#=GENOME_DIFF	1.0
#=CREATED	04:06:59 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/ME9787_S45_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/ME9787_S45_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/ME9787_S45_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/ME9787_S45_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/ME9787_S45_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=CONVERTED-BASES	490623711
#=CONVERTED-READS	1660810
#=INPUT-BASES	490719563
#=INPUT-READS	1661138
#=MAPPED-BASES	474989735
#=MAPPED-READS	1608948
SNP	1	34	NC_000913	139113	G
DEL	2	113,123	NC_000913	257908	776
SNP	3	38	NC_000913	470131	T
SNP	4	39	NC_000913	557635	T
SNP	5	41	NC_000913	638047	T
MOB	6	124,125	NC_000913	848208	IS5	-1	4
MOB	7	128,129	NC_000913	949487	IS5	-1	4
MOB	8	127,141	NC_000913	1105376	IS2	-1	5
SNP	9	48	NC_000913	1337394	G
DEL	10	114,146	NC_000913	1397239	3340	mediated=IS5
SNP	11	58	NC_000913	1652331	C
SNP	12	59	NC_000913	1744309	G
DEL	13	115,149	NC_000913	1756291	1288
SNP	14	65	NC_000913	1964511	A
SNP	15	66	NC_000913	1964513	A
SNP	16	67	NC_000913	1992640	G
SNP	17	68	NC_000913	2032423	A
DEL	18	71,72	NC_000913	2173363	2
MOB	19	150,151	NC_000913	2406780	IS1	-1	8
DEL	20	117,155	NC_000913	2558699	6790
SNP	21	74	NC_000913	2667862	T
SNP	22	80	NC_000913	2867455	A
SNP	23	81	NC_000913	2899125	A
SNP	24	86	NC_000913	3035546	A
SNP	25	92	NC_000913	3486205	A
INS	26	93	NC_000913	3560455	G
DEL	27	119,165	NC_000913	3625589	95041
SNP	28	103	NC_000913	4218219	T
DEL	29	120,168	NC_000913	4284307	33
INS	30	107,108	NC_000913	4296381	GC
SNP	31	112	NC_000913	4549066	T
RA	32	.	NC_000913	58065	0	C	A	bias_e_value=0.000149452	bias_p_value=3.21979e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=207.7	fisher_strand_p_value=1.12938e-12	frequency=3.153e-01	ks_quality_p_value=1	major_base=C	major_cov=25/51	major_frequency=6.847e-01	minor_base=A	minor_cov=35/0	new_cov=35/0	polymorphism_frequency=3.153e-01	polymorphism_score=16.1	prediction=polymorphism	ref_cov=25/51	total_cov=60/51
RA	33	.	NC_000913	85651	0	G	T	bias_e_value=82.2428	bias_p_value=1.77184e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=194.2	fisher_strand_p_value=1.21164e-06	frequency=2.812e-01	ks_quality_p_value=1	major_base=G	major_cov=35/57	major_frequency=7.188e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=2.812e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=35/57	total_cov=35/93
RA	34	.	NC_000913	139113	0	A	G	consensus_score=332.6	frequency=1	major_base=G	major_cov=46/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=46/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/46
RA	35	.	NC_000913	141849	0	C	A	bias_e_value=0.0131311	bias_p_value=2.82897e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=243.9	fisher_strand_p_value=1.18589e-10	frequency=2.941e-01	ks_quality_p_value=1	major_base=C	major_cov=45/51	major_frequency=7.059e-01	minor_base=A	minor_cov=40/0	new_cov=40/0	polymorphism_frequency=2.941e-01	polymorphism_score=18.5	prediction=polymorphism	ref_cov=45/51	total_cov=85/52
RA	36	.	NC_000913	147802	0	C	A	bias_e_value=0.486005	bias_p_value=1.04705e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=171.3	fisher_strand_p_value=5.21663e-09	frequency=3.243e-01	ks_quality_p_value=1	major_base=C	major_cov=37/38	major_frequency=6.757e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=3.243e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=37/38	total_cov=73/38
RA	37	.	NC_000913	265217	0	C	A	bias_e_value=0.000327684	bias_p_value=7.05965e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=208.2	fisher_strand_p_value=2.54904e-12	frequency=3.158e-01	ks_quality_p_value=1	major_base=C	major_cov=28/50	major_frequency=6.842e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=3.158e-01	polymorphism_score=13.2	prediction=polymorphism	ref_cov=28/50	total_cov=64/50
RA	38	.	NC_000913	470131	0	C	T	consensus_score=232.5	frequency=1	major_base=T	major_cov=27/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=27/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/46
RA	39	.	NC_000913	557635	0	A	T	consensus_score=307.6	frequency=1	major_base=T	major_cov=56/33	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=56/33	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=56/33
RA	40	.	NC_000913	571586	0	G	T	bias_e_value=1.23721e-05	bias_p_value=2.66546e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=385.2	fisher_strand_p_value=8.57406e-14	frequency=2.138e-01	ks_quality_p_value=1	major_base=G	major_cov=83/42	major_frequency=7.862e-01	minor_base=T	minor_cov=0/34	new_cov=0/34	polymorphism_frequency=2.138e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=83/42	total_cov=83/76
RA	41	.	NC_000913	638047	0	C	T	bias_e_value=3805420	bias_p_value=0.819842	consensus_score=444.9	fisher_strand_p_value=0.463415	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=66/56	major_frequency=9.919e-01	minor_base=G	minor_cov=0/1	new_cov=66/56	polymorphism_frequency=9.919e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=66/57
RA	42	.	NC_000913	847955	0	G	A	bias_e_value=1.59128	bias_p_value=3.42827e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=91.0	fisher_strand_p_value=1.82151e-08	frequency=3.721e-01	ks_quality_p_value=1	major_base=G	major_cov=40/41	major_frequency=6.279e-01	minor_base=A	minor_cov=2/46	new_cov=2/46	polymorphism_frequency=3.721e-01	polymorphism_score=78.1	prediction=polymorphism	ref_cov=40/41	total_cov=42/87
RA	43	.	NC_000913	1015488	0	C	A	bias_e_value=0.0122421	bias_p_value=2.63744e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=251.8	fisher_strand_p_value=1.10222e-10	frequency=2.905e-01	ks_quality_p_value=1	major_base=C	major_cov=52/53	major_frequency=7.095e-01	minor_base=A	minor_cov=43/0	new_cov=43/0	polymorphism_frequency=2.905e-01	polymorphism_score=15.6	prediction=polymorphism	ref_cov=52/53	total_cov=95/53
RA	44	.	NC_000913	1125399	0	G	T	bias_e_value=0.241474	bias_p_value=5.20233e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=251.4	fisher_strand_p_value=2.50029e-09	frequency=2.681e-01	ks_quality_p_value=1	major_base=G	major_cov=50/51	major_frequency=7.319e-01	minor_base=T	minor_cov=0/37	new_cov=0/37	polymorphism_frequency=2.681e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=50/51	total_cov=50/88
RA	45	.	NC_000913	1246568	0	C	A	bias_e_value=51.1825	bias_p_value=1.10268e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=149.7	fisher_strand_p_value=7.28707e-07	frequency=2.529e-01	ks_quality_p_value=1	major_base=C	major_cov=29/36	major_frequency=7.471e-01	minor_base=A	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=2.529e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=29/36	total_cov=51/36
RA	46	.	NC_000913	1286831	0	T	A	bias_e_value=3521910	bias_p_value=0.758763	consensus_reject=FREQUENCY_CUTOFF	consensus_score=140.2	fisher_strand_p_value=0.583712	frequency=2.432e-01	ks_quality_p_value=0.670939	major_base=T	major_cov=22/34	major_frequency=7.568e-01	minor_base=A	minor_cov=9/9	new_cov=9/9	polymorphism_frequency=2.432e-01	polymorphism_score=60.7	prediction=polymorphism	ref_cov=22/34	total_cov=35/45
RA	47	.	NC_000913	1286870	0	C	A	bias_e_value=295266	bias_p_value=0.0636122	consensus_reject=FREQUENCY_CUTOFF	consensus_score=153.8	fisher_strand_p_value=0.0116705	frequency=2.466e-01	ks_quality_p_value=1	major_base=C	major_cov=17/38	major_frequency=7.534e-01	minor_base=A	minor_cov=12/6	new_cov=12/6	polymorphism_frequency=2.466e-01	polymorphism_score=13.9	prediction=polymorphism	ref_cov=17/38	total_cov=29/45
RA	48	.	NC_000913	1337394	0	A	G	bias_e_value=1792920	bias_p_value=0.386267	consensus_score=353.3	fisher_strand_p_value=0.125644	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=61/32	major_frequency=9.789e-01	minor_base=T	minor_cov=0/2	new_cov=61/32	polymorphism_frequency=9.789e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=61/34
RA	49	.	NC_000913	1427992	0	G	T	bias_e_value=3.08869e-07	bias_p_value=6.65428e-14	consensus_reject=FREQUENCY_CUTOFF	consensus_score=222.3	fisher_strand_p_value=1.90704e-15	frequency=3.485e-01	ks_quality_p_value=1	major_base=G	major_cov=56/30	major_frequency=6.515e-01	minor_base=T	minor_cov=0/46	new_cov=0/46	polymorphism_frequency=3.485e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=56/30	total_cov=56/76
