency=2.178e-01	polymorphism_score=61.2	prediction=polymorphism	ref_cov=41/38	total_cov=57/44
RA	99	.	NC_000913	581578	0	G	T	bias_e_value=413161	bias_p_value=0.0890117	consensus_reject=FREQUENCY_CUTOFF	consensus_score=191.6	fisher_strand_p_value=0.0940252	frequency=2.178e-01	ks_quality_p_value=0.188001	major_base=G	major_cov=41/38	major_frequency=7.822e-01	minor_base=T	minor_cov=16/6	new_cov=16/6	polymorphism_frequency=2.178e-01	polymorphism_score=62.7	prediction=polymorphism	ref_cov=41/38	total_cov=57/44
RA	100	.	NC_000913	616105	0	C	A	bias_e_value=22.1315	bias_p_value=4.76802e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=129.7	fisher_strand_p_value=2.97482e-07	frequency=2.989e-01	ks_quality_p_value=1	major_base=C	major_cov=28/33	major_frequency=7.011e-01	minor_base=A	minor_cov=26/0	new_cov=26/0	polymorphism_frequency=2.989e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=28/33	total_cov=54/33
RA	101	.	NC_000913	847955	0	G	A	bias_e_value=0.0232959	bias_p_value=5.01888e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=231.5	fisher_strand_p_value=2.15804e-10	frequency=2.241e-01	ks_quality_p_value=1	major_base=G	major_cov=59/31	major_frequency=7.759e-01	minor_base=A	minor_cov=0/26	new_cov=0/26	polymorphism_frequency=2.241e-01	polymorphism_score=23.0	prediction=polymorphism	ref_cov=59/31	total_cov=59/59
RA	102	.	NC_000913	1001094	0	G	T	bias_e_value=44.8351	bias_p_value=9.65929e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=140.1	fisher_strand_p_value=6.32412e-07	frequency=3.085e-01	ks_quality_p_value=1	major_base=G	major_cov=31/34	major_frequency=6.915e-01	minor_base=T	minor_cov=0/29	new_cov=0/29	polymorphism_frequency=3.085e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=31/34	total_cov=31/63
RA	103	.	NC_000913	1015488	0	C	A	bias_e_value=0.223165	bias_p_value=4.80787e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=211.8	fisher_strand_p_value=2.30155e-09	frequency=2.768e-01	ks_quality_p_value=1	major_base=C	major_cov=35/46	major_frequency=7.232e-01	minor_base=A	minor_cov=31/0	new_cov=31/0	polymorphism_frequency=2.768e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=35/46	total_cov=66/47
RA	104	.	NC_000913	1214626	0	G	T	bias_e_value=0.209197	bias_p_value=4.50694e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=204.4	fisher_strand_p_value=2.15051e-09	frequency=2.727e-01	ks_quality_p_value=1	major_base=G	major_cov=46/34	major_frequency=7.273e-01	minor_base=T	minor_cov=0/30	new_cov=0/30	polymorphism_frequency=2.727e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=46/34	total_cov=46/64
RA	105	.	NC_000913	1334966	0	A	C	bias_e_value=7.67321	bias_p_value=1.65312e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=247.7	fisher_strand_p_value=9.63629e-08	frequency=2.270e-01	ks_quality_p_value=1	major_base=A	major_cov=59/50	major_frequency=7.730e-01	minor_base=C	minor_cov=32/0	new_cov=32/0	polymorphism_frequency=2.270e-01	polymorphism_score=13.9	prediction=polymorphism	ref_cov=59/50	total_cov=92/51
RA	106	.	NC_000913	1351463	0	C	A	bias_e_value=23.2227	bias_p_value=5.0031e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=174.4	fisher_strand_p_value=3.13152e-07	frequency=2.500e-01	ks_quality_p_value=1	major_base=C	major_cov=32/40	major_frequency=7.500e-01	minor_base=A	minor_cov=24/0	new_cov=24/0	polymorphism_frequency=2.500e-01	polymorphism_score=14.9	prediction=polymorphism	ref_cov=32/40	total_cov=56/40
RA	107	.	NC_000913	1611507	0	G	T	bias_e_value=0.09489	bias_p_value=2.04432e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=158.5	fisher_strand_p_value=9.38322e-10	frequency=3.333e-01	ks_quality_p_value=1	major_base=G	major_cov=38/26	major_frequency=6.667e-01	minor_base=T	minor_cov=0/32	new_cov=0/32	polymorphism_frequency=3.333e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=38/26	total_cov=40/58
RA	108	.	NC_000913	1657157	0	C	A	bias_e_value=7.61781e-06	bias_p_value=1.64118e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=260.3	fisher_strand_p_value=5.19553e-14	frequency=2.791e-01	ks_quality_p_value=1	major_base=C	major_cov=30/63	major_frequency=7.209e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=2.791e-01	polymorphism_score=11.5	prediction=polymorphism	ref_cov=30/63	total_cov=66/63
RA	109	.	NC_000913	1708718	0	G	A	bias_e_value=558637	bias_p_value=0.120353	consensus_reject=FREQUENCY_CUTOFF	consensus_score=119.4	fisher_strand_p_value=0.0258527	frequency=2.281e-01	ks_quality_p_value=1	major_base=G	major_cov=21/23	major_frequency=7.719e-01	minor_base=A	minor_cov=11/2	new_cov=11/2	polymorphism_frequency=2.281e-01	polymorphism_score=20.7	prediction=polymorphism	ref_cov=21/23	total_cov=32/25
RA	110	.	NC_000913	1812509	0	G	T	bias_e_value=0.00509287	bias_p_value=1.09721e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=236.3	fisher_strand_p_value=4.41657e-11	frequency=2.566e-01	ks_quality_p_value=1	major_base=G	major_cov=55/29	major_frequency=7.434e-01	minor_base=T	minor_cov=0/29	new_cov=0/29	polymorphism_frequency=2.566e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=55/29	total_cov=55/58
RA	111	.	NC_000913	1922815	0	C	A	bias_e_value=771.407	bias_p_value=0.000166192	consensus_reject=FREQUENCY_CUTOFF	consensus_score=171.7	fisher_strand_p_value=1.36177e-05	frequency=3.137e-01	ks_quality_p_value=1	major_base=C	major_cov=22/48	major_frequency=6.863e-01	minor_base=A	minor_cov=25/7	new_cov=25/7	polymorphism_frequency=3.137e-01	polymorphism_score=18.4	prediction=polymorphism	ref_cov=22/48	total_cov=47/55
RA	112	.	NC_000913	1951203	0	A	T	bias_e_value=4356980	bias_p_value=0.93867	consensus_reject=FREQUENCY_CUTOFF	consensus_score=300.3	fisher_strand_p_value=1	frequency=2.193e-01	ks_quality_p_value=0.670875	major_base=A	major_cov=38/51	major_frequency=7.807e-01	minor_base=T	minor_cov=10/15	new_cov=10/15	polymorphism_frequency=2.193e-01	polymorphism_score=97.3	prediction=polymorphism	ref_cov=38/51	total_cov=48/66
