#=GENOME_DIFF	1.0
#=CREATED	04:34:11 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/ME9894_S47_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/ME9894_S47_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/ME9894_S47_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/ME9894_S47_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/ME9894_S47_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=CONVERTED-BASES	499296726
#=CONVERTED-READS	1704546
#=INPUT-BASES	499401880
#=INPUT-READS	1704906
#=MAPPED-BASES	483322120
#=MAPPED-READS	1651176
DEL	1	56,63	NC_000913	257908	776
DEL	2	57,80	NC_000913	1299499	1199
MOB	3	82,86	NC_000913	1995620	IS5	-1	4
DEL	4	28,29	NC_000913	2173363	2
INS	5	42	NC_000913	3560455	G
INS	6	52,53	NC_000913	4296381	GC
SUB	7	60,113	NC_000913	4583270	3543	TGTAGGCTGGAGCTGCTTCGAAGTTCCTATACTTTCTAGAGAATAGGAACTTCGAACTGCAGGTCGACGGATCCCCGGAAT
RA	8	.	NC_000913	12152	0	G	T	bias_e_value=0.00287142	bias_p_value=6.1862e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=259.7	fisher_strand_p_value=2.4317e-11	frequency=2.815e-01	ks_quality_p_value=1	major_base=G	major_cov=55/42	major_frequency=7.185e-01	minor_base=T	minor_cov=0/38	new_cov=0/38	polymorphism_frequency=2.815e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=55/42	total_cov=55/80
RA	9	.	NC_000913	58065	0	C	A	bias_e_value=0.00109798	bias_p_value=2.36548e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=173.7	fisher_strand_p_value=8.9467e-12	frequency=3.426e-01	ks_quality_p_value=1	major_base=C	major_cov=27/44	major_frequency=6.574e-01	minor_base=A	minor_cov=37/0	new_cov=37/0	polymorphism_frequency=3.426e-01	polymorphism_score=18.5	prediction=polymorphism	ref_cov=27/44	total_cov=64/44
RA	10	.	NC_000913	85651	0	G	T	bias_e_value=706.451	bias_p_value=0.000152198	consensus_reject=FREQUENCY_CUTOFF	consensus_score=209.5	fisher_strand_p_value=1.23739e-05	frequency=2.377e-01	ks_quality_p_value=1	major_base=G	major_cov=35/58	major_frequency=7.623e-01	minor_base=T	minor_cov=0/29	new_cov=0/29	polymorphism_frequency=2.377e-01	polymorphism_score=10.9	prediction=polymorphism	ref_cov=35/58	total_cov=35/87
RA	11	.	NC_000913	141849	0	C	A	bias_e_value=0.216567	bias_p_value=4.66574e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=227.2	fisher_strand_p_value=2.23015e-09	frequency=2.389e-01	ks_quality_p_value=1	major_base=C	major_cov=34/52	major_frequency=7.611e-01	minor_base=A	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=2.389e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=34/52	total_cov=61/53
RA	12	.	NC_000913	458024	0	G	T	bias_e_value=6.58086e-05	bias_p_value=1.41778e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=204.7	fisher_strand_p_value=4.82914e-13	frequency=2.952e-01	ks_quality_p_value=1	major_base=G	major_cov=53/21	major_frequency=7.048e-01	minor_base=T	minor_cov=0/31	new_cov=0/31	polymorphism_frequency=2.952e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=53/21	total_cov=53/52
RA	13	.	NC_000913	571586	0	G	T	bias_e_value=4.04347e-05	bias_p_value=8.71126e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=374.0	fisher_strand_p_value=2.91707e-13	frequency=2.249e-01	ks_quality_p_value=1	major_base=G	major_cov=80/51	major_frequency=7.751e-01	minor_base=T	minor_cov=0/38	new_cov=0/38	polymorphism_frequency=2.249e-01	polymorphism_score=15.5	prediction=polymorphism	ref_cov=80/51	total_cov=80/89
RA	14	.	NC_000913	847955	0	G	A	bias_e_value=1.21401e-06	bias_p_value=2.61547e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=212.8	fisher_strand_p_value=7.81128e-15	frequency=2.766e-01	ks_quality_p_value=1	major_base=G	major_cov=68/34	major_frequency=7.234e-01	minor_base=A	minor_cov=0/39	new_cov=0/39	polymorphism_frequency=2.766e-01	polymorphism_score=53.8	prediction=polymorphism	ref_cov=68/34	total_cov=68/76
RA	15	.	NC_000913	878375	0	G	T	bias_e_value=316.603	bias_p_value=6.82092e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=212.3	fisher_strand_p_value=5.17876e-06	frequency=2.381e-01	ks_quality_p_value=1	major_base=G	major_cov=38/58	major_frequency=7.619e-01	minor_base=T	minor_cov=0/30	new_cov=0/30	polymorphism_frequency=2.381e-01	polymorphism_score=13.2	prediction=polymorphism	ref_cov=38/58	total_cov=38/88
RA	16	.	NC_000913	952453	0	G	T	bias_e_value=9.90463e-05	bias_p_value=2.13386e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=259.6	fisher_strand_p_value=7.37451e-13	frequency=2.867e-01	ks_quality_p_value=1	major_base=G	major_cov=60/42	major_frequency=7.133e-01	minor_base=T	minor_cov=0/41	new_cov=0/41	polymorphism_frequency=2.867e-01	polymorphism_score=21.0	prediction=polymorphism	ref_cov=60/42	total_cov=60/83
RA	17	.	NC_000913	1001094	0	G	T	bias_e_value=0.0128517	bias_p_value=2.76878e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=226.3	fisher_strand_p_value=1.15956e-10	frequency=3.008e-01	ks_quality_p_value=1	major_base=G	major_cov=49/44	major_frequency=6.992e-01	minor_base=T	minor_cov=0/40	new_cov=0/40	polymorphism_frequency=3.008e-01	polymorphism_score=17.1	prediction=polymorphism	ref_cov=49/44	total_cov=50/84
RA	18	.	NC_000913	1097118	0	C	A	bias_e_value=4159120	bias_p_value=0.896042	consensus_reject=FREQUENCY_CUTOFF	consensus_score=40.4	fisher_strand_p_value=0.712089	frequency=2.895e-01	ks_quality_p_value=0.814765	major_base=C	major_cov=9/18	major_frequency=7.105e-01	minor_base=A	minor_cov=5/6	new_cov=5/6	polymorphism_frequency=2.895e-01	polymorphism_score=24.1	prediction=polymorphism	ref_cov=9/18	total_cov=14/24
RA	19	.	NC_000913	1197261	0	G	T	bias_e_value=0.0225471	bias_p_value=4.85756e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=360.7	fisher_strand_p_value=2.08561e-10	frequency=2.130e-01	ks_quality_p_value=1	major_base=G	major_cov=70/63	major_frequency=7.870e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=2.130e-01	polymorphism_score=17.5	prediction=polymorphism	ref_cov=70/63	total_cov=70/99
RA	20	.	NC_000913	1272420	0	C	A	bias_e_value=3.16782	bias_p_value=6.82476e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=232.0	fisher_strand_p_value=3.77203e-08	frequency=2.264e-01	ks_quality_p_value=1	major_base=C	major_cov=34/48	major_frequency=7.736e-01	minor_base=A	minor_cov=24/0	new_cov=24/0	polymorphism_frequency=2.264e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=34/48	total_cov=58/48
RA	21	.	NC_000913	1427992	0	G	T	bias_e_value=0.000715704	bias_p_value=1.54192e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=219.4	fisher_strand_p_value=5.73536e-12	frequency=3.357e-01	ks_quality_p_value=1	major_base=G	major_cov=49/46	major_frequency=6.643e-01	minor_base=T	minor_cov=0/48	new_cov=0/48	polymorphism_frequency=3.357e-01	polymorphism_score=15.9	prediction=polymorphism	ref_cov=49/46	total_cov=49/94
RA	22	.	NC_000913	1466438	0	T	G	bias_e_value=3967290	bias_p_value=0.854716	consensus_reject=FREQUENCY_CUTOFF	consensus_score=76.5	fisher_strand_p_value=0.511951	frequency=2.308e-01	ks_quality_p_value=1	major_base=T	major_cov=15/25	major_frequency=7.692e-01	minor_base=G	minor_cov=6/6	new_cov=6/6	polymorphism_frequency=2.308e-01	polymorphism_score=17.1	prediction=polymorphism	ref_cov=15/25	total_cov=23/31
RA	23	.	NC_000913	1502768	0	G	A	bias_e_value=55.6358	bias_p_value=1.19862e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=198.5	fisher_strand_p_value=7.96815e-07	frequency=2.162e-01	ks_quality_p_value=1	major_base=G	major_cov=44/43	major_frequency=7.838e-01	minor_base=A	minor_cov=0/24	new_cov=0/24	polymorphism_frequency=2.162e-01	polymorphism_score=14.3	prediction=polymorphism	ref_cov=44/43	total_cov=44/67
RA	24	.	NC_000913	1502770	0	T	C	bias_e_value=0.0133453	bias_p_value=2.87512e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=149.0	fisher_strand_p_value=1.20608e-10	frequency=3.182e-01	ks_quality_p_value=1	major_base=T	major_cov=44/31	major_frequency=6.818e-01	minor_base=C	minor_cov=0/35	new_cov=0/35	polymorphism_frequency=3.182e-01	polymorphism_score=33.2	prediction=polymorphism	ref_cov=44/31	total_cov=44/66
RA	25	.	NC_000913	1502772	0	G	A	bias_e_value=139.046	bias_p_value=2.99562e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=166.9	fisher_strand_p_value=2.13074e-06	frequency=2.500e-01	ks_quality_p_value=1	major_base=G	major_cov=43/38	major_frequency=7.500e-01	minor_base=A	minor_cov=1/26	new_cov=1/26	polymorphism_frequency=2.500e-01	polymorphism_score=27.5	prediction=polymorphism	ref_cov=43/38	total_cov=44/64
RA	26	.	NC_000913	1579973	0	C	A	bias_e_value=7.7283e-06	bias_p_value=1.66499e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=398.7	fisher_strand_p_value=5.27337e-14	frequency=2.340e-01	ks_quality_p_value=1	major_base=C	major_cov=61/83	major_frequency=7.660e-01	minor_base=A	minor_cov=44/0	new_cov=44/0	polymorphism_frequency=2.340e-01	polymorphism_score=18.8	prediction=polymorphism	ref_cov=61/83	total_cov=105/83