RA	50	.	NC_000913	1466201	0	T	C	bias_e_value=3943310	bias_p_value=0.849549	consensus_reject=FREQUENCY_CUTOFF	consensus_score=294.6	fisher_strand_p_value=0.50432	frequency=2.097e-01	ks_quality_p_value=1	major_base=T	major_cov=40/58	major_frequency=7.903e-01	minor_base=C	minor_cov=13/13	new_cov=13/13	polymorphism_frequency=2.097e-01	polymorphism_score=38.8	prediction=polymorphism	ref_cov=40/58	total_cov=53/71
RA	51	.	NC_000913	1466210	0	G	A	bias_e_value=288762	bias_p_value=0.0622109	consensus_reject=FREQUENCY_CUTOFF	consensus_score=229.6	fisher_strand_p_value=0.0113566	frequency=2.562e-01	ks_quality_p_value=1	major_base=G	major_cov=31/59	major_frequency=7.438e-01	minor_base=A	minor_cov=19/12	new_cov=19/12	polymorphism_frequency=2.562e-01	polymorphism_score=66.0	prediction=polymorphism	ref_cov=31/59	total_cov=50/71
RA	52	.	NC_000913	1466270	0	C	T	bias_e_value=1181600	bias_p_value=0.254565	consensus_reject=FREQUENCY_CUTOFF	consensus_score=187.3	fisher_strand_p_value=0.0694058	frequency=2.174e-01	ks_quality_p_value=1	major_base=C	major_cov=25/47	major_frequency=7.826e-01	minor_base=T	minor_cov=12/8	new_cov=12/8	polymorphism_frequency=2.174e-01	polymorphism_score=37.1	prediction=polymorphism	ref_cov=25/47	total_cov=38/55
RA	53	.	NC_000913	1466432	0	A	G	bias_e_value=1887210	bias_p_value=0.406582	consensus_reject=FREQUENCY_CUTOFF	consensus_score=127.0	fisher_strand_p_value=0.135624	frequency=2.771e-01	ks_quality_p_value=1	major_base=A	major_cov=20/40	major_frequency=7.229e-01	minor_base=G	minor_cov=12/11	new_cov=12/11	polymorphism_frequency=2.771e-01	polymorphism_score=41.6	prediction=polymorphism	ref_cov=20/40	total_cov=34/52
RA	54	.	NC_000913	1466438	0	T	G	bias_e_value=3740500	bias_p_value=0.805855	consensus_reject=FREQUENCY_CUTOFF	consensus_score=125.3	fisher_strand_p_value=0.445676	frequency=2.442e-01	ks_quality_p_value=1	major_base=T	major_cov=24/41	major_frequency=7.558e-01	minor_base=G	minor_cov=10/11	new_cov=10/11	polymorphism_frequency=2.442e-01	polymorphism_score=45.0	prediction=polymorphism	ref_cov=24/41	total_cov=34/52
RA	55	.	NC_000913	1502770	0	T	C	bias_e_value=0.148232	bias_p_value=3.19352e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=170.7	fisher_strand_p_value=1.49796e-09	frequency=2.828e-01	ks_quality_p_value=1	major_base=T	major_cov=44/27	major_frequency=7.172e-01	minor_base=C	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=2.828e-01	polymorphism_score=25.7	prediction=polymorphism	ref_cov=44/27	total_cov=44/55
RA	56	.	NC_000913	1502772	0	G	A	bias_e_value=0.0530415	bias_p_value=1.14273e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=154.9	fisher_strand_p_value=5.10235e-10	frequency=2.887e-01	ks_quality_p_value=1	major_base=G	major_cov=44/25	major_frequency=7.113e-01	minor_base=A	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=2.887e-01	polymorphism_score=22.3	prediction=polymorphism	ref_cov=44/25	total_cov=44/53
RA	57	.	NC_000913	1580217	0	C	A	bias_e_value=0.000254833	bias_p_value=5.49013e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=356.8	fisher_strand_p_value=1.96384e-12	frequency=2.039e-01	ks_quality_p_value=1	major_base=C	major_cov=42/79	major_frequency=7.961e-01	minor_base=A	minor_cov=31/0	new_cov=31/0	polymorphism_frequency=2.039e-01	polymorphism_score=14.9	prediction=polymorphism	ref_cov=42/79	total_cov=73/79
RA	58	.	NC_000913	1652331	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_score=545.9	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=76/67	major_frequency=9.931e-01	minor_base=A	minor_cov=1/0	new_cov=76/67	polymorphism_frequency=9.931e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=77/67
RA	59	.	NC_000913	1744309	0	T	G	bias_e_value=3820040	bias_p_value=0.822991	consensus_score=268.1	fisher_strand_p_value=0.467532	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=41/35	major_frequency=9.870e-01	minor_base=A	minor_cov=0/1	new_cov=41/35	polymorphism_frequency=9.870e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/36
RA	60	.	NC_000913	1812509	0	G	T	bias_e_value=4.33275e-09	bias_p_value=9.33449e-16	consensus_reject=FREQUENCY_CUTOFF	consensus_score=310.2	fisher_strand_p_value=2.3765e-17	frequency=2.803e-01	ks_quality_p_value=1	major_base=G	major_cov=78/35	major_frequency=7.197e-01	minor_base=T	minor_cov=0/44	new_cov=0/44	polymorphism_frequency=2.803e-01	polymorphism_score=21.2	prediction=polymorphism	ref_cov=78/35	total_cov=78/79
RA	61	.	NC_000913	1823018	0	C	A	bias_e_value=0.0195863	bias_p_value=4.21968e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=147.3	fisher_strand_p_value=1.80037e-10	frequency=3.711e-01	ks_quality_p_value=1	major_base=C	major_cov=25/36	major_frequency=6.289e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=3.711e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=25/36	total_cov=61/36
RA	62	.	NC_000913	1902613	0	C	A	bias_e_value=1.6753e-06	bias_p_value=3.60927e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=228.3	fisher_strand_p_value=1.08873e-14	frequency=2.991e-01	ks_quality_p_value=1	major_base=C	major_cov=23/59	major_frequency=7.009e-01	minor_base=A	minor_cov=35/0	new_cov=35/0	polymorphism_frequency=2.991e-01	polymorphism_score=18.0	prediction=polymorphism	ref_cov=23/59	total_cov=58/59
RA	63	.	NC_000913	1902806	0	C	A	bias_e_value=0.971722	bias_p_value=2.09348e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=240.2	fisher_strand_p_value=1.08238e-08	frequency=2.269e-01	ks_quality_p_value=1	major_base=C	major_cov=39/53	major_frequency=7.731e-01	minor_base=A	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=2.269e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=39/53	total_cov=66/53
RA	64	.	NC_000913	1922815	0	C	A	bias_e_value=3.73284	bias_p_value=8.04204e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=215.8	fisher_strand_p_value=4.48792e-08	frequency=2.960e-01	ks_quality_p_value=1	major_base=C	major_cov=27/61	major_frequency=7.040e-01	minor_base=A	minor_cov=31/6	new_cov=31/6	polymorphism_frequency=2.960e-01	polymorphism_score=20.9	prediction=polymorphism	ref_cov=27/61	total_cov=58/67
RA	65	.	NC_000913	1964511	0	C	A	bias_e_value=4037370	bias_p_value=0.869814	consensus_score=257.0	fisher_strand_p_value=0.535284	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=52/30	major_frequency=9.762e-01	minor_base=C	minor_cov=2/0	new_cov=52/30	polymorphism_frequency=9.762e-01	polymorphism_score=NA	prediction=consensus	ref_cov=2/0	total_cov=54/30
RA	66	.	NC_000913	1964513	0	C	A	bias_e_value=4641650	bias_p_value=1	consensus_score=275.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=53/30	major_frequency=9.881e-01	minor_base=G	minor_cov=1/0	new_cov=53/30	polymorphism_frequency=9.881e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=54/30
RA	67	.	NC_000913	1992640	0	T	G	bias_e_value=4641650	bias_p_value=1	consensus_score=337.9	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=46/42	major_frequency=9.888e-01	minor_base=A	minor_cov=1/0	new_cov=46/42	polymorphism_frequency=9.888e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/42
RA	68	.	NC_000913	2032423	0	G	A	bias_e_value=2111120	bias_p_value=0.45482	consensus_score=323.2	fisher_strand_p_value=0.160878	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=34/53	major_frequency=9.775e-01	minor_base=C	minor_cov=2/0	new_cov=34/53	polymorphism_frequency=9.775e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=36/53
RA	69	.	NC_000913	2099484	0	G	T	bias_e_value=4.57319e-05	bias_p_value=9.8525e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=325.1	fisher_strand_p_value=3.31336e-13	frequency=2.450e-01	ks_quality_p_value=1	major_base=G	major_cov=72/42	major_frequency=7.550e-01	minor_base=T	minor_cov=0/37	new_cov=0/37	polymorphism_frequency=2.450e-01	polymorphism_score=13.4	prediction=polymorphism	ref_cov=72/42	total_cov=72/79
RA	70	.	NC_000913	2117652	0	G	T	bias_e_value=27.6181	bias_p_value=5.95007e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=209.6	fisher_strand_p_value=3.76787e-07	frequency=2.389e-01	ks_quality_p_value=1	major_base=G	major_cov=43/43	major_frequency=7.611e-01	minor_base=T	minor_cov=0/27	new_cov=0/27	polymorphism_frequency=2.389e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=43/43	total_cov=43/70
RA	71	.	NC_000913	2173363	0	C	.	consensus_score=433.7	frequency=1	major_base=.	major_cov=51/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/39