RA	113	.	NC_000913	1951320	0	G	A	bias_e_value=4583510	bias_p_value=0.987475	consensus_reject=FREQUENCY_CUTOFF	consensus_score=155.3	fisher_strand_p_value=0.845958	frequency=3.250e-01	ks_quality_p_value=1	major_base=G	major_cov=42/39	major_frequency=6.750e-01	minor_base=A	minor_cov=19/20	new_cov=19/20	polymorphism_frequency=3.250e-01	polymorphism_score=121.7	prediction=polymorphism	ref_cov=42/39	total_cov=61/59
RA	114	.	NC_000913	1951332	0	T	C	bias_e_value=3075520	bias_p_value=0.662592	consensus_reject=FREQUENCY_CUTOFF	consensus_score=160.0	fisher_strand_p_value=0.566926	frequency=3.280e-01	ks_quality_p_value=0.531224	major_base=T	major_cov=47/37	major_frequency=6.720e-01	minor_base=C	minor_cov=20/21	new_cov=20/21	polymorphism_frequency=3.280e-01	polymorphism_score=126.0	prediction=polymorphism	ref_cov=47/37	total_cov=67/58
RA	115	.	NC_000913	1951335	0	C	T	bias_e_value=4415200	bias_p_value=0.951213	consensus_reject=FREQUENCY_CUTOFF	consensus_score=146.5	fisher_strand_p_value=0.704356	frequency=3.387e-01	ks_quality_p_value=1	major_base=C	major_cov=45/37	major_frequency=6.613e-01	minor_base=T	minor_cov=21/21	new_cov=21/21	polymorphism_frequency=3.387e-01	polymorphism_score=128.7	prediction=polymorphism	ref_cov=45/37	total_cov=66/58
RA	116	.	NC_000913	1951338	0	C	T	bias_e_value=3234530	bias_p_value=0.696849	consensus_reject=FREQUENCY_CUTOFF	consensus_score=139.1	fisher_strand_p_value=0.443404	frequency=3.333e-01	ks_quality_p_value=0.746259	major_base=C	major_cov=47/35	major_frequency=6.667e-01	minor_base=T	minor_cov=20/21	new_cov=20/21	polymorphism_frequency=3.333e-01	polymorphism_score=132.5	prediction=polymorphism	ref_cov=47/35	total_cov=68/56
RA	117	.	NC_000913	1951386	0	C	T	bias_e_value=1824350	bias_p_value=0.39304	consensus_reject=FREQUENCY_CUTOFF	consensus_score=98.8	fisher_strand_p_value=0.227425	frequency=3.545e-01	ks_quality_p_value=0.566909	major_base=C	major_cov=44/27	major_frequency=6.455e-01	minor_base=T	minor_cov=19/20	new_cov=19/20	polymorphism_frequency=3.545e-01	polymorphism_score=123.4	prediction=polymorphism	ref_cov=44/27	total_cov=65/48
RA	118	.	NC_000913	1951387	0	A	C	bias_e_value=2657130	bias_p_value=0.572454	consensus_reject=FREQUENCY_CUTOFF	consensus_score=89.3	fisher_strand_p_value=0.233081	frequency=3.514e-01	ks_quality_p_value=0.999769	major_base=A	major_cov=44/28	major_frequency=6.486e-01	minor_base=C	minor_cov=19/20	new_cov=19/20	polymorphism_frequency=3.514e-01	polymorphism_score=117.5	prediction=polymorphism	ref_cov=44/28	total_cov=63/48
RA	119	.	NC_000913	1951412	0	A	G	bias_e_value=3717330	bias_p_value=0.800864	consensus_reject=FREQUENCY_CUTOFF	consensus_score=138.4	fisher_strand_p_value=0.560079	frequency=3.421e-01	ks_quality_p_value=0.784804	major_base=A	major_cov=41/34	major_frequency=6.579e-01	minor_base=G	minor_cov=19/20	new_cov=19/20	polymorphism_frequency=3.421e-01	polymorphism_score=114.3	prediction=polymorphism	ref_cov=41/34	total_cov=61/54
RA	120	.	NC_000913	1951448	0	G	T	bias_e_value=4639900	bias_p_value=0.999623	consensus_reject=FREQUENCY_CUTOFF	consensus_score=200.5	fisher_strand_p_value=1	frequency=2.667e-01	ks_quality_p_value=0.972675	major_base=G	major_cov=41/36	major_frequency=7.333e-01	minor_base=T	minor_cov=15/13	new_cov=15/13	polymorphism_frequency=2.667e-01	polymorphism_score=73.9	prediction=polymorphism	ref_cov=41/36	total_cov=56/49
RA	121	.	NC_000913	2067300	0	C	T	bias_e_value=4548010	bias_p_value=0.979825	consensus_reject=FREQUENCY_CUTOFF	consensus_score=255.4	fisher_strand_p_value=1	frequency=3.185e-01	ks_quality_p_value=0.805972	major_base=C	major_cov=52/40	major_frequency=6.815e-01	minor_base=T	minor_cov=24/19	new_cov=24/19	polymorphism_frequency=3.185e-01	polymorphism_score=131.9	prediction=polymorphism	ref_cov=52/40	total_cov=76/59
RA	122	.	NC_000913	2173363	0	C	.	consensus_score=364.1	frequency=1	major_base=.	major_cov=37/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=37/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=37/37
RA	123	.	NC_000913	2173364	0	C	.	consensus_score=364.1	frequency=1	major_base=.	major_cov=37/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=37/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=37/37
RA	124	.	NC_000913	2477265	0	A	C	bias_e_value=0.00179334	bias_p_value=3.86358e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=130.8	fisher_strand_p_value=1.49002e-11	frequency=3.125e-01	ks_quality_p_value=1	major_base=A	major_cov=13/42	major_frequency=6.875e-01	minor_base=C	minor_cov=25/0	new_cov=25/0	polymorphism_frequency=3.125e-01	polymorphism_score=25.5	prediction=polymorphism	ref_cov=13/42	total_cov=38/42
RA	125	.	NC_000913	2767445	0	C	A	bias_e_value=2.37469e-06	bias_p_value=5.11605e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=140.9	fisher_strand_p_value=1.56018e-14	frequency=3.134e-01	ks_quality_p_value=1	major_base=C	major_cov=3/43	major_frequency=6.866e-01	minor_base=A	minor_cov=21/0	new_cov=21/0	polymorphism_frequency=3.134e-01	polymorphism_score=16.1	prediction=polymorphism	ref_cov=3/43	total_cov=24/43
RA	126	.	NC_000913	3032307	0	C	T	bias_e_value=0.000582908	bias_p_value=1.25582e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=194.0	fisher_strand_p_value=4.63445e-12	frequency=2.323e-01	ks_quality_p_value=1	major_base=C	major_cov=17/59	major_frequency=7.677e-01	minor_base=T	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=2.323e-01	polymorphism_score=22.6	prediction=polymorphism	ref_cov=17/59	total_cov=41/59
RA	127	.	NC_000913	3054886	0	G	T	bias_e_value=12.7475	bias_p_value=2.74634e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=202.6	fisher_strand_p_value=1.65287e-07	frequency=2.062e-01	ks_quality_p_value=1	major_base=G	major_cov=29/48	major_frequency=7.938e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=2.062e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=29/48	total_cov=49/48