RA	27	.	NC_000913	1922815	0	C	A	bias_e_value=1.18796	bias_p_value=2.55934e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=263.6	fisher_strand_p_value=1.3379e-08	frequency=2.806e-01	ks_quality_p_value=1	major_base=C	major_cov=29/71	major_frequency=7.194e-01	minor_base=A	minor_cov=32/7	new_cov=32/7	polymorphism_frequency=2.806e-01	polymorphism_score=18.6	prediction=polymorphism	ref_cov=29/71	total_cov=61/78
RA	28	.	NC_000913	2173363	0	C	.	consensus_score=385.6	frequency=1	major_base=.	major_cov=45/35	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/35	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/35
RA	29	.	NC_000913	2173364	0	C	.	consensus_score=385.6	frequency=1	major_base=.	major_cov=45/35	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/35	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/35
RA	30	.	NC_000913	2238371	0	C	A	bias_e_value=0.00565132	bias_p_value=1.21752e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=256.7	fisher_strand_p_value=4.92234e-11	frequency=2.480e-01	ks_quality_p_value=1	major_base=C	major_cov=35/59	major_frequency=7.520e-01	minor_base=A	minor_cov=31/0	new_cov=31/0	polymorphism_frequency=2.480e-01	polymorphism_score=10.9	prediction=polymorphism	ref_cov=35/59	total_cov=66/60
RA	31	.	NC_000913	2288418	0	G	T	bias_e_value=1.08955e-06	bias_p_value=2.34732e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=284.2	fisher_strand_p_value=6.98719e-15	frequency=2.817e-01	ks_quality_p_value=1	major_base=G	major_cov=68/34	major_frequency=7.183e-01	minor_base=T	minor_cov=0/40	new_cov=0/40	polymorphism_frequency=2.817e-01	polymorphism_score=14.9	prediction=polymorphism	ref_cov=68/34	total_cov=68/74
RA	32	.	NC_000913	2466633	0	C	A	bias_e_value=0.000132055	bias_p_value=2.84499e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=301.9	fisher_strand_p_value=9.93447e-13	frequency=2.353e-01	ks_quality_p_value=1	major_base=C	major_cov=35/69	major_frequency=7.647e-01	minor_base=A	minor_cov=32/0	new_cov=32/0	polymorphism_frequency=2.353e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=35/69	total_cov=67/69
RA	33	.	NC_000913	2477265	0	A	C	bias_e_value=0.00362609	bias_p_value=7.81206e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=180.1	fisher_strand_p_value=3.1004e-11	frequency=2.796e-01	ks_quality_p_value=1	major_base=A	major_cov=19/48	major_frequency=7.204e-01	minor_base=C	minor_cov=26/0	new_cov=26/0	polymorphism_frequency=2.796e-01	polymorphism_score=18.1	prediction=polymorphism	ref_cov=19/48	total_cov=45/48
RA	34	.	NC_000913	2639066	0	G	T	bias_e_value=2379.58	bias_p_value=0.000512657	consensus_reject=FREQUENCY_CUTOFF	consensus_score=189.3	fisher_strand_p_value=4.67277e-05	frequency=2.188e-01	ks_quality_p_value=1	major_base=G	major_cov=33/42	major_frequency=7.812e-01	minor_base=T	minor_cov=0/21	new_cov=0/21	polymorphism_frequency=2.188e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=33/42	total_cov=33/63
RA	35	.	NC_000913	2722838	0	G	T	bias_e_value=0.000552017	bias_p_value=1.18927e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=184.4	fisher_strand_p_value=4.37971e-12	frequency=3.333e-01	ks_quality_p_value=1	major_base=G	major_cov=47/29	major_frequency=6.667e-01	minor_base=T	minor_cov=0/38	new_cov=0/38	polymorphism_frequency=3.333e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=47/29	total_cov=47/67
RA	36	.	NC_000913	2856087	0	G	T	bias_e_value=66.8661	bias_p_value=1.44057e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=166.1	fisher_strand_p_value=9.70367e-07	frequency=2.553e-01	ks_quality_p_value=1	major_base=G	major_cov=37/33	major_frequency=7.447e-01	minor_base=T	minor_cov=0/24	new_cov=0/24	polymorphism_frequency=2.553e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=37/33	total_cov=37/57
RA	37	.	NC_000913	2895349	0	G	T	bias_e_value=3.03664	bias_p_value=6.54216e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=145.0	fisher_strand_p_value=3.60692e-08	frequency=2.727e-01	ks_quality_p_value=1	major_base=G	major_cov=37/19	major_frequency=7.273e-01	minor_base=T	minor_cov=0/21	new_cov=0/21	polymorphism_frequency=2.727e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=37/19	total_cov=37/40
RA	38	.	NC_000913	3054886	0	G	T	bias_e_value=0.028337	bias_p_value=6.10494e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=190.1	fisher_strand_p_value=2.64834e-10	frequency=2.391e-01	ks_quality_p_value=1	major_base=G	major_cov=19/51	major_frequency=7.609e-01	minor_base=T	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=2.391e-01	polymorphism_score=20.2	prediction=polymorphism	ref_cov=19/51	total_cov=41/51
RA	39	.	NC_000913	3191376	0	G	T	bias_e_value=0.0517078	bias_p_value=1.114e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=297.8	fisher_strand_p_value=4.96814e-10	frequency=2.625e-01	ks_quality_p_value=1	major_base=G	major_cov=56/62	major_frequency=7.375e-01	minor_base=T	minor_cov=0/42	new_cov=0/42	polymorphism_frequency=2.625e-01	polymorphism_score=20.0	prediction=polymorphism	ref_cov=56/62	total_cov=56/104
RA	40	.	NC_000913	3269981	0	A	C	bias_e_value=0.000204076	bias_p_value=4.39662e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=149.7	fisher_strand_p_value=1.55984e-12	frequency=2.771e-01	ks_quality_p_value=1	major_base=A	major_cov=11/49	major_frequency=7.229e-01	minor_base=C	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=2.771e-01	polymorphism_score=12.6	prediction=polymorphism	ref_cov=11/49	total_cov=35/49
RA	41	.	NC_000913	3431396	0	C	A	bias_e_value=0.0191172	bias_p_value=4.11861e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=259.0	fisher_strand_p_value=1.75535e-10	frequency=2.687e-01	ks_quality_p_value=1	major_base=C	major_cov=44/54	major_frequency=7.313e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=2.687e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=44/54	total_cov=80/54
RA	42	.	NC_000913	3560455	1	.	G	consensus_score=409.6	frequency=1	major_base=G	major_cov=50/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=50/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=50/57
RA	43	.	NC_000913	3623537	0	G	A	bias_e_value=1.18429e-05	bias_p_value=2.55145e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=243.7	fisher_strand_p_value=8.19541e-14	frequency=2.848e-01	ks_quality_p_value=1	major_base=G	major_cov=65/43	major_frequency=7.152e-01	minor_base=A	minor_cov=0/43	new_cov=0/43	polymorphism_frequency=2.848e-01	polymorphism_score=32.1	prediction=polymorphism	ref_cov=65/43	total_cov=65/90
RA	44	.	NC_000913	3669715	0	G	T	bias_e_value=0.142547	bias_p_value=3.07103e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=159.7	fisher_strand_p_value=1.43774e-09	frequency=3.394e-01	ks_quality_p_value=1	major_base=G	major_cov=38/34	major_frequency=6.606e-01	minor_base=T	minor_cov=0/37	new_cov=0/37	polymorphism_frequency=3.394e-01	polymorphism_score=16.7	prediction=polymorphism	ref_cov=38/34	total_cov=38/71
RA	45	.	NC_000913	3841663	0	G	A	bias_e_value=131357	bias_p_value=0.0282996	consensus_reject=FREQUENCY_CUTOFF	consensus_score=191.9	fisher_strand_p_value=0.00440452	frequency=2.022e-01	ks_quality_p_value=1	major_base=G	major_cov=30/41	major_frequency=7.978e-01	minor_base=A	minor_cov=1/17	new_cov=1/17	polymorphism_frequency=2.022e-01	polymorphism_score=12.5	prediction=polymorphism	ref_cov=30/41	total_cov=31/58
RA	46	.	NC_000913	3911533	0	C	A	bias_e_value=0.000157259	bias_p_value=3.388e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=175.7	fisher_strand_p_value=1.19059e-12	frequency=3.782e-01	ks_quality_p_value=1	major_base=C	major_cov=27/47	major_frequency=6.218e-01	minor_base=A	minor_cov=44/1	new_cov=44/1	polymorphism_frequency=3.782e-01	polymorphism_score=21.9	prediction=polymorphism	ref_cov=27/47	total_cov=71/48
RA	47	.	NC_000913	4060777	0	G	T	bias_e_value=0.00540692	bias_p_value=1.16487e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=216.9	fisher_strand_p_value=4.70071e-11	frequency=2.696e-01	ks_quality_p_value=1	major_base=G	major_cov=53/31	major_frequency=7.304e-01	minor_base=T	minor_cov=0/31	new_cov=0/31	polymorphism_frequency=2.696e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=53/31	total_cov=53/62
RA	48	.	NC_000913	4074572	0	C	A	bias_e_value=0.000330004	bias_p_value=7.10962e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=197.5	fisher_strand_p_value=2.56776e-12	frequency=3.303e-01	ks_quality_p_value=1	major_base=C	major_cov=26/47	major_frequency=6.697e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=3.303e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=26/47	total_cov=62/47
RA	49	.	NC_000913	4249810	0	C	A	bias_e_value=0.515907	bias_p_value=1.11147e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=183.3	fisher_strand_p_value=5.55498e-09	frequency=2.688e-01	ks_quality_p_value=1	major_base=C	major_cov=25/43	major_frequency=7.312e-01	minor_base=A	minor_cov=25/0	new_cov=25/0	polymorphism_frequency=2.688e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=25/43	total_cov=50/43
RA	50	.	NC_000913	4296190	0	A	G	bias_e_value=3245690	bias_p_value=0.699254	consensus_reject=FREQUENCY_CUTOFF	consensus_score=15.5	fisher_strand_p_value=0.333075	frequency=3.158e-01	ks_quality_p_value=1	major_base=A	major_cov=7/6	major_frequency=6.842e-01	minor_base=G	minor_cov=5/1	new_cov=5/1	polymorphism_frequency=3.158e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=7/6	total_cov=12/7