RA	72	.	NC_000913	2173364	0	C	.	consensus_score=433.7	frequency=1	major_base=.	major_cov=51/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/39
RA	73	.	NC_000913	2288418	0	G	T	bias_e_value=0.000418254	bias_p_value=9.01089e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=340.7	fisher_strand_p_value=3.2836e-12	frequency=2.349e-01	ks_quality_p_value=1	major_base=G	major_cov=72/55	major_frequency=7.651e-01	minor_base=T	minor_cov=0/39	new_cov=0/39	polymorphism_frequency=2.349e-01	polymorphism_score=17.5	prediction=polymorphism	ref_cov=72/55	total_cov=72/94
RA	74	.	NC_000913	2667862	0	G	T	consensus_score=375.6	frequency=1	major_base=T	major_cov=64/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=64/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=64/39
RA	75	.	NC_000913	2767443	0	C	A	bias_e_value=0.000347604	bias_p_value=7.48879e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=180.9	fisher_strand_p_value=2.70998e-12	frequency=2.967e-01	ks_quality_p_value=1	major_base=C	major_cov=16/48	major_frequency=7.033e-01	minor_base=A	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=2.967e-01	polymorphism_score=14.8	prediction=polymorphism	ref_cov=16/48	total_cov=43/48
RA	76	.	NC_000913	2767444	0	C	A	bias_e_value=0.00071567	bias_p_value=1.54184e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=171.6	fisher_strand_p_value=5.73508e-12	frequency=2.889e-01	ks_quality_p_value=1	major_base=C	major_cov=16/48	major_frequency=7.111e-01	minor_base=A	minor_cov=26/0	new_cov=26/0	polymorphism_frequency=2.889e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=16/48	total_cov=43/48
RA	77	.	NC_000913	2767445	0	C	A	bias_e_value=0.000994232	bias_p_value=2.14198e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=151.6	fisher_strand_p_value=8.06988e-12	frequency=3.333e-01	ks_quality_p_value=1	major_base=C	major_cov=13/45	major_frequency=6.667e-01	minor_base=A	minor_cov=28/1	new_cov=28/1	polymorphism_frequency=3.333e-01	polymorphism_score=20.7	prediction=polymorphism	ref_cov=13/45	total_cov=43/47
RA	78	.	NC_000913	2767447	0	C	A	bias_e_value=0.000163174	bias_p_value=3.51544e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=205.6	fisher_strand_p_value=1.23703e-12	frequency=3.093e-01	ks_quality_p_value=1	major_base=C	major_cov=15/52	major_frequency=6.907e-01	minor_base=A	minor_cov=29/1	new_cov=29/1	polymorphism_frequency=3.093e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=15/52	total_cov=45/53
RA	79	.	NC_000913	2815937	0	G	T	bias_e_value=0.0052155	bias_p_value=1.12363e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=251.8	fisher_strand_p_value=4.52743e-11	frequency=2.829e-01	ks_quality_p_value=1	major_base=G	major_cov=56/53	major_frequency=7.171e-01	minor_base=T	minor_cov=0/43	new_cov=0/43	polymorphism_frequency=2.829e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=56/53	total_cov=56/96
RA	80	.	NC_000913	2867455	0	G	A	bias_e_value=3641360	bias_p_value=0.784496	consensus_score=428.1	fisher_strand_p_value=0.420168	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=69/49	major_frequency=9.916e-01	minor_base=G	minor_cov=0/1	new_cov=69/49	polymorphism_frequency=9.916e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=69/50
RA	81	.	NC_000913	2899125	0	C	A	consensus_score=366.3	frequency=1	major_base=A	major_cov=59/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=59/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=59/43
RA	82	.	NC_000913	2913085	0	G	T	bias_e_value=0.0110365	bias_p_value=2.37771e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=181.4	fisher_strand_p_value=9.89199e-11	frequency=3.396e-01	ks_quality_p_value=1	major_base=G	major_cov=45/25	major_frequency=6.604e-01	minor_base=T	minor_cov=1/35	new_cov=1/35	polymorphism_frequency=3.396e-01	polymorphism_score=14.5	prediction=polymorphism	ref_cov=45/25	total_cov=47/60
RA	83	.	NC_000913	2990480	0	C	A	bias_e_value=0.000285244	bias_p_value=6.14532e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=256.2	fisher_strand_p_value=2.20743e-12	frequency=3.026e-01	ks_quality_p_value=1	major_base=C	major_cov=49/57	major_frequency=6.974e-01	minor_base=A	minor_cov=46/0	new_cov=46/0	polymorphism_frequency=3.026e-01	polymorphism_score=14.0	prediction=polymorphism	ref_cov=49/57	total_cov=95/57
RA	84	.	NC_000913	3024914	0	C	A	bias_e_value=5.81797e-08	bias_p_value=1.25343e-14	consensus_reject=FREQUENCY_CUTOFF	consensus_score=300.0	fisher_strand_p_value=3.42366e-16	frequency=2.628e-01	ks_quality_p_value=1	major_base=C	major_cov=27/74	major_frequency=7.372e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=2.628e-01	polymorphism_score=17.8	prediction=polymorphism	ref_cov=27/74	total_cov=63/74
RA	85	.	NC_000913	3032307	0	C	T	bias_e_value=0.000234108	bias_p_value=5.04363e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=223.9	fisher_strand_p_value=1.79846e-12	frequency=2.170e-01	ks_quality_p_value=1	major_base=C	major_cov=18/65	major_frequency=7.830e-01	minor_base=T	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=2.170e-01	polymorphism_score=21.2	prediction=polymorphism	ref_cov=18/65	total_cov=41/65
RA	86	.	NC_000913	3035546	0	T	A	consensus_score=314.5	frequency=1	major_base=A	major_cov=50/36	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=50/36	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=50/36
RA	87	.	NC_000913	3054886	0	G	T	bias_e_value=0.380646	bias_p_value=8.20066e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=237.7	fisher_strand_p_value=4.03407e-09	frequency=2.054e-01	ks_quality_p_value=1	major_base=G	major_cov=32/57	major_frequency=7.946e-01	minor_base=T	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=2.054e-01	polymorphism_score=15.5	prediction=polymorphism	ref_cov=32/57	total_cov=55/57
RA	88	.	NC_000913	3054894	0	G	T	bias_e_value=0.0260505	bias_p_value=5.61233e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=184.9	fisher_strand_p_value=2.4254e-10	frequency=2.451e-01	ks_quality_p_value=1	major_base=G	major_cov=20/57	major_frequency=7.549e-01	minor_base=T	minor_cov=24/1	new_cov=24/1	polymorphism_frequency=2.451e-01	polymorphism_score=14.4	prediction=polymorphism	ref_cov=20/57	total_cov=44/58
RA	89	.	NC_000913	3191376	0	G	T	bias_e_value=0.00904761	bias_p_value=1.94922e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=378.0	fisher_strand_p_value=8.04001e-11	frequency=2.251e-01	ks_quality_p_value=1	major_base=G	major_cov=71/77	major_frequency=7.749e-01	minor_base=T	minor_cov=0/43	new_cov=0/43	polymorphism_frequency=2.251e-01	polymorphism_score=18.1	prediction=polymorphism	ref_cov=71/77	total_cov=71/120
RA	90	.	NC_000913	3226224	0	G	T	bias_e_value=0.262788	bias_p_value=5.66152e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=150.1	fisher_strand_p_value=2.73266e-09	frequency=3.529e-01	ks_quality_p_value=1	major_base=G	major_cov=35/31	major_frequency=6.471e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=3.529e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=35/31	total_cov=35/67
RA	91	.	NC_000913	3426954	0	G	T	bias_e_value=3.91967	bias_p_value=8.44455e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=121.4	fisher_strand_p_value=4.72619e-08	frequency=3.291e-01	ks_quality_p_value=1	major_base=G	major_cov=32/21	major_frequency=6.709e-01	minor_base=T	minor_cov=0/26	new_cov=0/26	polymorphism_frequency=3.291e-01	polymorphism_score=14.7	prediction=polymorphism	ref_cov=32/21	total_cov=32/47
RA	92	.	NC_000913	3486205	0	C	A	consensus_score=343.1	frequency=1	major_base=A	major_cov=57/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=57/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=57/43
RA	93	.	NC_000913	3560455	1	.	G	bias_e_value=3917190	bias_p_value=0.843923	consensus_score=414.0	fisher_strand_p_value=0.496196	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=55/57	major_frequency=9.825e-01	minor_base=A	minor_cov=0/2	new_cov=55/57	polymorphism_frequency=9.825e-01	polymorphism_score=-5.7	prediction=consensus	ref_cov=0/1	total_cov=55/60
RA	94	.	NC_000913	3623537	0	G	A	bias_e_value=22.1537	bias_p_value=4.77281e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=242.5	fisher_strand_p_value=2.97801e-07	frequency=2.276e-01	ks_quality_p_value=1	major_base=G	major_cov=55/57	major_frequency=7.724e-01	minor_base=A	minor_cov=1/32	new_cov=1/32	polymorphism_frequency=2.276e-01	polymorphism_score=17.9	prediction=polymorphism	ref_cov=55/57	total_cov=56/94