RA	128	.	NC_000913	3226224	0	G	T	bias_e_value=5.90164	bias_p_value=1.27145e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=148.2	fisher_strand_p_value=7.29305e-08	frequency=3.191e-01	ks_quality_p_value=1	major_base=G	major_cov=34/30	major_frequency=6.809e-01	minor_base=T	minor_cov=0/30	new_cov=0/30	polymorphism_frequency=3.191e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=34/30	total_cov=34/60
RA	129	.	NC_000913	3560455	1	.	G	consensus_score=328.4	frequency=1	major_base=G	major_cov=41/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/46
RA	130	.	NC_000913	3741871	0	G	T	bias_e_value=0.052816	bias_p_value=1.13787e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=120.1	fisher_strand_p_value=5.07964e-10	frequency=3.553e-01	ks_quality_p_value=1	major_base=G	major_cov=34/15	major_frequency=6.447e-01	minor_base=T	minor_cov=0/27	new_cov=0/27	polymorphism_frequency=3.553e-01	polymorphism_score=22.9	prediction=polymorphism	ref_cov=34/15	total_cov=34/42
RA	131	.	NC_000913	3768435	0	C	A	bias_e_value=1.34481e-06	bias_p_value=2.89727e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=330.0	fisher_strand_p_value=8.68026e-15	frequency=2.532e-01	ks_quality_p_value=1	major_base=C	major_cov=42/76	major_frequency=7.468e-01	minor_base=A	minor_cov=40/0	new_cov=40/0	polymorphism_frequency=2.532e-01	polymorphism_score=13.6	prediction=polymorphism	ref_cov=42/76	total_cov=82/76
RA	132	.	NC_000913	3911533	0	C	A	bias_e_value=0.000395012	bias_p_value=8.51016e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=163.7	fisher_strand_p_value=3.09444e-12	frequency=3.670e-01	ks_quality_p_value=1	major_base=C	major_cov=26/43	major_frequency=6.330e-01	minor_base=A	minor_cov=40/0	new_cov=40/0	polymorphism_frequency=3.670e-01	polymorphism_score=19.9	prediction=polymorphism	ref_cov=26/43	total_cov=66/43
RA	133	.	NC_000913	4296268	0	T	C	bias_e_value=1558290	bias_p_value=0.335718	consensus_reject=FREQUENCY_CUTOFF	consensus_score=34.4	fisher_strand_p_value=0.124061	frequency=3.125e-01	ks_quality_p_value=0.825269	major_base=T	major_cov=10/12	major_frequency=6.875e-01	minor_base=C	minor_cov=8/2	new_cov=8/2	polymorphism_frequency=3.125e-01	polymorphism_score=21.9	prediction=polymorphism	ref_cov=10/12	total_cov=18/14
RA	134	.	NC_000913	4296380	1	.	C	consensus_score=215.8	frequency=1	major_base=C	major_cov=36/26	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=36/26	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=36/26
RA	135	.	NC_000913	4296380	2	.	G	consensus_score=215.8	frequency=1	major_base=G	major_cov=36/26	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=36/26	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=36/26
RA	136	.	NC_000913	4360965	0	C	A	bias_e_value=3.59357e-10	bias_p_value=7.74201e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=340.5	fisher_strand_p_value=1.85079e-18	frequency=2.692e-01	ks_quality_p_value=1	major_base=C	major_cov=31/83	major_frequency=7.308e-01	minor_base=A	minor_cov=42/0	new_cov=42/0	polymorphism_frequency=2.692e-01	polymorphism_score=20.4	prediction=polymorphism	ref_cov=31/83	total_cov=73/83
MC	137	.	NC_000913	257908	258683	768	0	left_inside_cov=2	left_outside_cov=103	right_inside_cov=0	right_outside_cov=101
MC	138	.	NC_000913	354596	354659	0	0	left_inside_cov=0	left_outside_cov=117	right_inside_cov=31	right_outside_cov=32
MC	139	.	NC_000913	361657	362203	0	0	left_inside_cov=0	left_outside_cov=100	right_inside_cov=0	right_outside_cov=94
MC	140	.	NC_000913	1978503	1979278	761	0	left_inside_cov=0	left_outside_cov=101	right_inside_cov=5	right_outside_cov=104
MC	141	.	NC_000913	3423891	3424452	341	214	left_inside_cov=31	left_outside_cov=32	right_inside_cov=31	right_outside_cov=32
MC	142	.	NC_000913	3883253	3883537	0	0	left_inside_cov=31	left_outside_cov=32	right_inside_cov=31	right_outside_cov=33
JC	143	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=85	coverage_plus=64	flanking_left=300	flanking_right=300	frequency=1	ignore=CIRCULAR_CHROMOSOME	junction_possible_overlap_registers=292	key=NC_000913__1__1__NC_000913__4641652__-1__0____300__300__0__0	max_left=292	max_left_minus=292	max_left_plus=275	max_min_left=149	max_min_left_minus=149	max_min_left_plus=140	max_min_right=148	max_min_right_minus=148	max_min_right_plus=144	max_pos_hash_score=586	max_right=295	max_right_minus=278	max_right_plus=295	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.66	new_junction_read_count=154	polymorphism_frequency=1.000e+00	pos_hash_score=78	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=292	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=292	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=149
JC	144	.	NC_000913	19796	1	NC_000913	361656	-1	0	alignment_overlap=1	coverage_minus=55	coverage_plus=44	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=291	key=NC_000913__19796__1__NC_000913__361657__-1__1____300__300__1__0	max_left=283	max_left_minus=283	max_left_plus=276	max_min_left=148	max_min_left_minus=139	max_min_left_plus=148	max_min_right=148	max_min_right_minus=140	max_min_right_plus=148	max_pos_hash_score=584	max_right=297	max_right_minus=297	max_right_plus=295	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.08	new_junction_read_count=100	polymorphism_frequency=1.000e+00	pos_hash_score=61	prediction=consensus	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	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=291	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=99