RA	51	.	NC_000913	4296191	0	A	C	bias_e_value=2214090	bias_p_value=0.477005	consensus_reject=SCORE_CUTOFF,FREQUENCY_CUTOFF	consensus_score=6.4	fisher_strand_p_value=0.173275	frequency=3.684e-01	ks_quality_p_value=1	major_base=A	major_cov=6/6	major_frequency=6.316e-01	minor_base=C	minor_cov=6/1	new_cov=6/1	polymorphism_frequency=3.684e-01	polymorphism_score=12.4	prediction=polymorphism	ref_cov=6/6	total_cov=12/7
RA	52	.	NC_000913	4296380	1	.	C	bias_e_value=3290030	bias_p_value=0.708807	consensus_score=136.6	fisher_strand_p_value=0.341869	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=31/16	major_frequency=9.038e-01	minor_base=T	minor_cov=2/3	new_cov=31/16	polymorphism_frequency=9.038e-01	polymorphism_score=4.3	prediction=consensus	ref_cov=1/0	total_cov=34/19
RA	53	.	NC_000913	4296380	2	.	G	bias_e_value=4641630	bias_p_value=0.999996	consensus_score=167.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.997101	major_base=G	major_cov=33/19	major_frequency=9.811e-01	minor_base=.	minor_cov=1/0	new_cov=33/19	polymorphism_frequency=9.811e-01	polymorphism_score=-3.0	prediction=consensus	ref_cov=1/0	total_cov=34/19
RA	54	.	NC_000913	4427822	0	C	A	bias_e_value=0.000266423	bias_p_value=5.73984e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=297.2	fisher_strand_p_value=2.05655e-12	frequency=2.467e-01	ks_quality_p_value=1	major_base=C	major_cov=45/68	major_frequency=7.533e-01	minor_base=A	minor_cov=37/0	new_cov=37/0	polymorphism_frequency=2.467e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=45/68	total_cov=82/68
RA	55	.	NC_000913	4578370	0	G	T	bias_e_value=9.81993e-06	bias_p_value=2.11561e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=410.6	fisher_strand_p_value=6.7535e-14	frequency=2.143e-01	ks_quality_p_value=1	major_base=G	major_cov=85/47	major_frequency=7.857e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=2.143e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=85/47	total_cov=85/83
MC	56	.	NC_000913	257908	258683	0	0	left_inside_cov=0	left_outside_cov=147	right_inside_cov=1	right_outside_cov=148
MC	57	.	NC_000913	1299499	1300697	1197	0	left_inside_cov=0	left_outside_cov=130	right_inside_cov=0	right_outside_cov=132
MC	58	.	NC_000913	1978503	1979392	0	0	left_inside_cov=0	left_outside_cov=121	right_inside_cov=1	right_outside_cov=165
MC	59	.	NC_000913	3423817	3424444	627	0	left_inside_cov=30	left_outside_cov=34	right_inside_cov=32	right_outside_cov=35
MC	60	.	NC_000913	4583270	4586812	0	0	left_inside_cov=0	left_outside_cov=82	right_inside_cov=0	right_outside_cov=89
JC	61	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=63	coverage_plus=70	flanking_left=300	flanking_right=300	frequency=1	ignore=CIRCULAR_CHROMOSOME	junction_possible_overlap_registers=291	key=NC_000913__1__1__NC_000913__4641652__-1__0____300__300__0__0	max_left=292	max_left_minus=292	max_left_plus=248	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=584	max_right=289	max_right_minus=287	max_right_plus=289	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=1.31	new_junction_read_count=137	polymorphism_frequency=1.000e+00	pos_hash_score=63	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=291	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=291	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=133
JC	62	.	NC_000913	129668	-1	NC_000913	129861	1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.341e-02	junction_possible_overlap_registers=282	key=NC_000913__129668__-1__NC_000913__129852__1__9____300__300__0__0	max_left=197	max_left_minus=152	max_left_plus=197	max_min_left=52	max_min_left_minus=52	max_min_left_plus=14	max_min_right=139	max_min_right_minus=139	max_min_right_plus=92	max_pos_hash_score=566	max_right=276	max_right_minus=239	max_right_plus=276	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=4.341e-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=0.84	side_1_overlap=9	side_1_possible_overlap_registers=291	side_1_read_count=88	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.90	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=91	side_2_redundant=0	total_non_overlap_reads=4
JC	63	.	NC_000913	257907	-1	NC_000913	258684	1	0	alignment_overlap=8	coverage_minus=52	coverage_plus=91	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=283	key=NC_000913__257907__-1__NC_000913__258676__1__8____300__300__0__0	max_left=288	max_left_minus=288	max_left_plus=284	max_min_left=136	max_min_left_minus=123	max_min_left_plus=136	max_min_right=144	max_min_right_minus=143	max_min_right_plus=144	max_pos_hash_score=568	max_right=289	max_right_minus=289	max_right_plus=273	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.45	new_junction_read_count=147	polymorphism_frequency=1.000e+00	pos_hash_score=79	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=291	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=283	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=143
JC	64	.	NC_000913	449620	-1	NC_000913	449942	1	0	alignment_overlap=11	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.253e-02	junction_possible_overlap_registers=280	key=NC_000913__449620__-1__NC_000913__449931__1__11____300__300__0__0	max_left=87	max_left_minus=87	max_left_plus=87	max_min_left=1	max_min_left_minus=0	max_min_left_plus=1	max_min_right=37	max_min_right_minus=37	max_min_right_plus=37	max_pos_hash_score=562	max_right=132	max_right_minus=37	max_right_plus=132	neg_log10_pos_hash_p_value=9.1	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.253e-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=0.90	side_1_overlap=11	side_1_possible_overlap_registers=291	side_1_read_count=94	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=280	side_2_read_count=88	side_2_redundant=0	total_non_overlap_reads=3
JC	65	.	NC_000913	643194	-1	NC_000913	643635	1	0	alignment_overlap=9	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.701e-02	junction_possible_overlap_registers=282	key=NC_000913__643194__-1__NC_000913__643626__1__9____300__300__0__0	max_left=65	max_left_minus=65	max_left_plus=53	max_min_left=65	max_min_left_minus=65	max_min_left_plus=53	max_min_right=45	max_min_right_minus=0	max_min_right_plus=45	max_pos_hash_score=566	max_right=83	max_right_minus=83	max_right_plus=83	neg_log10_pos_hash_p_value=9.2	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.701e-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=1.21	side_1_overlap=9	side_1_possible_overlap_registers=291	side_1_read_count=126	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=282	side_2_read_count=94	side_2_redundant=0	total_non_overlap_reads=3
JC	66	.	NC_000913	721951	-1	NC_000913	722313	1	0	alignment_overlap=12	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.179e-02	junction_possible_overlap_registers=279	key=NC_000913__721951__-1__NC_000913__722301__1__12____300__300__0__0	max_left=118	max_left_minus=118	max_left_plus=118	max_min_left=118	max_min_left_minus=118	max_min_left_plus=118	max_min_right=29	max_min_right_minus=29	max_min_right_plus=0	max_pos_hash_score=560	max_right=149	max_right_minus=149	max_right_plus=149	neg_log10_pos_hash_p_value=9.1	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.179e-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=0.99	side_1_overlap=12	side_1_possible_overlap_registers=291	side_1_read_count=103	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.84	side_2_overlap=0	side_2_possible_overlap_registers=279	side_2_read_count=84	side_2_redundant=0	total_non_overlap_reads=3
JC	67	.	NC_000913	781369	1	NC_000913	2521006	-1	-2	alignment_overlap=-2	coverage_minus=5	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.191e-01	junction_possible_overlap_registers=289	key=NC_000913__781369__1__NC_000913__2521006__-1__-2__GG__300__300__0__0	max_left=169	max_left_minus=169	max_left_plus=169	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=67	max_min_right_minus=67	max_min_right_plus=67	max_pos_hash_score=580	max_right=67	max_right_minus=67	max_right_plus=67	neg_log10_pos_hash_p_value=6.8	new_junction_coverage=0.10	new_junction_read_count=10	polymorphism_frequency=1.191e-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=0.59	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=62	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=291	side_2_read_count=87	side_2_redundant=0	total_non_overlap_reads=10	unique_read_sequence=GG