RA	95	.	NC_000913	3741871	0	G	T	bias_e_value=0.00703571	bias_p_value=1.51578e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=233.7	fisher_strand_p_value=6.18526e-11	frequency=2.617e-01	ks_quality_p_value=1	major_base=G	major_cov=53/26	major_frequency=7.383e-01	minor_base=T	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=2.617e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=53/26	total_cov=53/54
RA	96	.	NC_000913	3768435	0	C	A	bias_e_value=2.2724e-11	bias_p_value=4.89567e-18	consensus_reject=FREQUENCY_CUTOFF	consensus_score=397.2	fisher_strand_p_value=1.09628e-19	frequency=2.623e-01	ks_quality_p_value=1	major_base=C	major_cov=41/94	major_frequency=7.377e-01	minor_base=A	minor_cov=48/0	new_cov=48/0	polymorphism_frequency=2.623e-01	polymorphism_score=14.6	prediction=polymorphism	ref_cov=41/94	total_cov=89/94
RA	97	.	NC_000913	3835989	0	C	A	bias_e_value=5.89729	bias_p_value=1.27052e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=316.1	fisher_strand_p_value=7.28734e-08	frequency=2.109e-01	ks_quality_p_value=1	major_base=C	major_cov=54/62	major_frequency=7.891e-01	minor_base=A	minor_cov=30/1	new_cov=30/1	polymorphism_frequency=2.109e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=54/62	total_cov=84/63
RA	98	.	NC_000913	3837367	0	G	T	bias_e_value=0.00800678	bias_p_value=1.72498e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=328.9	fisher_strand_p_value=7.07789e-11	frequency=2.027e-01	ks_quality_p_value=1	major_base=G	major_cov=72/46	major_frequency=7.973e-01	minor_base=T	minor_cov=0/30	new_cov=0/30	polymorphism_frequency=2.027e-01	polymorphism_score=12.9	prediction=polymorphism	ref_cov=72/46	total_cov=72/76
RA	99	.	NC_000913	3896780	0	C	A	bias_e_value=2.79167e-06	bias_p_value=6.01439e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=349.6	fisher_strand_p_value=1.84352e-14	frequency=2.420e-01	ks_quality_p_value=1	major_base=C	major_cov=36/83	major_frequency=7.580e-01	minor_base=A	minor_cov=37/1	new_cov=37/1	polymorphism_frequency=2.420e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=36/83	total_cov=73/84
RA	100	.	NC_000913	3911533	0	C	A	bias_e_value=5.32307e-06	bias_p_value=1.14681e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=230.8	fisher_strand_p_value=3.58842e-14	frequency=3.267e-01	ks_quality_p_value=1	major_base=C	major_cov=43/58	major_frequency=6.733e-01	minor_base=A	minor_cov=49/0	new_cov=49/0	polymorphism_frequency=3.267e-01	polymorphism_score=21.0	prediction=polymorphism	ref_cov=43/58	total_cov=92/58
RA	101	.	NC_000913	3926595	0	C	A	bias_e_value=5.42906	bias_p_value=1.16964e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=155.0	fisher_strand_p_value=6.67516e-08	frequency=2.683e-01	ks_quality_p_value=1	major_base=C	major_cov=22/38	major_frequency=7.317e-01	minor_base=A	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=2.683e-01	polymorphism_score=10.9	prediction=polymorphism	ref_cov=22/38	total_cov=44/38
RA	102	.	NC_000913	4065656	0	G	T	bias_e_value=0.00931969	bias_p_value=2.00784e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=271.8	fisher_strand_p_value=8.29237e-11	frequency=2.690e-01	ks_quality_p_value=1	major_base=G	major_cov=56/50	major_frequency=7.310e-01	minor_base=T	minor_cov=0/39	new_cov=0/39	polymorphism_frequency=2.690e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=56/50	total_cov=56/89
RA	103	.	NC_000913	4218219	0	C	T	bias_e_value=3834650	bias_p_value=0.82614	consensus_score=377.8	fisher_strand_p_value=0.471698	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=56/49	major_frequency=9.906e-01	minor_base=G	minor_cov=0/1	new_cov=56/49	polymorphism_frequency=9.906e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=56/51
RA	104	.	NC_000913	4296190	0	A	G	bias_e_value=2689670	bias_p_value=0.579464	consensus_reject=FREQUENCY_CUTOFF	consensus_score=49.1	fisher_strand_p_value=0.237874	frequency=2.424e-01	ks_quality_p_value=1	major_base=A	major_cov=9/16	major_frequency=7.576e-01	minor_base=G	minor_cov=5/3	new_cov=5/3	polymorphism_frequency=2.424e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=9/16	total_cov=14/19
RA	105	.	NC_000913	4296191	0	A	C	bias_e_value=1493720	bias_p_value=0.321807	consensus_reject=FREQUENCY_CUTOFF	consensus_score=36.6	fisher_strand_p_value=0.0963589	frequency=2.500e-01	ks_quality_p_value=1	major_base=A	major_cov=8/16	major_frequency=7.500e-01	minor_base=C	minor_cov=6/2	new_cov=6/2	polymorphism_frequency=2.500e-01	polymorphism_score=13.2	prediction=polymorphism	ref_cov=8/16	total_cov=14/19
RA	106	.	NC_000913	4296268	0	T	C	bias_e_value=3916350	bias_p_value=0.84374	consensus_reject=FREQUENCY_CUTOFF	consensus_score=96.7	fisher_strand_p_value=0.495937	frequency=2.308e-01	ks_quality_p_value=1	major_base=T	major_cov=28/12	major_frequency=7.692e-01	minor_base=C	minor_cov=7/5	new_cov=7/5	polymorphism_frequency=2.308e-01	polymorphism_score=21.3	prediction=polymorphism	ref_cov=28/12	total_cov=35/18
RA	107	.	NC_000913	4296380	1	.	C	bias_e_value=2885040	bias_p_value=0.621555	consensus_score=280.0	fisher_strand_p_value=0.268503	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=47/34	major_frequency=9.643e-01	minor_base=.	minor_cov=3/0	new_cov=47/34	polymorphism_frequency=9.643e-01	polymorphism_score=4.5	prediction=consensus	ref_cov=3/0	total_cov=50/36
RA	108	.	NC_000913	4296380	2	.	G	bias_e_value=2840540	bias_p_value=0.611968	consensus_score=294.4	fisher_strand_p_value=0.261286	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=47/36	major_frequency=9.651e-01	minor_base=.	minor_cov=3/0	new_cov=47/36	polymorphism_frequency=9.651e-01	polymorphism_score=1.9	prediction=consensus	ref_cov=3/0	total_cov=50/36
RA	109	.	NC_000913	4427822	0	C	A	bias_e_value=1.17796e-09	bias_p_value=2.53781e-16	consensus_reject=FREQUENCY_CUTOFF	consensus_score=245.1	fisher_strand_p_value=6.24857e-18	frequency=3.514e-01	ks_quality_p_value=1	major_base=C	major_cov=32/64	major_frequency=6.486e-01	minor_base=A	minor_cov=52/0	new_cov=52/0	polymorphism_frequency=3.514e-01	polymorphism_score=30.2	prediction=polymorphism	ref_cov=32/64	total_cov=84/64
RA	110	.	NC_000913	4523998	0	C	A	bias_e_value=9.84698	bias_p_value=2.12144e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=232.0	fisher_strand_p_value=1.25602e-07	frequency=2.677e-01	ks_quality_p_value=1	major_base=C	major_cov=41/52	major_frequency=7.323e-01	minor_base=A	minor_cov=32/2	new_cov=32/2	polymorphism_frequency=2.677e-01	polymorphism_score=12.7	prediction=polymorphism	ref_cov=41/52	total_cov=73/54
RA	111	.	NC_000913	4540411	0	C	A	bias_e_value=8.49562e-05	bias_p_value=1.8303e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=355.8	fisher_strand_p_value=6.29088e-13	frequency=2.602e-01	ks_quality_p_value=1	major_base=C	major_cov=73/72	major_frequency=7.398e-01	minor_base=A	minor_cov=51/0	new_cov=51/0	polymorphism_frequency=2.602e-01	polymorphism_score=11.5	prediction=polymorphism	ref_cov=73/72	total_cov=124/72
RA	112	.	NC_000913	4549066	0	G	T	consensus_score=366.4	frequency=1	major_base=T	major_cov=55/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=55/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=55/46
MC	113	.	NC_000913	257908	258683	768	0	left_inside_cov=0	left_outside_cov=111	right_inside_cov=2	right_outside_cov=113
MC	114	.	NC_000913	1396261	1400578	977	0	left_inside_cov=35	left_outside_cov=38	right_inside_cov=0	right_outside_cov=102
MC	115	.	NC_000913	1756291	1757578	0	0	left_inside_cov=0	left_outside_cov=86	right_inside_cov=7	right_outside_cov=93
MC	116	.	NC_000913	1978495	1979270	0	767	left_inside_cov=0	left_outside_cov=90	right_inside_cov=0	right_outside_cov=129
MC	117	.	NC_000913	2558699	2565488	0	0	left_inside_cov=0	left_outside_cov=78	right_inside_cov=2	right_outside_cov=80
MC	118	.	NC_000913	3423812	3424465	422	227	left_inside_cov=36	left_outside_cov=38	right_inside_cov=36	right_outside_cov=37
MC	119	.	NC_000913	3625589	3720629	0	0	left_inside_cov=0	left_outside_cov=98	right_inside_cov=3	right_outside_cov=100
MC	120	.	NC_000913	4284307	4284339	0	0	left_inside_cov=0	left_outside_cov=102	right_inside_cov=1	right_outside_cov=104