JC	145	.	NC_000913	70062	1	NC_000913	367520	-1	-22	alignment_overlap=-22	coverage_minus=30	coverage_plus=61	flanking_left=300	flanking_right=300	frequency=5.235e-01	junction_possible_overlap_registers=270	key=NC_000913__70062__1__NC_000913__367520__-1__-22__GCTAGCAGGAGGAATTCACCAT__300__300__0__0	max_left=275	max_left_minus=268	max_left_plus=275	max_min_left=135	max_min_left_minus=107	max_min_left_plus=135	max_min_right=138	max_min_right_minus=138	max_min_right_plus=123	max_pos_hash_score=542	max_right=270	max_right_minus=249	max_right_plus=270	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.11	new_junction_read_count=95	polymorphism_frequency=5.235e-01	pos_hash_score=57	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.17	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=108	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.85	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=79	side_2_redundant=0	total_non_overlap_reads=91	unique_read_sequence=GCTAGCAGGAGGAATTCACCAT
JC	146	.	NC_000913	71265	-1	NC_000913	354595	-1	0	alignment_overlap=0	coverage_minus=49	coverage_plus=58	flanking_left=300	flanking_right=300	frequency=7.290e-01	junction_possible_overlap_registers=292	key=NC_000913__71265__-1__NC_000913__354595__-1__0____300__300__0__0	max_left=296	max_left_minus=289	max_left_plus=296	max_min_left=147	max_min_left_minus=147	max_min_left_plus=143	max_min_right=144	max_min_right_minus=144	max_min_right_plus=135	max_pos_hash_score=586	max_right=293	max_right_minus=293	max_right_plus=286	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.26	new_junction_read_count=117	polymorphism_frequency=7.290e-01	pos_hash_score=60	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.94	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=87	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=292	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=107
JC	147	.	NC_000913	257907	-1	NC_000913	258684	1	0	alignment_overlap=8	coverage_minus=40	coverage_plus=58	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=284	key=NC_000913__257907__-1__NC_000913__258676__1__8____300__300__0__0	max_left=290	max_left_minus=289	max_left_plus=290	max_min_left=137	max_min_left_minus=86	max_min_left_plus=137	max_min_right=145	max_min_right_minus=133	max_min_right_plus=145	max_pos_hash_score=570	max_right=283	max_right_minus=279	max_right_plus=283	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.12	new_junction_read_count=101	polymorphism_frequency=9.905e-01	pos_hash_score=66	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.02	side_1_overlap=8	side_1_possible_overlap_registers=292	side_1_read_count=2	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=284	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=98
JC	148	.	NC_000913	258675	-1	NC_000913	362204	1	0	alignment_overlap=0	coverage_minus=45	coverage_plus=47	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=292	key=NC_000913__258675__-1__NC_000913__362204__1__0____300__300__1__0	max_left=291	max_left_minus=278	max_left_plus=291	max_min_left=147	max_min_left_minus=147	max_min_left_plus=146	max_min_right=150	max_min_right_minus=150	max_min_right_plus=144	max_pos_hash_score=586	max_right=297	max_right_minus=297	max_right_plus=296	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.00	new_junction_read_count=93	polymorphism_frequency=1.000e+00	pos_hash_score=59	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=292	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=92
JC	149	.	NC_000913	286840	-1	NC_000913	287180	1	0	alignment_overlap=13	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.754e-02	junction_possible_overlap_registers=279	key=NC_000913__286840__-1__NC_000913__287167__1__13____300__300__0__0	max_left=207	max_left_minus=161	max_left_plus=207	max_min_left=139	max_min_left_minus=0	max_min_left_plus=139	max_min_right=126	max_min_right_minus=126	max_min_right_plus=76	max_pos_hash_score=560	max_right=145	max_right_minus=126	max_right_plus=145	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=5.754e-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=0.66	side_1_overlap=13	side_1_possible_overlap_registers=292	side_1_read_count=61	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.45	side_2_overlap=0	side_2_possible_overlap_registers=279	side_2_read_count=40	side_2_redundant=0	total_non_overlap_reads=3
JC	150	.	NC_000913	696567	-1	NC_000913	696690	1	0	alignment_overlap=12	coverage_minus=3	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=7.176e-02	junction_possible_overlap_registers=280	key=NC_000913__696567__-1__NC_000913__696678__1__12____300__300__0__0	max_left=257	max_left_minus=257	max_left_plus=161	max_min_left=132	max_min_left_minus=62	max_min_left_plus=132	max_min_right=127	max_min_right_minus=33	max_min_right_plus=127	max_pos_hash_score=562	max_right=281	max_right_minus=226	max_right_plus=281	neg_log10_pos_hash_p_value=6.7	new_junction_coverage=0.08	new_junction_read_count=7	polymorphism_frequency=7.176e-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=12	side_1_possible_overlap_registers=292	side_1_read_count=95	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.01	side_2_overlap=0	side_2_possible_overlap_registers=280	side_2_read_count=90	side_2_redundant=0	total_non_overlap_reads=7
JC	151	.	NC_000913	696567	-1	NC_000913	697083	1	0	alignment_overlap=12	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.314e-02	junction_possible_overlap_registers=280	key=NC_000913__696567__-1__NC_000913__697071__1__12____300__300__0__0	max_left=257	max_left_minus=257	max_left_plus=35	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=33	max_min_right_minus=33	max_min_right_plus=33	max_pos_hash_score=562	max_right=33	max_right_minus=33	max_right_plus=33	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.314e-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=1.04	side_1_overlap=12	side_1_possible_overlap_registers=292	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=280	side_2_read_count=83	side_2_redundant=0	total_non_overlap_reads=3