JC	68	.	NC_000913	781369	1	NC_000913	2521127	-1	-1	alignment_overlap=-1	coverage_minus=5	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.592e-01	junction_possible_overlap_registers=290	key=NC_000913__781369__1__NC_000913__2521127__-1__-1__G__300__300__0__0	max_left=169	max_left_minus=169	max_left_plus=169	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=68	max_min_right_minus=68	max_min_right_plus=68	max_pos_hash_score=582	max_right=68	max_right_minus=68	max_right_plus=68	neg_log10_pos_hash_p_value=6.8	new_junction_coverage=0.10	new_junction_read_count=10	polymorphism_frequency=1.592e-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=0.59	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=62	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.42	side_2_overlap=0	side_2_possible_overlap_registers=291	side_2_read_count=44	side_2_redundant=0	total_non_overlap_reads=10	unique_read_sequence=G
JC	69	.	NC_000913	781446	-1	NC_000913	781655	1	0	alignment_overlap=78	coverage_minus=1	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=9.273e-02	junction_possible_overlap_registers=213	key=NC_000913__781446__-1__NC_000913__781577__1__78____300__300__0__0	max_left=113	max_left_minus=113	max_left_plus=76	max_min_left=76	max_min_left_minus=0	max_min_left_plus=76	max_min_right=109	max_min_right_minus=109	max_min_right_plus=0	max_pos_hash_score=428	max_right=155	max_right_minus=109	max_right_plus=155	neg_log10_pos_hash_p_value=7.1	new_junction_coverage=0.07	new_junction_read_count=5	polymorphism_frequency=9.273e-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=0.61	side_1_overlap=78	side_1_possible_overlap_registers=291	side_1_read_count=64	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.67	side_2_overlap=0	side_2_possible_overlap_registers=213	side_2_read_count=51	side_2_redundant=0	total_non_overlap_reads=4
JC	70	.	NC_000913	781577	1	NC_000913	2521006	-1	-4	alignment_overlap=-4	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.959e-02	junction_possible_overlap_registers=287	key=NC_000913__781577__1__NC_000913__2521006__-1__-4__GAAG__300__300__0__0	max_left=193	max_left_minus=143	max_left_plus=193	max_min_left=121	max_min_left_minus=121	max_min_left_plus=0	max_min_right=114	max_min_right_minus=87	max_min_right_plus=114	max_pos_hash_score=576	max_right=175	max_right_minus=175	max_right_plus=114	neg_log10_pos_hash_p_value=8.1	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.959e-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=0.70	side_1_overlap=0	side_1_possible_overlap_registers=291	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=291	side_2_read_count=87	side_2_redundant=0	total_non_overlap_reads=5	unique_read_sequence=GAAG
JC	71	.	NC_000913	963028	-1	NC_000913	963290	1	0	alignment_overlap=14	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.361e-02	junction_possible_overlap_registers=277	key=NC_000913__963028__-1__NC_000913__963276__1__14____300__300__0__0	max_left=160	max_left_minus=160	max_left_plus=160	max_min_left=123	max_min_left_minus=123	max_min_left_plus=93	max_min_right=49	max_min_right_minus=49	max_min_right_plus=49	max_pos_hash_score=556	max_right=193	max_right_minus=163	max_right_plus=193	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=4.361e-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=1.13	side_1_overlap=14	side_1_possible_overlap_registers=291	side_1_read_count=118	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.08	side_2_overlap=0	side_2_possible_overlap_registers=277	side_2_read_count=107	side_2_redundant=0	total_non_overlap_reads=5
JC	72	.	NC_000913	977281	-1	NC_000913	977867	1	0	alignment_overlap=11	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.275e-02	junction_possible_overlap_registers=280	key=NC_000913__977281__-1__NC_000913__977856__1__11____300__300__0__0	max_left=64	max_left_minus=64	max_left_plus=64	max_min_left=27	max_min_left_minus=0	max_min_left_plus=27	max_min_right=38	max_min_right_minus=38	max_min_right_plus=38	max_pos_hash_score=562	max_right=131	max_right_minus=38	max_right_plus=131	neg_log10_pos_hash_p_value=9.1	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=4.275e-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=0.67	side_1_overlap=11	side_1_possible_overlap_registers=291	side_1_read_count=70	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.67	side_2_overlap=0	side_2_possible_overlap_registers=280	side_2_read_count=67	side_2_redundant=0	total_non_overlap_reads=3
JC	73	.	NC_000913	1166125	-1	NC_000913	1166621	1	0	alignment_overlap=15	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.872e-02	junction_possible_overlap_registers=276	key=NC_000913__1166125__-1__NC_000913__1166606__1__15____300__300__0__0	max_left=29	max_left_minus=29	max_left_plus=29	max_min_left=29	max_min_left_minus=29	max_min_left_plus=29	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=554	max_right=73	max_right_minus=73	max_right_plus=73	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.872e-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=15	side_1_possible_overlap_registers=291	side_1_read_count=124	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=276	side_2_read_count=81	side_2_redundant=0	total_non_overlap_reads=4
JC	74	.	NC_000913	1207790	1	NC_000913	1209619	1	0	alignment_overlap=16	coverage_minus=56	coverage_plus=36	flanking_left=300	flanking_right=300	frequency=7.463e-01	junction_possible_overlap_registers=275	key=NC_000913__1207790__1__NC_000913__1209603__1__16____300__300__0__0	max_left=271	max_left_minus=271	max_left_plus=237	max_min_left=138	max_min_left_minus=109	max_min_left_plus=138	max_min_right=142	max_min_right_minus=140	max_min_right_plus=142	max_pos_hash_score=552	max_right=282	max_right_minus=275	max_right_plus=282	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.94	new_junction_read_count=93	polymorphism_frequency=7.463e-01	pos_hash_score=63	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.31	side_1_overlap=16	side_1_possible_overlap_registers=291	side_1_read_count=32	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=275	side_2_read_count=33	side_2_redundant=0	total_non_overlap_reads=92
JC	75	.	NC_000913	1207800	1	NC_000913	1209610	1	-1	alignment_overlap=-1	coverage_minus=6	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=1.510e-01	junction_possible_overlap_registers=290	key=NC_000913__1207800__1__NC_000913__1209610__1__-1__A__300__300__0__0	max_left=194	max_left_minus=194	max_left_plus=0	max_min_left=86	max_min_left_minus=86	max_min_left_plus=0	max_min_right=144	max_min_right_minus=144	max_min_right_plus=0	max_pos_hash_score=582	max_right=263	max_right_minus=263	max_right_plus=0	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.07	new_junction_read_count=7	polymorphism_frequency=1.510e-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=0.34	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=35	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.42	side_2_overlap=0	side_2_possible_overlap_registers=291	side_2_read_count=44	side_2_redundant=0	total_non_overlap_reads=6	unique_read_sequence=A
JC	76	.	NC_000913	1207805	-1	NC_000913	1209602	-1	0	alignment_overlap=16	coverage_minus=29	coverage_plus=39	flanking_left=300	flanking_right=300	frequency=6.670e-01	junction_possible_overlap_registers=275	key=NC_000913__1207805__-1__NC_000913__1209618__-1__16____300__300__0__0	max_left=282	max_left_minus=282	max_left_plus=277	max_min_left=136	max_min_left_minus=130	max_min_left_plus=136	max_min_right=138	max_min_right_minus=133	max_min_right_plus=138	max_pos_hash_score=552	max_right=274	max_right_minus=262	max_right_plus=274	neg_log10_pos_hash_p_value=0.8	new_junction_coverage=0.70	new_junction_read_count=69	polymorphism_frequency=6.670e-01	pos_hash_score=46	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.36	side_1_overlap=16	side_1_possible_overlap_registers=291	side_1_read_count=38	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=275	side_2_read_count=33	side_2_redundant=0	total_non_overlap_reads=68
JC	77	.	NC_000913	1227665	-1	NC_000913	1228049	1	0	alignment_overlap=11	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.586e-02	junction_possible_overlap_registers=280	key=NC_000913__1227665__-1__NC_000913__1228038__1__11____300__300__0__0	max_left=57	max_left_minus=57	max_left_plus=57	max_min_left=57	max_min_left_minus=57	max_min_left_plus=57	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=562	max_right=210	max_right_minus=69	max_right_plus=210	neg_log10_pos_hash_p_value=9.1	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.586e-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=1.26	side_1_overlap=11	side_1_possible_overlap_registers=291	side_1_read_count=132	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.99	side_2_overlap=0	side_2_possible_overlap_registers=280	side_2_read_count=99	side_2_redundant=0	total_non_overlap_reads=3
JC	78	.	NC_000913	1286728	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.562e-02	junction_possible_overlap_registers=271	key=NC_000913__1286728__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=31	max_left_minus=31	max_left_plus=31	max_min_left=31	max_min_left_minus=31	max_min_left_plus=31	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=544	max_right=95	max_right_minus=95	max_right_plus=95	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=5.562e-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=0.72	side_1_overlap=20	side_1_possible_overlap_registers=291	side_1_read_count=75	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=271	side_2_read_count=66	side_2_redundant=0	total_non_overlap_reads=4