JC	121	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=88	coverage_plus=55	flanking_left=300	flanking_right=300	frequency=1	ignore=CIRCULAR_CHROMOSOME	junction_possible_overlap_registers=294	key=NC_000913__1__1__NC_000913__4641652__-1__0____300__300__0__0	max_left=297	max_left_minus=297	max_left_plus=248	max_min_left=149	max_min_left_minus=149	max_min_left_plus=144	max_min_right=147	max_min_right_minus=147	max_min_right_plus=134	max_pos_hash_score=588	max_right=289	max_right_minus=289	max_right_plus=289	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.39	new_junction_read_count=146	polymorphism_frequency=1.000e+00	pos_hash_score=77	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=143
JC	122	.	NC_000913	73430	-1	NC_000913	73791	1	0	alignment_overlap=10	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=4.123e-02	junction_possible_overlap_registers=284	key=NC_000913__73430__-1__NC_000913__73781__1__10____300__300__0__0	max_left=60	max_left_minus=60	max_left_plus=54	max_min_left=55	max_min_left_minus=55	max_min_left_plus=54	max_min_right=8	max_min_right_minus=8	max_min_right_plus=0	max_pos_hash_score=568	max_right=102	max_right_minus=102	max_right_plus=102	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=4.123e-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=0.70	side_1_overlap=10	side_1_possible_overlap_registers=294	side_1_read_count=73	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.68	side_2_overlap=0	side_2_possible_overlap_registers=284	side_2_read_count=69	side_2_redundant=0	total_non_overlap_reads=3
JC	123	.	NC_000913	257907	-1	NC_000913	258684	1	0	alignment_overlap=8	coverage_minus=47	coverage_plus=62	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=286	key=NC_000913__257907__-1__NC_000913__258676__1__8____300__300__0__0	max_left=291	max_left_minus=291	max_left_plus=282	max_min_left=139	max_min_left_minus=91	max_min_left_plus=139	max_min_right=144	max_min_right_minus=127	max_min_right_plus=144	max_pos_hash_score=572	max_right=291	max_right_minus=291	max_right_plus=267	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.09	new_junction_read_count=111	polymorphism_frequency=1.000e+00	pos_hash_score=66	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=286	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=109
JC	124	.	NC_000913	273955	1	NC_000913	848211	-1	0	alignment_overlap=0	coverage_minus=37	coverage_plus=45	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__273955__1__NC_000913__848211__-1__0____300__300__1__0	max_left=289	max_left_minus=273	max_left_plus=289	max_min_left=139	max_min_left_minus=112	max_min_left_plus=139	max_min_right=142	max_min_right_minus=142	max_min_right_plus=88	max_pos_hash_score=588	max_right=296	max_right_minus=296	max_right_plus=268	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.81	new_junction_read_count=85	polymorphism_frequency=1.000e+00	pos_hash_score=65	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=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=82
JC	125	.	NC_000913	275149	-1	NC_000913	848208	1	0	alignment_overlap=0	coverage_minus=64	coverage_plus=41	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__275149__-1__NC_000913__848208__1__0____300__300__1__0	max_left=289	max_left_minus=289	max_left_plus=285	max_min_left=147	max_min_left_minus=146	max_min_left_plus=147	max_min_right=145	max_min_right_minus=145	max_min_right_plus=126	max_pos_hash_score=588	max_right=293	max_right_minus=293	max_right_plus=292	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.01	new_junction_read_count=106	polymorphism_frequency=1.000e+00	pos_hash_score=68	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=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=105
JC	126	.	NC_000913	374939	-1	NC_000913	375344	1	0	alignment_overlap=17	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=4.359e-02	junction_possible_overlap_registers=277	key=NC_000913__374939__-1__NC_000913__375327__1__17____300__300__0__0	max_left=254	max_left_minus=254	max_left_plus=164	max_min_left=79	max_min_left_minus=79	max_min_left_plus=0	max_min_right=119	max_min_right_minus=27	max_min_right_plus=119	max_pos_hash_score=554	max_right=204	max_right_minus=204	max_right_plus=119	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=4.359e-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=0.55	side_1_overlap=17	side_1_possible_overlap_registers=294	side_1_read_count=58	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.78	side_2_overlap=0	side_2_possible_overlap_registers=277	side_2_read_count=77	side_2_redundant=0	total_non_overlap_reads=3
JC	127	.	NC_000913	381260	1	NC_000913	1105376	1	0	alignment_overlap=1	coverage_minus=45	coverage_plus=55	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__381260__1__NC_000913__1105375__1__1____300__300__1__0	max_left=296	max_left_minus=296	max_left_plus=296	max_min_left=146	max_min_left_minus=146	max_min_left_plus=133	max_min_right=147	max_min_right_minus=147	max_min_right_plus=130	max_pos_hash_score=586	max_right=295	max_right_minus=295	max_right_plus=254	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.99	new_junction_read_count=103	polymorphism_frequency=1.000e+00	pos_hash_score=54	prediction=consensus	read_count_offset=5	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=288	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=100
JC	128	.	NC_000913	687851	1	NC_000913	949490	-1	0	alignment_overlap=0	coverage_minus=63	coverage_plus=66	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__687851__1__NC_000913__949490__-1__0____300__300__1__0	max_left=294	max_left_minus=283	max_left_plus=294	max_min_left=138	max_min_left_minus=132	max_min_left_plus=138	max_min_right=138	max_min_right_minus=138	max_min_right_plus=137	max_pos_hash_score=588	max_right=298	max_right_minus=298	max_right_plus=292	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.25	new_junction_read_count=131	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=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=129
JC	129	.	NC_000913	689045	-1	NC_000913	949487	1	0	alignment_overlap=1	coverage_minus=69	coverage_plus=42	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__689045__-1__NC_000913__949486__1__1____300__300__1__0	max_left=294	max_left_minus=287	max_left_plus=294	max_min_left=145	max_min_left_minus=145	max_min_left_plus=130	max_min_right=149	max_min_right_minus=147	max_min_right_plus=149	max_pos_hash_score=586	max_right=298	max_right_minus=298	max_right_plus=287	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.08	new_junction_read_count=113	polymorphism_frequency=1.000e+00	pos_hash_score=74	prediction=consensus	read_count_offset=4	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=289	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=111
JC	130	.	NC_000913	696506	-1	NC_000913	697057	1	-45	alignment_overlap=-45	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.997e-02	junction_possible_overlap_registers=249	key=NC_000913__696506__-1__NC_000913__697057__1__-45__AAATTGGTTTTGAATTTGCCGAACATATTCGATACATTCAGAATT__300__300__0__0	max_left=140	max_left_minus=71	max_left_plus=140	max_min_left=71	max_min_left_minus=71	max_min_left_plus=71	max_min_right=65	max_min_right_minus=0	max_min_right_plus=65	max_pos_hash_score=498	max_right=133	max_right_minus=105	max_right_plus=133	neg_log10_pos_hash_p_value=8.2	new_junction_coverage=0.07	new_junction_read_count=6	polymorphism_frequency=7.997e-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=0.89	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=93	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.67	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=70	side_2_redundant=0	total_non_overlap_reads=5	unique_read_sequence=AAATTGGTTTTGAATTTGCCGAACATATTCGATACATTCAGAATT
JC	131	.	NC_000913	696578	-1	NC_000913	696793	1	0	alignment_overlap=10	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.504e-02	junction_possible_overlap_registers=284	key=NC_000913__696578__-1__NC_000913__696783__1__10____300__300__0__0	max_left=148	max_left_minus=148	max_left_plus=119	max_min_left=119	max_min_left_minus=71	max_min_left_plus=119	max_min_right=141	max_min_right_minus=141	max_min_right_plus=0	max_pos_hash_score=568	max_right=225	max_right_minus=219	max_right_plus=225	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=7.504e-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=0.87	side_1_overlap=10	side_1_possible_overlap_registers=294	side_1_read_count=91	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.59	side_2_overlap=0	side_2_possible_overlap_registers=284	side_2_read_count=60	side_2_redundant=0	total_non_overlap_reads=5