JC	152	.	NC_000913	732239	-1	NC_000913	732420	1	0	alignment_overlap=12	coverage_minus=5	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=1.254e-01	junction_possible_overlap_registers=280	key=NC_000913__732239__-1__NC_000913__732408__1__12____300__300__0__0	max_left=260	max_left_minus=260	max_left_plus=130	max_min_left=139	max_min_left_minus=139	max_min_left_plus=18	max_min_right=58	max_min_right_minus=58	max_min_right_plus=58	max_pos_hash_score=562	max_right=270	max_right_minus=149	max_right_plus=270	neg_log10_pos_hash_p_value=7.2	new_junction_coverage=0.08	new_junction_read_count=7	polymorphism_frequency=1.254e-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=0.62	side_1_overlap=12	side_1_possible_overlap_registers=292	side_1_read_count=57	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.48	side_2_overlap=0	side_2_possible_overlap_registers=280	side_2_read_count=43	side_2_redundant=0	total_non_overlap_reads=7
JC	153	.	NC_000913	732408	1	NC_000913	3621836	-1	0	alignment_overlap=12	coverage_minus=3	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=1.396e-01	junction_possible_overlap_registers=280	key=NC_000913__732408__1__NC_000913__3621848__-1__12____300__300__0__1	max_left=270	max_left_minus=270	max_left_plus=149	max_min_left=58	max_min_left_minus=58	max_min_left_plus=58	max_min_right=139	max_min_right_minus=18	max_min_right_plus=139	max_pos_hash_score=562	max_right=272	max_right_minus=272	max_right_plus=139	neg_log10_pos_hash_p_value=7.2	new_junction_coverage=0.08	new_junction_read_count=7	polymorphism_frequency=1.396e-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=0.49	side_1_overlap=12	side_1_possible_overlap_registers=292	side_1_read_count=45	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=7
JC	154	.	NC_000913	781222	-1	NC_000913	781809	1	0	alignment_overlap=18	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.998e-02	junction_possible_overlap_registers=274	key=NC_000913__781222__-1__NC_000913__781791__1__18____300__300__0__0	max_left=268	max_left_minus=268	max_left_plus=108	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=43	max_min_right_minus=43	max_min_right_plus=43	max_pos_hash_score=550	max_right=43	max_right_minus=43	max_right_plus=43	neg_log10_pos_hash_p_value=8.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.998e-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=0.86	side_1_overlap=18	side_1_possible_overlap_registers=292	side_1_read_count=80	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=274	side_2_read_count=69	side_2_redundant=0	total_non_overlap_reads=3
JC	155	.	NC_000913	781369	1	NC_000913	2521006	-1	-3	alignment_overlap=-3	coverage_minus=3	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=4.539e-02	junction_possible_overlap_registers=289	key=NC_000913__781369__1__NC_000913__2521006__-1__-3__GAG__300__300__0__0	max_left=221	max_left_minus=221	max_left_plus=85	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=76	max_min_right_minus=76	max_min_right_plus=47	max_pos_hash_score=580	max_right=76	max_right_minus=76	max_right_plus=47	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=4.539e-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=0.86	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=80	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.97	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=90	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=GAG
JC	156	.	NC_000913	781369	1	NC_000913	2521128	-1	-1	alignment_overlap=-1	coverage_minus=3	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=5.145e-02	junction_possible_overlap_registers=291	key=NC_000913__781369__1__NC_000913__2521128__-1__-1__G__300__300__0__0	max_left=221	max_left_minus=221	max_left_plus=85	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=78	max_min_right_minus=78	max_min_right_plus=49	max_pos_hash_score=584	max_right=78	max_right_minus=78	max_right_plus=49	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=5.145e-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=0.86	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=80	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.73	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=68	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=G
JC	157	.	NC_000913	781577	1	NC_000913	2521006	-1	-4	alignment_overlap=-4	coverage_minus=6	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=1.357e-01	junction_possible_overlap_registers=288	key=NC_000913__781577__1__NC_000913__2521006__-1__-4__GAAG__300__300__0__0	max_left=175	max_left_minus=175	max_left_plus=147	max_min_left=98	max_min_left_minus=98	max_min_left_plus=28	max_min_right=121	max_min_right_minus=121	max_min_right_plus=62	max_pos_hash_score=578	max_right=271	max_right_minus=193	max_right_plus=271	neg_log10_pos_hash_p_value=6.1	new_junction_coverage=0.13	new_junction_read_count=12	polymorphism_frequency=1.357e-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=0.70	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=65	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.97	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=90	side_2_redundant=0	total_non_overlap_reads=12	unique_read_sequence=GAAG
JC	158	.	NC_000913	933617	-1	NC_000913	934007	1	0	alignment_overlap=8	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.947e-02	junction_possible_overlap_registers=284	key=NC_000913__933617__-1__NC_000913__933999__1__8____300__300__0__0	max_left=141	max_left_minus=141	max_left_plus=141	max_min_left=1	max_min_left_minus=0	max_min_left_plus=1	max_min_right=59	max_min_right_minus=59	max_min_right_plus=59	max_pos_hash_score=570	max_right=290	max_right_minus=59	max_right_plus=290	neg_log10_pos_hash_p_value=8.9	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.947e-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=0.79	side_1_overlap=8	side_1_possible_overlap_registers=292	side_1_read_count=73	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=284	side_2_read_count=75	side_2_redundant=0	total_non_overlap_reads=3