JC	79	.	NC_000913	1287084	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=5.354e-02	junction_possible_overlap_registers=271	key=NC_000913__1287084__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=19	max_left_minus=19	max_left_plus=1	max_min_left=19	max_min_left_minus=19	max_min_left_plus=1	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=544	max_right=260	max_right_minus=260	max_right_plus=95	neg_log10_pos_hash_p_value=9.0	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=5.354e-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=0.78	side_1_overlap=20	side_1_possible_overlap_registers=291	side_1_read_count=81	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=271	side_2_read_count=66	side_2_redundant=0	total_non_overlap_reads=3
JC	80	.	NC_000913	1299498	-1	NC_000913	1300698	1	0	alignment_overlap=4	coverage_minus=49	coverage_plus=77	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=287	key=NC_000913__1299498__-1__NC_000913__1300694__1__4____300__300__0__0	max_left=295	max_left_minus=284	max_left_plus=295	max_min_left=144	max_min_left_minus=140	max_min_left_plus=144	max_min_right=142	max_min_right_minus=139	max_min_right_plus=142	max_pos_hash_score=576	max_right=291	max_right_minus=291	max_right_plus=287	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.26	new_junction_read_count=130	polymorphism_frequency=1.000e+00	pos_hash_score=80	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=291	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=287	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=126
JC	81	.	NC_000913	1376615	-1	NC_000913	1376985	1	0	alignment_overlap=13	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.410e-02	junction_possible_overlap_registers=278	key=NC_000913__1376615__-1__NC_000913__1376972__1__13____300__300__0__0	max_left=104	max_left_minus=104	max_left_plus=104	max_min_left=104	max_min_left_minus=104	max_min_left_plus=104	max_min_right=15	max_min_right_minus=15	max_min_right_plus=0	max_pos_hash_score=558	max_right=172	max_right_minus=171	max_right_plus=172	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=5.410e-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=0.67	side_1_overlap=13	side_1_possible_overlap_registers=291	side_1_read_count=70	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=278	side_2_read_count=73	side_2_redundant=0	total_non_overlap_reads=4
JC	82	.	NC_000913	1397238	-1	NC_000913	1995623	-1	0	alignment_overlap=0	coverage_minus=65	coverage_plus=75	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=291	key=NC_000913__1397238__-1__NC_000913__1995623__-1__0____300__300__1__0	max_left=293	max_left_minus=283	max_left_plus=293	max_min_left=148	max_min_left_minus=139	max_min_left_plus=148	max_min_right=146	max_min_right_minus=137	max_min_right_plus=146	max_pos_hash_score=584	max_right=297	max_right_minus=297	max_right_plus=289	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.38	new_junction_read_count=144	polymorphism_frequency=1.000e+00	pos_hash_score=76	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=287	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=140
JC	83	.	NC_000913	1978502	-1	NC_000913	2070273	-1	-117	alignment_overlap=-117	coverage_minus=38	coverage_plus=39	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=174	key=NC_000913__1978502__-1__NC_000913__2070273__-1__-117__TATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATA__300__300__0__1	max_left=181	max_left_minus=170	max_left_plus=181	max_min_left=89	max_min_left_minus=88	max_min_left_plus=89	max_min_right=91	max_min_right_minus=90	max_min_right_plus=91	max_pos_hash_score=350	max_right=176	max_right_minus=176	max_right_plus=175	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.25	new_junction_read_count=78	polymorphism_frequency=1.000e+00	pos_hash_score=45	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=291	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=77	unique_read_sequence=TATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATA
JC	84	.	NC_000913	1979393	1	NC_000913	2068941	1	0	alignment_overlap=1	coverage_minus=66	coverage_plus=94	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=290	key=NC_000913__1979392__1__NC_000913__2068941__1__1____300__300__0__1	max_left=296	max_left_minus=293	max_left_plus=296	max_min_left=143	max_min_left_minus=143	max_min_left_plus=140	max_min_right=149	max_min_right_minus=149	max_min_right_plus=148	max_pos_hash_score=582	max_right=292	max_right_minus=266	max_right_plus=292	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.58	new_junction_read_count=164	polymorphism_frequency=1.000e+00	pos_hash_score=80	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=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=1	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=160
JC	85	.	NC_000913	1995617	-1	NC_000913	3365556	1	-6	alignment_overlap=-6	coverage_minus=4	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=5.052e-01	junction_possible_overlap_registers=285	key=NC_000913__1995617__-1__NC_000913__3365556__1__-6__AATTAA__300__300__0__0	max_left=283	max_left_minus=283	max_left_plus=0	max_min_left=130	max_min_left_minus=130	max_min_left_plus=0	max_min_right=11	max_min_right_minus=11	max_min_right_plus=0	max_pos_hash_score=572	max_right=223	max_right_minus=223	max_right_plus=0	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.052e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.05	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=5	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=AATTAA
JC	86	.	NC_000913	1995620	1	NC_000913	2290113	-1	0	alignment_overlap=0	coverage_minus=36	coverage_plus=74	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=291	key=NC_000913__1995620__1__NC_000913__2290113__-1__0____300__300__0__1	max_left=296	max_left_minus=290	max_left_plus=296	max_min_left=145	max_min_left_minus=145	max_min_left_plus=143	max_min_right=144	max_min_right_minus=144	max_min_right_plus=125	max_pos_hash_score=584	max_right=293	max_right_minus=293	max_right_plus=288	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.07	new_junction_read_count=112	polymorphism_frequency=1.000e+00	pos_hash_score=66	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=287	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=110
JC	87	.	NC_000913	2119463	-1	NC_000913	2120070	1	0	alignment_overlap=12	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.347e-02	junction_possible_overlap_registers=279	key=NC_000913__2119463__-1__NC_000913__2120058__1__12____300__300__0__0	max_left=68	max_left_minus=40	max_left_plus=68	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=35	max_min_right_minus=35	max_min_right_plus=35	max_pos_hash_score=560	max_right=35	max_right_minus=35	max_right_plus=35	neg_log10_pos_hash_p_value=9.1	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.347e-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=0.87	side_1_overlap=12	side_1_possible_overlap_registers=291	side_1_read_count=91	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.86	side_2_overlap=0	side_2_possible_overlap_registers=279	side_2_read_count=86	side_2_redundant=0	total_non_overlap_reads=3
JC	88	.	NC_000913	2355790	-1	NC_000913	2355964	1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.505e-02	junction_possible_overlap_registers=282	key=NC_000913__2355790__-1__NC_000913__2355955__1__9____300__300__0__0	max_left=232	max_left_minus=232	max_left_plus=162	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=140	max_min_right_minus=69	max_min_right_plus=140	max_pos_hash_score=566	max_right=140	max_right_minus=69	max_right_plus=140	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=5.505e-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=0.52	side_1_overlap=9	side_1_possible_overlap_registers=291	side_1_read_count=54	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.84	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=85	side_2_redundant=0	total_non_overlap_reads=4
JC	89	.	NC_000913	2357690	-1	NC_000913	2357874	1	0	alignment_overlap=25	coverage_minus=4	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=6.131e-02	junction_possible_overlap_registers=266	key=NC_000913__2357690__-1__NC_000913__2357849__1__25____300__300__0__0	max_left=250	max_left_minus=250	max_left_plus=210	max_min_left=116	max_min_left_minus=0	max_min_left_plus=116	max_min_right=110	max_min_right_minus=85	max_min_right_plus=110	max_pos_hash_score=534	max_right=158	max_right_minus=85	max_right_plus=158	neg_log10_pos_hash_p_value=6.4	new_junction_coverage=0.08	new_junction_read_count=8	polymorphism_frequency=6.131e-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=1.34	side_1_overlap=25	side_1_possible_overlap_registers=291	side_1_read_count=140	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.23	side_2_overlap=0	side_2_possible_overlap_registers=266	side_2_read_count=117	side_2_redundant=0	total_non_overlap_reads=8