JC	132	.	NC_000913	780918	-1	NC_000913	781809	1	0	alignment_overlap=18	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.442e-02	junction_possible_overlap_registers=276	key=NC_000913__780918__-1__NC_000913__781791__1__18____300__300__0__0	max_left=107	max_left_minus=107	max_left_plus=55	max_min_left=55	max_min_left_minus=55	max_min_left_plus=55	max_min_right=2	max_min_right_minus=2	max_min_right_plus=0	max_pos_hash_score=552	max_right=149	max_right_minus=149	max_right_plus=149	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.442e-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=0.57	side_1_overlap=18	side_1_possible_overlap_registers=294	side_1_read_count=60	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.14	side_2_overlap=0	side_2_possible_overlap_registers=276	side_2_read_count=112	side_2_redundant=0	total_non_overlap_reads=3
JC	133	.	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=3.985e-02	junction_possible_overlap_registers=276	key=NC_000913__781222__-1__NC_000913__781791__1__18____300__300__0__0	max_left=167	max_left_minus=167	max_left_plus=55	max_min_left=55	max_min_left_minus=55	max_min_left_plus=55	max_min_right=2	max_min_right_minus=2	max_min_right_plus=0	max_pos_hash_score=552	max_right=149	max_right_minus=149	max_right_plus=149	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.985e-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=0.82	side_1_overlap=18	side_1_possible_overlap_registers=294	side_1_read_count=86	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.14	side_2_overlap=0	side_2_possible_overlap_registers=276	side_2_read_count=112	side_2_redundant=0	total_non_overlap_reads=3
JC	134	.	NC_000913	781322	-1	NC_000913	781811	1	0	alignment_overlap=39	coverage_minus=3	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=7.390e-02	junction_possible_overlap_registers=255	key=NC_000913__781322__-1__NC_000913__781772__1__39____300__300__0__0	max_left=69	max_left_minus=69	max_left_plus=69	max_min_left=69	max_min_left_minus=69	max_min_left_plus=69	max_min_right=7	max_min_right_minus=7	max_min_right_plus=7	max_pos_hash_score=510	max_right=219	max_right_minus=88	max_right_plus=219	neg_log10_pos_hash_p_value=7.8	new_junction_coverage=0.07	new_junction_read_count=6	polymorphism_frequency=7.390e-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=0.62	side_1_overlap=39	side_1_possible_overlap_registers=294	side_1_read_count=65	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=255	side_2_read_count=94	side_2_redundant=0	total_non_overlap_reads=6
JC	135	.	NC_000913	781369	1	NC_000913	2521006	-1	-3	alignment_overlap=-3	coverage_minus=4	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=9.236e-02	junction_possible_overlap_registers=291	key=NC_000913__781369__1__NC_000913__2521006__-1__-3__GAG__300__300__0__0	max_left=192	max_left_minus=192	max_left_plus=192	max_min_left=32	max_min_left_minus=32	max_min_left_plus=0	max_min_right=62	max_min_right_minus=62	max_min_right_plus=62	max_pos_hash_score=582	max_right=109	max_right_minus=109	max_right_plus=62	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.07	new_junction_read_count=7	polymorphism_frequency=9.236e-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=0.54	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=57	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.78	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=82	side_2_redundant=0	total_non_overlap_reads=6	unique_read_sequence=GAG
JC	136	.	NC_000913	781369	1	NC_000913	2521128	-1	-1	alignment_overlap=-1	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=8.917e-02	junction_possible_overlap_registers=293	key=NC_000913__781369__1__NC_000913__2521128__-1__-1__G__300__300__0__0	max_left=192	max_left_minus=192	max_left_plus=192	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=64	max_min_right_minus=64	max_min_right_plus=64	max_pos_hash_score=586	max_right=64	max_right_minus=64	max_right_plus=64	neg_log10_pos_hash_p_value=9.2	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=8.917e-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=0.54	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=57	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.63	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=66	side_2_redundant=0	total_non_overlap_reads=5	unique_read_sequence=G
JC	137	.	NC_000913	781446	-1	NC_000913	781655	1	0	alignment_overlap=78	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=6.643e-02	junction_possible_overlap_registers=216	key=NC_000913__781446__-1__NC_000913__781577__1__78____300__300__0__0	max_left=202	max_left_minus=66	max_left_plus=202	max_min_left=66	max_min_left_minus=66	max_min_left_plus=66	max_min_right=20	max_min_right_minus=0	max_min_right_plus=20	max_pos_hash_score=432	max_right=174	max_right_minus=174	max_right_plus=74	neg_log10_pos_hash_p_value=7.4	new_junction_coverage=0.05	new_junction_read_count=4	polymorphism_frequency=6.643e-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=78	side_1_possible_overlap_registers=294	side_1_read_count=70	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=216	side_2_read_count=61	side_2_redundant=0	total_non_overlap_reads=4
JC	138	.	NC_000913	781446	-1	NC_000913	781811	1	0	alignment_overlap=20	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.274e-02	junction_possible_overlap_registers=274	key=NC_000913__781446__-1__NC_000913__781791__1__20____300__300__0__0	max_left=260	max_left_minus=55	max_left_plus=260	max_min_left=55	max_min_left_minus=55	max_min_left_plus=55	max_min_right=20	max_min_right_minus=0	max_min_right_plus=20	max_pos_hash_score=548	max_right=147	max_right_minus=147	max_right_plus=147	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.274e-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=20	side_1_possible_overlap_registers=294	side_1_read_count=70	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.15	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=112	side_2_redundant=0	total_non_overlap_reads=3
JC	139	.	NC_000913	781577	1	NC_000913	2521129	-1	-1	alignment_overlap=-1	coverage_minus=4	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=1.042e-01	junction_possible_overlap_registers=293	key=NC_000913__781577__1__NC_000913__2521129__-1__-1__G__300__300__0__0	max_left=192	max_left_minus=192	max_left_plus=179	max_min_left=34	max_min_left_minus=24	max_min_left_plus=34	max_min_right=120	max_min_right_minus=107	max_min_right_plus=120	max_pos_hash_score=586	max_right=213	max_right_minus=107	max_right_plus=213	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.08	new_junction_read_count=8	polymorphism_frequency=1.042e-01	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.69	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=72	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.63	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=66	side_2_redundant=0	total_non_overlap_reads=7	unique_read_sequence=G
JC	140	.	NC_000913	781688	-1	NC_000913	781845	1	0	alignment_overlap=54	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.542e-02	junction_possible_overlap_registers=240	key=NC_000913__781688__-1__NC_000913__781791__1__54____300__300__0__0	max_left=174	max_left_minus=55	max_left_plus=174	max_min_left=55	max_min_left_minus=55	max_min_left_plus=55	max_min_right=71	max_min_right_minus=0	max_min_right_plus=71	max_pos_hash_score=480	max_right=113	max_right_minus=113	max_right_plus=113	neg_log10_pos_hash_p_value=8.7	new_junction_coverage=0.04	new_junction_read_count=3	polymorphism_frequency=3.542e-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=0.81	side_1_overlap=54	side_1_possible_overlap_registers=294	side_1_read_count=85	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.10	side_2_overlap=0	side_2_possible_overlap_registers=240	side_2_read_count=94	side_2_redundant=0	total_non_overlap_reads=3