JC	159	.	NC_000913	1207790	1	NC_000913	1209619	1	0	alignment_overlap=16	coverage_minus=39	coverage_plus=34	flanking_left=300	flanking_right=300	frequency=7.247e-01	junction_possible_overlap_registers=276	key=NC_000913__1207790__1__NC_000913__1209603__1__16____300__300__0__0	max_left=274	max_left_minus=271	max_left_plus=274	max_min_left=139	max_min_left_minus=109	max_min_left_plus=139	max_min_right=142	max_min_right_minus=135	max_min_right_plus=142	max_pos_hash_score=554	max_right=274	max_right_minus=268	max_right_plus=274	neg_log10_pos_hash_p_value=0.8	new_junction_coverage=0.83	new_junction_read_count=73	polymorphism_frequency=7.247e-01	pos_hash_score=42	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.30	side_1_overlap=16	side_1_possible_overlap_registers=292	side_1_read_count=28	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.33	side_2_overlap=0	side_2_possible_overlap_registers=276	side_2_read_count=29	side_2_redundant=0	total_non_overlap_reads=73
JC	160	.	NC_000913	1207800	1	NC_000913	1209610	1	-1	alignment_overlap=-1	coverage_minus=4	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=1.274e-01	junction_possible_overlap_registers=291	key=NC_000913__1207800__1__NC_000913__1209610__1__-1__A__300__300__0__0	max_left=232	max_left_minus=232	max_left_plus=0	max_min_left=114	max_min_left_minus=114	max_min_left_plus=0	max_min_right=77	max_min_right_minus=77	max_min_right_plus=0	max_pos_hash_score=584	max_right=220	max_right_minus=220	max_right_plus=0	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=1.274e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.25	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=23	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.35	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=32	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=A
JC	161	.	NC_000913	1207805	-1	NC_000913	1209602	-1	0	alignment_overlap=16	coverage_minus=22	coverage_plus=22	flanking_left=300	flanking_right=300	frequency=6.258e-01	junction_possible_overlap_registers=276	key=NC_000913__1207805__-1__NC_000913__1209618__-1__16____300__300__0__0	max_left=271	max_left_minus=231	max_left_plus=271	max_min_left=136	max_min_left_minus=120	max_min_left_plus=136	max_min_right=142	max_min_right_minus=142	max_min_right_plus=107	max_pos_hash_score=554	max_right=265	max_right_minus=262	max_right_plus=265	neg_log10_pos_hash_p_value=1.4	new_junction_coverage=0.50	new_junction_read_count=44	polymorphism_frequency=6.258e-01	pos_hash_score=33	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.27	side_1_overlap=16	side_1_possible_overlap_registers=292	side_1_read_count=25	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.33	side_2_overlap=0	side_2_possible_overlap_registers=276	side_2_read_count=29	side_2_redundant=0	total_non_overlap_reads=44
JC	162	.	NC_000913	1286964	-1	NC_000913	1287449	1	-9	alignment_overlap=-9	coverage_minus=3	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=6.194e-02	junction_possible_overlap_registers=283	key=NC_000913__1286964__-1__NC_000913__1287449__1__-9__GCGCTCGAG__300__300__0__0	max_left=160	max_left_minus=160	max_left_plus=160	max_min_left=53	max_min_left_minus=53	max_min_left_plus=0	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=568	max_right=158	max_right_minus=158	max_right_plus=47	neg_log10_pos_hash_p_value=8.3	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=6.194e-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=0.50	side_1_overlap=0	side_1_possible_overlap_registers=292	side_1_read_count=46	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.85	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=79	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=GCGCTCGAG
JC	163	.	NC_000913	1287084	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=6.023e-02	junction_possible_overlap_registers=272	key=NC_000913__1287084__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=246	max_left_minus=73	max_left_plus=246	max_min_left=73	max_min_left_minus=73	max_min_left_plus=40	max_min_right=34	max_min_right_minus=0	max_min_right_plus=34	max_pos_hash_score=546	max_right=239	max_right_minus=207	max_right_plus=239	neg_log10_pos_hash_p_value=8.7	new_junction_coverage=0.05	new_junction_read_count=4	polymorphism_frequency=6.023e-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=0.66	side_1_overlap=20	side_1_possible_overlap_registers=292	side_1_read_count=61	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=272	side_2_read_count=68	side_2_redundant=0	total_non_overlap_reads=3
JC	164	.	NC_000913	1287160	-1	NC_000913	1287458	1	0	alignment_overlap=9	coverage_minus=7	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=1.323e-01	junction_possible_overlap_registers=283	key=NC_000913__1287160__-1__NC_000913__1287449__1__9____300__300__0__0	max_left=192	max_left_minus=192	max_left_plus=179	max_min_left=62	max_min_left_minus=62	max_min_left_plus=0	max_min_right=135	max_min_right_minus=99	max_min_right_plus=135	max_pos_hash_score=568	max_right=210	max_right_minus=210	max_right_plus=135	neg_log10_pos_hash_p_value=6.0	new_junction_coverage=0.11	new_junction_read_count=10	polymorphism_frequency=1.323e-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=0.64	side_1_overlap=9	side_1_possible_overlap_registers=292	side_1_read_count=59	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=283	side_2_read_count=74	side_2_redundant=0	total_non_overlap_reads=10