JC	90	.	NC_000913	2357692	-1	NC_000913	2357876	1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.230e-02	junction_possible_overlap_registers=291	key=NC_000913__2357692__-1__NC_000913__2357876__1__0____300__300__0__0	max_left=248	max_left_minus=204	max_left_plus=248	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=98	max_min_right_minus=96	max_min_right_plus=98	max_pos_hash_score=584	max_right=98	max_right_minus=96	max_right_plus=98	neg_log10_pos_hash_p_value=9.4	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.230e-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=1.34	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=140	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.18	side_2_overlap=0	side_2_possible_overlap_registers=291	side_2_read_count=123	side_2_redundant=0	total_non_overlap_reads=3
JC	91	.	NC_000913	2357730	-1	NC_000913	2357926	1	0	alignment_overlap=40	coverage_minus=4	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=6.910e-02	junction_possible_overlap_registers=251	key=NC_000913__2357730__-1__NC_000913__2357886__1__40____300__300__0__0	max_left=214	max_left_minus=214	max_left_plus=209	max_min_left=117	max_min_left_minus=117	max_min_left_plus=74	max_min_right=46	max_min_right_minus=46	max_min_right_plus=13	max_pos_hash_score=504	max_right=198	max_right_minus=175	max_right_plus=198	neg_log10_pos_hash_p_value=6.1	new_junction_coverage=0.09	new_junction_read_count=8	polymorphism_frequency=6.910e-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=1.22	side_1_overlap=40	side_1_possible_overlap_registers=291	side_1_read_count=127	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.18	side_2_overlap=0	side_2_possible_overlap_registers=251	side_2_read_count=106	side_2_redundant=0	total_non_overlap_reads=8
JC	92	.	NC_000913	2518116	-1	NC_000913	2518232	1	0	alignment_overlap=81	coverage_minus=5	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=1.073e-01	junction_possible_overlap_registers=210	key=NC_000913__2518116__-1__NC_000913__2518151__1__81____300__300__0__0	max_left=201	max_left_minus=201	max_left_plus=1	max_min_left=1	max_min_left_minus=0	max_min_left_plus=1	max_min_right=91	max_min_right_minus=91	max_min_right_plus=0	max_pos_hash_score=422	max_right=194	max_right_minus=91	max_right_plus=194	neg_log10_pos_hash_p_value=6.0	new_junction_coverage=0.08	new_junction_read_count=6	polymorphism_frequency=1.073e-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=0.73	side_1_overlap=81	side_1_possible_overlap_registers=291	side_1_read_count=76	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.60	side_2_overlap=0	side_2_possible_overlap_registers=210	side_2_read_count=45	side_2_redundant=0	total_non_overlap_reads=6
JC	93	.	NC_000913	2521632	-1	NC_000913	2522077	1	0	alignment_overlap=10	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=6.025e-02	junction_possible_overlap_registers=281	key=NC_000913__2521632__-1__NC_000913__2522067__1__10____300__300__0__0	max_left=66	max_left_minus=66	max_left_plus=61	max_min_left=61	max_min_left_minus=61	max_min_left_plus=61	max_min_right=38	max_min_right_minus=38	max_min_right_plus=0	max_pos_hash_score=564	max_right=97	max_right_minus=97	max_right_plus=97	neg_log10_pos_hash_p_value=8.0	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=6.025e-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=0.79	side_1_overlap=10	side_1_possible_overlap_registers=291	side_1_read_count=82	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=281	side_2_read_count=108	side_2_redundant=0	total_non_overlap_reads=5
JC	94	.	NC_000913	2560975	-1	NC_000913	2561023	1	0	alignment_overlap=23	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.174e-02	junction_possible_overlap_registers=268	key=NC_000913__2560975__-1__NC_000913__2561000__1__23____300__300__0__0	max_left=153	max_left_minus=70	max_left_plus=153	max_min_left=70	max_min_left_minus=70	max_min_left_plus=70	max_min_right=123	max_min_right_minus=0	max_min_right_plus=123	max_pos_hash_score=538	max_right=169	max_right_minus=169	max_right_plus=169	neg_log10_pos_hash_p_value=8.9	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.174e-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=0.97	side_1_overlap=23	side_1_possible_overlap_registers=291	side_1_read_count=101	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.94	side_2_overlap=0	side_2_possible_overlap_registers=268	side_2_read_count=90	side_2_redundant=0	total_non_overlap_reads=3
JC	95	.	NC_000913	2653419	-1	NC_000913	2653746	1	0	alignment_overlap=25	coverage_minus=5	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.093e-01	junction_possible_overlap_registers=266	key=NC_000913__2653419__-1__NC_000913__2653721__1__25____300__300__0__0	max_left=110	max_left_minus=110	max_left_plus=103	max_min_left=110	max_min_left_minus=110	max_min_left_plus=103	max_min_right=4	max_min_right_minus=4	max_min_right_plus=0	max_pos_hash_score=534	max_right=259	max_right_minus=221	max_right_plus=259	neg_log10_pos_hash_p_value=5.7	new_junction_coverage=0.10	new_junction_read_count=10	polymorphism_frequency=1.093e-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=0.90	side_1_overlap=25	side_1_possible_overlap_registers=291	side_1_read_count=94	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.81	side_2_overlap=0	side_2_possible_overlap_registers=266	side_2_read_count=77	side_2_redundant=0	total_non_overlap_reads=10
JC	96	.	NC_000913	2818275	-1	NC_000913	2818551	1	0	alignment_overlap=79	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.786e-02	junction_possible_overlap_registers=212	key=NC_000913__2818275__-1__NC_000913__2818472__1__79____300__300__0__0	max_left=124	max_left_minus=124	max_left_plus=70	max_min_left=70	max_min_left_minus=0	max_min_left_plus=70	max_min_right=97	max_min_right_minus=97	max_min_right_plus=0	max_pos_hash_score=426	max_right=150	max_right_minus=97	max_right_plus=150	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.04	new_junction_read_count=3	polymorphism_frequency=5.786e-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=0.47	side_1_overlap=79	side_1_possible_overlap_registers=291	side_1_read_count=49	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=212	side_2_read_count=62	side_2_redundant=0	total_non_overlap_reads=3
JC	97	.	NC_000913	2877790	-1	NC_000913	2878342	1	0	alignment_overlap=17	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.650e-02	junction_possible_overlap_registers=274	key=NC_000913__2877790__-1__NC_000913__2878325__1__17____300__300__0__0	max_left=97	max_left_minus=97	max_left_plus=95	max_min_left=90	max_min_left_minus=90	max_min_left_plus=90	max_min_right=25	max_min_right_minus=25	max_min_right_plus=25	max_pos_hash_score=550	max_right=104	max_right_minus=104	max_right_plus=104	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=4.650e-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=17	side_1_possible_overlap_registers=291	side_1_read_count=68	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.02	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=100	side_2_redundant=0	total_non_overlap_reads=4
JC	98	.	NC_000913	2877792	-1	NC_000913	2878283	1	0	alignment_overlap=19	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.877e-02	junction_possible_overlap_registers=272	key=NC_000913__2877792__-1__NC_000913__2878264__1__19____300__300__0__0	max_left=254	max_left_minus=254	max_left_plus=71	max_min_left=71	max_min_left_minus=71	max_min_left_plus=71	max_min_right=1	max_min_right_minus=1	max_min_right_plus=0	max_pos_hash_score=546	max_right=130	max_right_minus=130	max_right_plus=130	neg_log10_pos_hash_p_value=9.0	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.877e-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=0.62	side_1_overlap=19	side_1_possible_overlap_registers=291	side_1_read_count=65	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.90	side_2_overlap=0	side_2_possible_overlap_registers=272	side_2_read_count=88	side_2_redundant=0	total_non_overlap_reads=3
JC	99	.	NC_000913	2878034	-1	NC_000913	2878281	1	0	alignment_overlap=29	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=6.639e-02	junction_possible_overlap_registers=262	key=NC_000913__2878034__-1__NC_000913__2878252__1__29____300__300__0__0	max_left=134	max_left_minus=134	max_left_plus=134	max_min_left=81	max_min_left_minus=81	max_min_left_plus=22	max_min_right=132	max_min_right_minus=132	max_min_right_plus=132	max_pos_hash_score=526	max_right=248	max_right_minus=190	max_right_plus=248	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=6.639e-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=0.61	side_1_overlap=29	side_1_possible_overlap_registers=291	side_1_read_count=64	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=262	side_2_read_count=83	side_2_redundant=0	total_non_overlap_reads=5