JC	141	.	NC_000913	1105380	-1	NC_000913	1467910	1	0	alignment_overlap=0	coverage_minus=34	coverage_plus=68	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1105380__-1__NC_000913__1467910__1__0____300__300__0__1	max_left=300	max_left_minus=300	max_left_plus=296	max_min_left=149	max_min_left_minus=134	max_min_left_plus=149	max_min_right=150	max_min_right_minus=150	max_min_right_plus=149	max_pos_hash_score=588	max_right=294	max_right_minus=294	max_right_plus=271	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.99	new_junction_read_count=104	polymorphism_frequency=1.000e+00	pos_hash_score=66	prediction=consensus	read_count_offset=5	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=289	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=102
JC	142	.	NC_000913	1207790	1	NC_000913	1209619	1	0	alignment_overlap=16	coverage_minus=33	coverage_plus=20	flanking_left=300	flanking_right=300	frequency=4.544e-01	junction_possible_overlap_registers=278	key=NC_000913__1207790__1__NC_000913__1209603__1__16____300__300__0__0	max_left=271	max_left_minus=271	max_left_plus=236	max_min_left=139	max_min_left_minus=119	max_min_left_plus=139	max_min_right=140	max_min_right_minus=136	max_min_right_plus=140	max_pos_hash_score=556	max_right=280	max_right_minus=254	max_right_plus=280	neg_log10_pos_hash_p_value=1.0	new_junction_coverage=0.53	new_junction_read_count=53	polymorphism_frequency=4.544e-01	pos_hash_score=41	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.65	side_1_overlap=16	side_1_possible_overlap_registers=294	side_1_read_count=68	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=278	side_2_read_count=63	side_2_redundant=0	total_non_overlap_reads=53
JC	143	.	NC_000913	1207805	-1	NC_000913	1209602	-1	0	alignment_overlap=16	coverage_minus=17	coverage_plus=16	flanking_left=300	flanking_right=300	frequency=3.582e-01	junction_possible_overlap_registers=278	key=NC_000913__1207805__-1__NC_000913__1209618__-1__16____300__300__0__0	max_left=282	max_left_minus=282	max_left_plus=271	max_min_left=141	max_min_left_minus=141	max_min_left_plus=135	max_min_right=123	max_min_right_minus=99	max_min_right_plus=123	max_pos_hash_score=556	max_right=274	max_right_minus=262	max_right_plus=274	neg_log10_pos_hash_p_value=2.7	new_junction_coverage=0.35	new_junction_read_count=35	polymorphism_frequency=3.582e-01	pos_hash_score=25	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.63	side_1_overlap=16	side_1_possible_overlap_registers=294	side_1_read_count=66	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=278	side_2_read_count=63	side_2_redundant=0	total_non_overlap_reads=33
JC	144	.	NC_000913	1286906	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=3	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=1.255e-01	junction_possible_overlap_registers=274	key=NC_000913__1286906__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=266	max_left_minus=266	max_left_plus=243	max_min_left=127	max_min_left_minus=0	max_min_left_plus=127	max_min_right=34	max_min_right_minus=27	max_min_right_plus=34	max_pos_hash_score=548	max_right=276	max_right_minus=27	max_right_plus=276	neg_log10_pos_hash_p_value=7.7	new_junction_coverage=0.07	new_junction_read_count=7	polymorphism_frequency=1.255e-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=20	side_1_possible_overlap_registers=294	side_1_read_count=65	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.38	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=37	side_2_redundant=0	total_non_overlap_reads=6
JC	145	.	NC_000913	1287084	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=6	coverage_plus=7	flanking_left=300	flanking_right=300	frequency=2.033e-01	junction_possible_overlap_registers=274	key=NC_000913__1287084__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=271	max_left_minus=271	max_left_plus=161	max_min_left=135	max_min_left_minus=49	max_min_left_plus=135	max_min_right=119	max_min_right_minus=109	max_min_right_plus=119	max_pos_hash_score=548	max_right=276	max_right_minus=230	max_right_plus=276	neg_log10_pos_hash_p_value=5.7	new_junction_coverage=0.14	new_junction_read_count=14	polymorphism_frequency=2.033e-01	pos_hash_score=11	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.74	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=78	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.38	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=37	side_2_redundant=0	total_non_overlap_reads=13
JC	146	.	NC_000913	1397238	-1	NC_000913	1400579	1	0	alignment_overlap=1	coverage_minus=53	coverage_plus=49	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__1397238__-1__NC_000913__1400578__1__1____300__300__1__0	max_left=292	max_left_minus=285	max_left_plus=292	max_min_left=145	max_min_left_minus=145	max_min_left_plus=137	max_min_right=147	max_min_right_minus=132	max_min_right_plus=147	max_pos_hash_score=586	max_right=295	max_right_minus=286	max_right_plus=295	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.98	new_junction_read_count=102	polymorphism_frequency=1.000e+00	pos_hash_score=57	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=293	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=102
JC	147	.	NC_000913	1397238	-1	NC_000913	1978494	-1	0	alignment_overlap=0	coverage_minus=47	coverage_plus=43	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1397238__-1__NC_000913__1978494__-1__0____300__300__1__0	max_left=283	max_left_minus=283	max_left_plus=272	max_min_left=142	max_min_left_minus=141	max_min_left_plus=142	max_min_right=138	max_min_right_minus=138	max_min_right_plus=133	max_pos_hash_score=588	max_right=297	max_right_minus=297	max_right_plus=285	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.86	new_junction_read_count=90	polymorphism_frequency=1.000e+00	pos_hash_score=60	prediction=consensus	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=90
JC	148	.	NC_000913	1411899	1	NC_000913	1434958	-1	0	alignment_overlap=26	coverage_minus=4	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.660e-02	junction_possible_overlap_registers=268	key=NC_000913__1411899__1__NC_000913__1434984__-1__26____300__300__0__0	max_left=240	max_left_minus=240	max_left_plus=26	max_min_left=85	max_min_left_minus=85	max_min_left_plus=26	max_min_right=121	max_min_right_minus=121	max_min_right_plus=0	max_pos_hash_score=536	max_right=256	max_right_minus=234	max_right_plus=256	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.08	new_junction_read_count=8	polymorphism_frequency=5.660e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.33	side_1_overlap=26	side_1_possible_overlap_registers=294	side_1_read_count=139	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.46	side_2_overlap=0	side_2_possible_overlap_registers=268	side_2_read_count=140	side_2_redundant=0	total_non_overlap_reads=7
JC	149	.	NC_000913	1756290	-1	NC_000913	1757579	1	0	alignment_overlap=6	coverage_minus=47	coverage_plus=38	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=288	key=NC_000913__1756290__-1__NC_000913__1757573__1__6____300__300__0__0	max_left=282	max_left_minus=282	max_left_plus=272	max_min_left=146	max_min_left_minus=126	max_min_left_plus=146	max_min_right=147	max_min_right_minus=147	max_min_right_plus=116	max_pos_hash_score=576	max_right=281	max_right_minus=281	max_right_plus=277	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.84	new_junction_read_count=86	polymorphism_frequency=1.000e+00	pos_hash_score=54	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=6	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=288	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=85
JC	150	.	NC_000913	1978503	1	NC_000913	2406787	-1	0	alignment_overlap=1	coverage_minus=57	coverage_plus=48	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__1978503__1__NC_000913__2406788__-1__1____300__300__1__0	max_left=286	max_left_minus=286	max_left_plus=281	max_min_left=147	max_min_left_minus=138	max_min_left_plus=147	max_min_right=138	max_min_right_minus=138	max_min_right_plus=129	max_pos_hash_score=586	max_right=297	max_right_minus=292	max_right_plus=297	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.03	new_junction_read_count=108	polymorphism_frequency=1.000e+00	pos_hash_score=64	prediction=consensus	read_count_offset=8	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=285	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=105