JC	165	.	NC_000913	1299498	-1	NC_000913	1300698	1	0	alignment_overlap=4	coverage_minus=80	coverage_plus=65	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=288	key=NC_000913__1299498__-1__NC_000913__1300694__1__4____300__300__0__0	max_left=292	max_left_minus=292	max_left_plus=286	max_min_left=146	max_min_left_minus=139	max_min_left_plus=146	max_min_right=142	max_min_right_minus=127	max_min_right_plus=142	max_pos_hash_score=578	max_right=295	max_right_minus=292	max_right_plus=295	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.63	new_junction_read_count=149	polymorphism_frequency=1.000e+00	pos_hash_score=89	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=292	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=288	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=145
JC	166	.	NC_000913	1397238	-1	NC_000913	1995623	-1	0	alignment_overlap=0	coverage_minus=65	coverage_plus=57	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=292	key=NC_000913__1397238__-1__NC_000913__1995623__-1__0____300__300__1__0	max_left=294	max_left_minus=273	max_left_plus=294	max_min_left=138	max_min_left_minus=138	max_min_left_plus=120	max_min_right=138	max_min_right_minus=137	max_min_right_plus=138	max_pos_hash_score=586	max_right=298	max_right_minus=298	max_right_plus=289	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.36	new_junction_read_count=126	polymorphism_frequency=1.000e+00	pos_hash_score=78	prediction=consensus	read_count_offset=4	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=288	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=122
JC	167	.	NC_000913	1514390	-1	NC_000913	1514811	1	0	alignment_overlap=8	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.009e-02	junction_possible_overlap_registers=284	key=NC_000913__1514390__-1__NC_000913__1514803__1__8____300__300__0__0	max_left=135	max_left_minus=135	max_left_plus=77	max_min_left=77	max_min_left_minus=77	max_min_left_plus=77	max_min_right=28	max_min_right_minus=28	max_min_right_plus=0	max_pos_hash_score=570	max_right=111	max_right_minus=111	max_right_plus=111	neg_log10_pos_hash_p_value=8.9	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.009e-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=1.03	side_1_overlap=8	side_1_possible_overlap_registers=292	side_1_read_count=95	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.12	side_2_overlap=0	side_2_possible_overlap_registers=284	side_2_read_count=101	side_2_redundant=0	total_non_overlap_reads=3
JC	168	.	NC_000913	1978502	-1	NC_000913	1979279	1	0	alignment_overlap=8	coverage_minus=56	coverage_plus=41	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=284	key=NC_000913__1978502__-1__NC_000913__1979271__1__8____300__300__0__0	max_left=290	max_left_minus=290	max_left_plus=286	max_min_left=144	max_min_left_minus=132	max_min_left_plus=144	max_min_right=146	max_min_right_minus=146	max_min_right_plus=117	max_pos_hash_score=570	max_right=291	max_right_minus=291	max_right_plus=283	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.10	new_junction_read_count=99	polymorphism_frequency=1.000e+00	pos_hash_score=61	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=292	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=284	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=97
JC	169	.	NC_000913	1995620	1	NC_000913	2290113	-1	0	alignment_overlap=0	coverage_minus=40	coverage_plus=75	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=292	key=NC_000913__1995620__1__NC_000913__2290113__-1__0____300__300__0__1	max_left=296	max_left_minus=286	max_left_plus=296	max_min_left=149	max_min_left_minus=145	max_min_left_plus=149	max_min_right=146	max_min_right_minus=144	max_min_right_plus=146	max_pos_hash_score=586	max_right=290	max_right_minus=290	max_right_plus=287	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.25	new_junction_read_count=116	polymorphism_frequency=1.000e+00	pos_hash_score=67	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=288	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=115
JC	170	.	NC_000913	2653393	-1	NC_000913	2653720	1	0	alignment_overlap=3	coverage_minus=5	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=1.018e-01	junction_possible_overlap_registers=289	key=NC_000913__2653393__-1__NC_000913__2653717__1__3____300__300__0__0	max_left=249	max_left_minus=249	max_left_plus=249	max_min_left=131	max_min_left_minus=131	max_min_left_plus=131	max_min_right=59	max_min_right_minus=59	max_min_right_plus=59	max_pos_hash_score=580	max_right=259	max_right_minus=197	max_right_plus=259	neg_log10_pos_hash_p_value=5.8	new_junction_coverage=0.12	new_junction_read_count=11	polymorphism_frequency=1.018e-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=0.85	side_1_overlap=3	side_1_possible_overlap_registers=292	side_1_read_count=79	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.26	side_2_overlap=0	side_2_possible_overlap_registers=289	side_2_read_count=116	side_2_redundant=0	total_non_overlap_reads=11
JC	171	.	NC_000913	2877791	-1	NC_000913	2878097	1	0	alignment_overlap=18	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=6.214e-02	junction_possible_overlap_registers=274	key=NC_000913__2877791__-1__NC_000913__2878079__1__18____300__300__0__0	max_left=277	max_left_minus=277	max_left_plus=196	max_min_left=108	max_min_left_minus=108	max_min_left_plus=92	max_min_right=86	max_min_right_minus=5	max_min_right_plus=86	max_pos_hash_score=550	max_right=190	max_right_minus=173	max_right_plus=190	neg_log10_pos_hash_p_value=8.1	new_junction_coverage=0.05	new_junction_read_count=4	polymorphism_frequency=6.214e-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=0.74	side_1_overlap=18	side_1_possible_overlap_registers=292	side_1_read_count=69	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=274	side_2_read_count=56	side_2_redundant=0	total_non_overlap_reads=4