JC	100	.	NC_000913	2904039	-1	NC_000913	2904284	1	0	alignment_overlap=26	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.092e-02	junction_possible_overlap_registers=265	key=NC_000913__2904039__-1__NC_000913__2904258__1__26____300__300__0__0	max_left=162	max_left_minus=162	max_left_plus=142	max_min_left=73	max_min_left_minus=0	max_min_left_plus=73	max_min_right=132	max_min_right_minus=115	max_min_right_plus=132	max_pos_hash_score=532	max_right=271	max_right_minus=115	max_right_plus=271	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.092e-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=1.14	side_1_overlap=26	side_1_possible_overlap_registers=291	side_1_read_count=119	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=265	side_2_read_count=78	side_2_redundant=0	total_non_overlap_reads=5
JC	101	.	NC_000913	3270072	1	NC_000913	3639193	1	-10	alignment_overlap=-10	coverage_minus=5	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=5.648e-02	junction_possible_overlap_registers=281	key=NC_000913__3270072__1__NC_000913__3639193__1__-10__CAGATTGTTG__300__300__0__0	max_left=247	max_left_minus=247	max_left_plus=0	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=52	max_min_right_minus=52	max_min_right_plus=0	max_pos_hash_score=564	max_right=52	max_right_minus=52	max_right_plus=0	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.648e-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=0.77	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=80	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=291	side_2_read_count=93	side_2_redundant=0	total_non_overlap_reads=5	unique_read_sequence=CAGATTGTTG
JC	102	.	NC_000913	3270072	1	NC_000913	4137788	1	-25	alignment_overlap=-25	coverage_minus=5	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=5.555e-02	junction_possible_overlap_registers=266	key=NC_000913__3270072__1__NC_000913__4137788__1__-25__CAGATTGTTGAGTGCGCTTTATTCA__300__300__0__0	max_left=259	max_left_minus=259	max_left_plus=0	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=49	max_min_right_minus=49	max_min_right_plus=0	max_pos_hash_score=534	max_right=49	max_right_minus=49	max_right_plus=0	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.555e-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=0.77	side_1_overlap=0	side_1_possible_overlap_registers=291	side_1_read_count=80	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.02	side_2_overlap=0	side_2_possible_overlap_registers=291	side_2_read_count=106	side_2_redundant=0	total_non_overlap_reads=5	unique_read_sequence=CAGATTGTTGAGTGCGCTTTATTCA
JC	103	.	NC_000913	3469040	-1	NC_000913	3469344	1	0	alignment_overlap=20	coverage_minus=5	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.039e-02	junction_possible_overlap_registers=271	key=NC_000913__3469040__-1__NC_000913__3469324__1__20____300__300__0__0	max_left=244	max_left_minus=244	max_left_plus=69	max_min_left=69	max_min_left_minus=69	max_min_left_plus=69	max_min_right=59	max_min_right_minus=59	max_min_right_plus=0	max_pos_hash_score=544	max_right=164	max_right_minus=164	max_right_plus=164	neg_log10_pos_hash_p_value=6.5	new_junction_coverage=0.08	new_junction_read_count=8	polymorphism_frequency=7.039e-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=1.07	side_1_overlap=20	side_1_possible_overlap_registers=291	side_1_read_count=112	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.10	side_2_overlap=0	side_2_possible_overlap_registers=271	side_2_read_count=107	side_2_redundant=0	total_non_overlap_reads=8
JC	104	.	NC_000913	3648146	-1	NC_000913	3648378	1	0	alignment_overlap=58	coverage_minus=5	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.003e-01	junction_possible_overlap_registers=233	key=NC_000913__3648146__-1__NC_000913__3648320__1__58____300__300__0__0	max_left=216	max_left_minus=140	max_left_plus=216	max_min_left=100	max_min_left_minus=100	max_min_left_plus=100	max_min_right=50	max_min_right_minus=50	max_min_right_plus=25	max_pos_hash_score=468	max_right=220	max_right_minus=218	max_right_plus=220	neg_log10_pos_hash_p_value=5.4	new_junction_coverage=0.13	new_junction_read_count=11	polymorphism_frequency=1.003e-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=1.09	side_1_overlap=58	side_1_possible_overlap_registers=291	side_1_read_count=114	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.27	side_2_overlap=0	side_2_possible_overlap_registers=233	side_2_read_count=106	side_2_redundant=0	total_non_overlap_reads=10
JC	105	.	NC_000913	3648156	-1	NC_000913	3648388	1	0	alignment_overlap=5	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.598e-02	junction_possible_overlap_registers=286	key=NC_000913__3648156__-1__NC_000913__3648383__1__5____300__300__0__0	max_left=203	max_left_minus=203	max_left_plus=155	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=145	max_min_right_minus=137	max_min_right_plus=145	max_pos_hash_score=574	max_right=145	max_right_minus=137	max_right_plus=145	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=4.598e-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=1.14	side_1_overlap=5	side_1_possible_overlap_registers=291	side_1_read_count=119	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.29	side_2_overlap=0	side_2_possible_overlap_registers=286	side_2_read_count=132	side_2_redundant=0	total_non_overlap_reads=4
JC	106	.	NC_000913	3698740	-1	NC_000913	3698774	1	0	alignment_overlap=10	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.430e-02	junction_possible_overlap_registers=281	key=NC_000913__3698740__-1__NC_000913__3698764__1__10____300__300__0__0	max_left=218	max_left_minus=218	max_left_plus=97	max_min_left=97	max_min_left_minus=66	max_min_left_plus=97	max_min_right=72	max_min_right_minus=72	max_min_right_plus=0	max_pos_hash_score=564	max_right=224	max_right_minus=224	max_right_plus=193	neg_log10_pos_hash_p_value=9.2	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.430e-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=10	side_1_possible_overlap_registers=291	side_1_read_count=89	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=281	side_2_read_count=83	side_2_redundant=0	total_non_overlap_reads=3
JC	107	.	NC_000913	4094350	-1	NC_000913	4094719	1	0	alignment_overlap=41	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=6.001e-02	junction_possible_overlap_registers=250	key=NC_000913__4094350__-1__NC_000913__4094678__1__41____300__300__0__0	max_left=114	max_left_minus=114	max_left_plus=94	max_min_left=94	max_min_left_minus=63	max_min_left_plus=94	max_min_right=36	max_min_right_minus=36	max_min_right_plus=0	max_pos_hash_score=502	max_right=162	max_right_minus=76	max_right_plus=162	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=6.001e-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=0.61	side_1_overlap=41	side_1_possible_overlap_registers=291	side_1_read_count=64	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.44	side_2_overlap=0	side_2_possible_overlap_registers=250	side_2_read_count=39	side_2_redundant=0	total_non_overlap_reads=3
JC	108	.	NC_000913	4257714	-1	NC_000913	4257960	1	0	alignment_overlap=11	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.821e-02	junction_possible_overlap_registers=280	key=NC_000913__4257714__-1__NC_000913__4257949__1__11____300__300__0__0	max_left=147	max_left_minus=147	max_left_plus=147	max_min_left=1	max_min_left_minus=0	max_min_left_plus=1	max_min_right=64	max_min_right_minus=64	max_min_right_plus=64	max_pos_hash_score=562	max_right=203	max_right_minus=64	max_right_plus=203	neg_log10_pos_hash_p_value=9.1	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.821e-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=1.09	side_1_overlap=11	side_1_possible_overlap_registers=291	side_1_read_count=114	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=280	side_2_read_count=97	side_2_redundant=0	total_non_overlap_reads=3
JC	109	.	NC_000913	4295870	-1	NC_000913	4296434	1	0	alignment_overlap=39	coverage_minus=3	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=9.108e-02	junction_possible_overlap_registers=252	key=NC_000913__4295870__-1__NC_000913__4296395__1__39____300__300__0__0	max_left=111	max_left_minus=111	max_left_plus=111	max_min_left=42	max_min_left_minus=3	max_min_left_plus=42	max_min_right=58	max_min_right_minus=58	max_min_right_plus=58	max_pos_hash_score=506	max_right=197	max_right_minus=197	max_right_plus=197	neg_log10_pos_hash_p_value=7.4	new_junction_coverage=0.07	new_junction_read_count=6	polymorphism_frequency=9.108e-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=0.66	side_1_overlap=39	side_1_possible_overlap_registers=291	side_1_read_count=69	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.66	side_2_overlap=0	side_2_possible_overlap_registers=252	side_2_read_count=60	side_2_redundant=0	total_non_overlap_reads=6