JC	172	.	NC_000913	3469004	-1	NC_000913	3469308	1	0	alignment_overlap=6	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.104e-02	junction_possible_overlap_registers=286	key=NC_000913__3469004__-1__NC_000913__3469302__1__6____300__300__0__0	max_left=127	max_left_minus=127	max_left_plus=127	max_min_left=127	max_min_left_minus=127	max_min_left_plus=127	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=574	max_right=150	max_right_minus=150	max_right_plus=150	neg_log10_pos_hash_p_value=8.3	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=4.104e-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=1.08	side_1_overlap=6	side_1_possible_overlap_registers=292	side_1_read_count=100	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.98	side_2_overlap=0	side_2_possible_overlap_registers=286	side_2_read_count=89	side_2_redundant=0	total_non_overlap_reads=4
JC	173	.	NC_000913	3470196	-1	NC_000913	3470386	1	0	alignment_overlap=13	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.266e-02	junction_possible_overlap_registers=279	key=NC_000913__3470196__-1__NC_000913__3470373__1__13____300__300__0__1	max_left=244	max_left_minus=244	max_left_plus=213	max_min_left=141	max_min_left_minus=0	max_min_left_plus=141	max_min_right=71	max_min_right_minus=23	max_min_right_plus=71	max_pos_hash_score=560	max_right=146	max_right_minus=23	max_right_plus=146	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.266e-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=1.00	side_1_overlap=13	side_1_possible_overlap_registers=292	side_1_read_count=93	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=3
JC	174	.	NC_000913	4293700	-1	NC_000913	4293914	1	0	alignment_overlap=11	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.200e-02	junction_possible_overlap_registers=281	key=NC_000913__4293700__-1__NC_000913__4293903__1__11____300__300__0__0	max_left=216	max_left_minus=216	max_left_plus=144	max_min_left=144	max_min_left_minus=0	max_min_left_plus=144	max_min_right=72	max_min_right_minus=72	max_min_right_plus=0	max_pos_hash_score=564	max_right=176	max_right_minus=72	max_right_plus=176	neg_log10_pos_hash_p_value=8.9	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.200e-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=1.00	side_1_overlap=11	side_1_possible_overlap_registers=292	side_1_read_count=93	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=281	side_2_read_count=92	side_2_redundant=0	total_non_overlap_reads=3
JC	175	.	NC_000913	4542682	1	NC_000913	4542996	1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=5.344e-02	junction_possible_overlap_registers=283	key=NC_000913__4542682__1__NC_000913__4542987__1__9____300__300__0__0	max_left=235	max_left_minus=210	max_left_plus=235	max_min_left=136	max_min_left_minus=136	max_min_left_plus=67	max_min_right=133	max_min_right_minus=73	max_min_right_plus=133	max_pos_hash_score=568	max_right=276	max_right_minus=149	max_right_plus=276	neg_log10_pos_hash_p_value=6.8	new_junction_coverage=0.08	new_junction_read_count=7	polymorphism_frequency=5.344e-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=1.41	side_1_overlap=9	side_1_possible_overlap_registers=292	side_1_read_count=131	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.35	side_2_overlap=0	side_2_possible_overlap_registers=283	side_2_read_count=121	side_2_redundant=0	total_non_overlap_reads=7
JC	176	.	NC_000913	4542690	-1	NC_000913	4542986	-1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.011e-02	junction_possible_overlap_registers=283	key=NC_000913__4542690__-1__NC_000913__4542995__-1__9____300__300__0__0	max_left=272	max_left_minus=226	max_left_plus=272	max_min_left=141	max_min_left_minus=141	max_min_left_plus=0	max_min_right=126	max_min_right_minus=65	max_min_right_plus=126	max_pos_hash_score=568	max_right=150	max_right_minus=150	max_right_plus=126	neg_log10_pos_hash_p_value=8.3	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.011e-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=1.52	side_1_overlap=9	side_1_possible_overlap_registers=292	side_1_read_count=141	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.35	side_2_overlap=0	side_2_possible_overlap_registers=283	side_2_read_count=121	side_2_redundant=0	total_non_overlap_reads=4
JC	177	.	NC_000913	4606238	-1	NC_000913	4606354	1	0	alignment_overlap=41	coverage_minus=3	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=5.378e-02	junction_possible_overlap_registers=251	key=NC_000913__4606238__-1__NC_000913__4606313__1__41____300__300__0__0	max_left=97	max_left_minus=97	max_left_plus=0	max_min_left=78	max_min_left_minus=78	max_min_left_plus=0	max_min_right=19	max_min_right_minus=19	max_min_right_plus=0	max_pos_hash_score=504	max_right=187	max_right_minus=187	max_right_plus=0	neg_log10_pos_hash_p_value=8.2	new_junction_coverage=0.04	new_junction_read_count=3	polymorphism_frequency=5.378e-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=0.65	side_1_overlap=41	side_1_possible_overlap_registers=292	side_1_read_count=60	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=251	side_2_read_count=54	side_2_redundant=0	total_non_overlap_reads=3
UN	178	.	NC_000913	15648	15648
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UN	267	.	NC_000913	3186359	3187160
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UN	320	.	NC_000913	4039670	4039670
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UN	323	.	NC_000913	4166551	4166551
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UN	325	.	NC_000913	4166560	4166576
UN	326	.	NC_000913	4166579	4166583
UN	327	.	NC_000913	4166585	4166600
UN	328	.	NC_000913	4166604	4166606
UN	329	.	NC_000913	4166608	4166608
UN	330	.	NC_000913	4166912	4167941
UN	331	.	NC_000913	4167943	4167943
UN	332	.	NC_000913	4168806	4171378
UN	333	.	NC_000913	4176829	4176833
UN	334	.	NC_000913	4208382	4208382
UN	335	.	NC_000913	4208384	4209475
UN	336	.	NC_000913	4210287	4212840
UN	337	.	NC_000913	4498476	4499241
UN	338	.	NC_000913	4499243	4499245
UN	339	.	NC_000913	4507747	4508408
UN	340	.	NC_000913	4508422	4508422