JC	110	.	NC_000913	4542682	1	NC_000913	4542996	1	0	alignment_overlap=9	coverage_minus=3	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.802e-02	junction_possible_overlap_registers=282	key=NC_000913__4542682__1__NC_000913__4542987__1__9____300__300__0__0	max_left=236	max_left_minus=236	max_left_plus=211	max_min_left=77	max_min_left_minus=77	max_min_left_plus=47	max_min_right=134	max_min_right_minus=134	max_min_right_plus=80	max_pos_hash_score=566	max_right=244	max_right_minus=213	max_right_plus=244	neg_log10_pos_hash_p_value=8.0	new_junction_coverage=0.07	new_junction_read_count=7	polymorphism_frequency=5.802e-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=1.15	side_1_overlap=9	side_1_possible_overlap_registers=291	side_1_read_count=120	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.10	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=111	side_2_redundant=0	total_non_overlap_reads=6
JC	111	.	NC_000913	4542690	-1	NC_000913	4542986	-1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=10	flanking_left=300	flanking_right=300	frequency=9.370e-02	junction_possible_overlap_registers=282	key=NC_000913__4542690__-1__NC_000913__4542995__-1__9____300__300__0__0	max_left=229	max_left_minus=202	max_left_plus=229	max_min_left=126	max_min_left_minus=0	max_min_left_plus=126	max_min_right=129	max_min_right_minus=100	max_min_right_plus=129	max_pos_hash_score=566	max_right=171	max_right_minus=100	max_right_plus=171	neg_log10_pos_hash_p_value=6.3	new_junction_coverage=0.12	new_junction_read_count=12	polymorphism_frequency=9.370e-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=1.20	side_1_overlap=9	side_1_possible_overlap_registers=291	side_1_read_count=125	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.10	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=111	side_2_redundant=0	total_non_overlap_reads=12
JC	112	.	NC_000913	4565750	-1	NC_000913	4566046	1	0	alignment_overlap=11	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.520e-02	junction_possible_overlap_registers=280	key=NC_000913__4565750__-1__NC_000913__4566035__1__11____300__300__0__0	max_left=69	max_left_minus=68	max_left_plus=69	max_min_left=69	max_min_left_minus=68	max_min_left_plus=69	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=562	max_right=221	max_right_minus=217	max_right_plus=221	neg_log10_pos_hash_p_value=9.1	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.520e-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=1.24	side_1_overlap=11	side_1_possible_overlap_registers=291	side_1_read_count=129	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.08	side_2_overlap=0	side_2_possible_overlap_registers=280	side_2_read_count=108	side_2_redundant=0	total_non_overlap_reads=3
JC	113	.	NC_000913	4583269	-1	NC_000913	4586813	1	-81	alignment_overlap=-81	coverage_minus=34	coverage_plus=31	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=210	key=NC_000913__4583269__-1__NC_000913__4586813__1__-81__TGTAGGCTGGAGCTGCTTCGAAGTTCCTATACTTTCTAGAGAATAGGAACTTCGAACTGCAGGTCGACGGATCCCCGGAAT__300__300__0__0	max_left=213	max_left_minus=213	max_left_plus=199	max_min_left=97	max_min_left_minus=97	max_min_left_plus=89	max_min_right=107	max_min_right_minus=107	max_min_right_plus=98	max_pos_hash_score=422	max_right=217	max_right_minus=217	max_right_plus=212	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.86	new_junction_read_count=65	polymorphism_frequency=1.000e+00	pos_hash_score=37	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=291	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=291	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=65	unique_read_sequence=TGTAGGCTGGAGCTGCTTCGAAGTTCCTATACTTTCTAGAGAATAGGAACTTCGAACTGCAGGTCGACGGATCCCCGGAAT
JC	114	.	NC_000913	4606166	-1	NC_000913	4606403	1	0	alignment_overlap=89	coverage_minus=4	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=1.037e-01	junction_possible_overlap_registers=202	key=NC_000913__4606166__-1__NC_000913__4606314__1__89____300__300__0__0	max_left=136	max_left_minus=136	max_left_plus=116	max_min_left=70	max_min_left_minus=70	max_min_left_plus=39	max_min_right=95	max_min_right_minus=93	max_min_right_plus=95	max_pos_hash_score=406	max_right=203	max_right_minus=141	max_right_plus=203	neg_log10_pos_hash_p_value=5.0	new_junction_coverage=0.11	new_junction_read_count=8	polymorphism_frequency=1.037e-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=0.93	side_1_overlap=89	side_1_possible_overlap_registers=291	side_1_read_count=97	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=202	side_2_read_count=71	side_2_redundant=0	total_non_overlap_reads=8
UN	115	.	NC_000913	15650	15650
UN	116	.	NC_000913	15652	16482
UN	117	.	NC_000913	16485	16485
UN	118	.	NC_000913	16487	16490
UN	119	.	NC_000913	20078	20281
UN	120	.	NC_000913	224019	224487
UN	121	.	NC_000913	225164	225323
UN	122	.	NC_000913	227273	227273
UN	123	.	NC_000913	227276	228408
UN	124	.	NC_000913	257908	258683
UN	125	.	NC_000913	270795	271000
UN	126	.	NC_000913	274248	274869
UN	127	.	NC_000913	279424	279654
UN	128	.	NC_000913	290919	291129
UN	129	.	NC_000913	315504	315504
UN	130	.	NC_000913	315509	315510
UN	131	.	NC_000913	315512	316220
UN	132	.	NC_000913	316224	316224
UN	133	.	NC_000913	381526	382313
UN	134	.	NC_000913	391973	392687
UN	135	.	NC_000913	526097	526459
UN	136	.	NC_000913	567034	567034
UN	137	.	NC_000913	567038	567748
UN	138	.	NC_000913	567750	567750
UN	139	.	NC_000913	574869	575509
UN	140	.	NC_000913	608283	608283
UN	141	.	NC_000913	608285	608285
UN	142	.	NC_000913	608287	608288
UN	143	.	NC_000913	608291	609084
UN	144	.	NC_000913	688130	688785
UN	145	.	NC_000913	1094521	1094521
UN	146	.	NC_000913	1094528	1095233
UN	147	.	NC_000913	1095235	1095236
UN	148	.	NC_000913	1095238	1095238
UN	149	.	NC_000913	1095245	1095245
UN	150	.	NC_000913	1299499	1300697
UN	151	.	NC_000913	1396324	1396964
UN	152	.	NC_000913	1468165	1468967
UN	153	.	NC_000913	1469550	1470228
UN	154	.	NC_000913	1528562	1528562
UN	155	.	NC_000913	1528568	1528568
UN	156	.	NC_000913	1528571	1528571
UN	157	.	NC_000913	1528576	1528902
UN	158	.	NC_000913	1651118	1651118
UN	159	.	NC_000913	1651122	1651276
UN	160	.	NC_000913	1651281	1651281
UN	161	.	NC_000913	1978503	1979392
UN	162	.	NC_000913	2067010	2067010
UN	163	.	NC_000913	2067015	2067034
UN	164	.	NC_000913	2067044	2067044
UN	165	.	NC_000913	2067049	2067049
UN	166	.	NC_000913	2069196	2069197
UN	167	.	NC_000913	2069199	2069206
UN	168	.	NC_000913	2069208	2070005
UN	169	.	NC_000913	2070018	2070018
UN	170	.	NC_000913	2102023	2102659
UN	171	.	NC_000913	2170428	2170428
UN	172	.	NC_000913	2170445	2170446
UN	173	.	NC_000913	2170449	2171145
UN	174	.	NC_000913	2171148	2171148
UN	175	.	NC_000913	2289189	2289189
UN	176	.	NC_000913	2289191	2289827
UN	177	.	NC_000913	2514537	2514537
UN	178	.	NC_000913	2514547	2514547
UN	179	.	NC_000913	2514549	2515350
UN	180	.	NC_000913	2726336	2728990
UN	181	.	NC_000913	2729790	2729790
UN	182	.	NC_000913	2729794	2730708
UN	183	.	NC_000913	2996627	2997410
UN	184	.	NC_000913	2997412	2997412
UN	185	.	NC_000913	2997415	2997415
UN	186	.	NC_000913	2997418	2997418
UN	187	.	NC_000913	3130430	3130430
UN	188	.	NC_000913	3130432	3131070
UN	189	.	NC_000913	3131072	3131073
UN	190	.	NC_000913	3131076	3131077
UN	191	.	NC_000913	3186362	3187156
UN	192	.	NC_000913	3365836	3366470
UN	193	.	NC_000913	3423933	3424373
UN	194	.	NC_000913	3424898	3426586
UN	195	.	NC_000913	3426590	3426590
UN	196	.	NC_000913	3427216	3428292
UN	197	.	NC_000913	3583691	3583928
UN	198	.	NC_000913	3583932	3583932
UN	199	.	NC_000913	3619530	3620825
UN	200	.	NC_000913	3621308	3622023
UN	201	.	NC_000913	3622027	3622027
UN	202	.	NC_000913	3622029	3622031
UN	203	.	NC_000913	3622033	3622036
UN	204	.	NC_000913	3652310	3652950
UN	205	.	NC_000913	3652955	3652955
UN	206	.	NC_000913	3652958	3652959
UN	207	.	NC_000913	3762520	3763827
UN	208	.	NC_000913	3763829	3763833
UN	209	.	NC_000913	3764327	3765046
UN	210	.	NC_000913	3942320	3943136
UN	211	.	NC_000913	3944337	3945297
UN	212	.	NC_000913	4035445	4035471
UN	213	.	NC_000913	4035960	4035961
UN	214	.	NC_000913	4035965	4036843
UN	215	.	NC_000913	4038099	4038403
UN	216	.	NC_000913	4038980	4038980
UN	217	.	NC_000913	4038990	4039115
UN	218	.	NC_000913	4039675	4040363
UN	219	.	NC_000913	4040368	4040368
UN	220	.	NC_000913	4166573	4166580
UN	221	.	NC_000913	4166582	4166590
UN	222	.	NC_000913	4166592	4166599
UN	223	.	NC_000913	4166926	4166926
UN	224	.	NC_000913	4166931	4167956
UN	225	.	NC_000913	4168847	4171379
UN	226	.	NC_000913	4171382	4171382
UN	227	.	NC_000913	4176829	4176833
UN	228	.	NC_000913	4176836	4176838
UN	229	.	NC_000913	4176850	4176850
UN	230	.	NC_000913	4208395	4209475
UN	231	.	NC_000913	4210293	4210293
UN	232	.	NC_000913	4210295	4210295
UN	233	.	NC_000913	4210297	4210298
UN	234	.	NC_000913	4210304	4212852
UN	235	.	NC_000913	4212854	4212854
UN	236	.	NC_000913	4296191	4296191
UN	237	.	NC_000913	4498476	4499234
UN	238	.	NC_000913	4499239	4499239
UN	239	.	NC_000913	4499244	4499244
UN	240	.	NC_000913	4507747	4508417
UN	241	.	NC_000913	4508422	4508422
UN	242	.	NC_000913	4508425	4508425
UN	243	.	NC_000913	4583270	4586812