JC	151	.	NC_000913	1979270	-1	NC_000913	2406780	1	0	alignment_overlap=0	coverage_minus=55	coverage_plus=53	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1979270__-1__NC_000913__2406780__1__0____300__300__1__0	max_left=291	max_left_minus=291	max_left_plus=277	max_min_left=147	max_min_left_minus=142	max_min_left_plus=147	max_min_right=147	max_min_right_minus=147	max_min_right_plus=146	max_pos_hash_score=588	max_right=298	max_right_minus=298	max_right_plus=292	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.04	new_junction_read_count=109	polymorphism_frequency=1.000e+00	pos_hash_score=72	prediction=consensus	read_count_offset=8	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=286	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=108
JC	152	.	NC_000913	1979271	1	NC_000913	2102947	-1	0	alignment_overlap=0	coverage_minus=54	coverage_plus=68	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1979271__1__NC_000913__2102947__-1__0____300__300__0__1	max_left=299	max_left_minus=294	max_left_plus=299	max_min_left=145	max_min_left_minus=143	max_min_left_plus=145	max_min_right=145	max_min_right_minus=145	max_min_right_plus=145	max_pos_hash_score=588	max_right=299	max_right_minus=299	max_right_plus=292	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.23	new_junction_read_count=129	polymorphism_frequency=1.000e+00	pos_hash_score=66	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=122
JC	153	.	NC_000913	2347200	-1	NC_000913	2347288	1	0	alignment_overlap=26	coverage_minus=1	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.681e-02	junction_possible_overlap_registers=268	key=NC_000913__2347200__-1__NC_000913__2347262__1__26____300__300__0__0	max_left=167	max_left_minus=131	max_left_plus=167	max_min_left=131	max_min_left_minus=131	max_min_left_plus=114	max_min_right=108	max_min_right_minus=0	max_min_right_plus=108	max_pos_hash_score=536	max_right=214	max_right_minus=143	max_right_plus=214	neg_log10_pos_hash_p_value=8.7	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=5.681e-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=26	side_1_possible_overlap_registers=294	side_1_read_count=70	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.72	side_2_overlap=0	side_2_possible_overlap_registers=268	side_2_read_count=69	side_2_redundant=0	total_non_overlap_reads=4
JC	154	.	NC_000913	2357730	-1	NC_000913	2357926	1	0	alignment_overlap=40	coverage_minus=5	coverage_plus=7	flanking_left=300	flanking_right=300	frequency=1.149e-01	junction_possible_overlap_registers=254	key=NC_000913__2357730__-1__NC_000913__2357886__1__40____300__300__0__0	max_left=215	max_left_minus=191	max_left_plus=215	max_min_left=84	max_min_left_minus=84	max_min_left_plus=61	max_min_right=123	max_min_right_minus=123	max_min_right_plus=118	max_pos_hash_score=508	max_right=240	max_right_minus=181	max_right_plus=240	neg_log10_pos_hash_p_value=5.0	new_junction_coverage=0.13	new_junction_read_count=12	polymorphism_frequency=1.149e-01	pos_hash_score=12	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=40	side_1_possible_overlap_registers=294	side_1_read_count=119	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.91	side_2_overlap=0	side_2_possible_overlap_registers=254	side_2_read_count=82	side_2_redundant=0	total_non_overlap_reads=12
JC	155	.	NC_000913	2558698	-1	NC_000913	2565489	1	0	alignment_overlap=8	coverage_minus=42	coverage_plus=36	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=286	key=NC_000913__2558698__-1__NC_000913__2565481__1__8____300__300__0__0	max_left=269	max_left_minus=269	max_left_plus=256	max_min_left=141	max_min_left_minus=138	max_min_left_plus=141	max_min_right=139	max_min_right_minus=137	max_min_right_plus=139	max_pos_hash_score=572	max_right=290	max_right_minus=290	max_right_plus=281	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.76	new_junction_read_count=78	polymorphism_frequency=1.000e+00	pos_hash_score=50	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=286	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=78
JC	156	.	NC_000913	2653419	-1	NC_000913	2653746	1	0	alignment_overlap=25	coverage_minus=4	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=7.556e-02	junction_possible_overlap_registers=269	key=NC_000913__2653419__-1__NC_000913__2653721__1__25____300__300__0__0	max_left=218	max_left_minus=218	max_left_plus=180	max_min_left=112	max_min_left_minus=112	max_min_left_plus=112	max_min_right=106	max_min_right_minus=57	max_min_right_plus=106	max_pos_hash_score=538	max_right=151	max_right_minus=151	max_right_plus=151	neg_log10_pos_hash_p_value=6.7	new_junction_coverage=0.08	new_junction_read_count=8	polymorphism_frequency=7.556e-02	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.93	side_1_overlap=25	side_1_possible_overlap_registers=294	side_1_read_count=97	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=269	side_2_read_count=107	side_2_redundant=0	total_non_overlap_reads=8
JC	157	.	NC_000913	2856063	-1	NC_000913	2856352	1	0	alignment_overlap=10	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.620e-02	junction_possible_overlap_registers=284	key=NC_000913__2856063__-1__NC_000913__2856342__1__10____300__300__0__0	max_left=223	max_left_minus=223	max_left_plus=223	max_min_left=105	max_min_left_minus=105	max_min_left_plus=78	max_min_right=20	max_min_right_minus=20	max_min_right_plus=20	max_pos_hash_score=568	max_right=209	max_right_minus=184	max_right_plus=209	neg_log10_pos_hash_p_value=9.0	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=4.620e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.79	side_1_overlap=10	side_1_possible_overlap_registers=294	side_1_read_count=83	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.84	side_2_overlap=0	side_2_possible_overlap_registers=284	side_2_read_count=85	side_2_redundant=0	total_non_overlap_reads=4
JC	158	.	NC_000913	2878126	-1	NC_000913	2878374	1	0	alignment_overlap=4	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.262e-02	junction_possible_overlap_registers=290	key=NC_000913__2878126__-1__NC_000913__2878370__1__4____300__300__0__0	max_left=191	max_left_minus=191	max_left_plus=132	max_min_left=132	max_min_left_minus=0	max_min_left_plus=132	max_min_right=105	max_min_right_minus=105	max_min_right_plus=0	max_pos_hash_score=580	max_right=237	max_right_minus=105	max_right_plus=237	neg_log10_pos_hash_p_value=9.8	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.262e-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=0.73	side_1_overlap=4	side_1_possible_overlap_registers=294	side_1_read_count=77	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=290	side_2_read_count=102	side_2_redundant=0	total_non_overlap_reads=3
JC	159	.	NC_000913	3270072	1	NC_000913	3639193	1	-10	alignment_overlap=-10	coverage_minus=6	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=1.605e-01	junction_possible_overlap_registers=284	key=NC_000913__3270072__1__NC_000913__3639193__1__-10__CAGATTGTTG__300__300__0__0	max_left=256	max_left_minus=256	max_left_plus=0	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=54	max_min_right_minus=54	max_min_right_plus=0	max_pos_hash_score=568	max_right=54	max_right_minus=54	max_right_plus=0	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=1.605e-01	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.62	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=65	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=6	unique_read_sequence=CAGATTGTTG
JC	160	.	NC_000913	3270072	1	NC_000913	4137788	1	-25	alignment_overlap=-25	coverage_minus=4	coverage_plus=0	flanking_left=300	flanking_right=300	frequency=5.800e-02	junction_possible_overlap_registers=269	key=NC_000913__3270072__1__NC_000913__4137788__1__-25__CAGATTGTTGAGTGCGCTTTATTCA__300__300__0__0	max_left=256	max_left_minus=256	max_left_plus=0	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=39	max_min_right_minus=39	max_min_right_plus=0	max_pos_hash_score=538	max_right=39	max_right_minus=39	max_right_plus=0	neg_log10_pos_hash_p_value=9.3	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=5.800e-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=0	side_1_possible_overlap_registers=294	side_1_read_count=65	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=294	side_2_read_count=77	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=CAGATTGTTGAGTGCGCTTTATTCA
JC	161	.	NC_000913	3386957	-1	NC_000913	3387502	1	0	alignment_overlap=6	coverage_minus=1	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=3.686e-02	junction_possible_overlap_registers=288	key=NC_000913__3386957__-1__NC_000913__3387496__1__6____300__300__0__0	max_left=71	max_left_minus=71	max_left_plus=71	max_min_left=19	max_min_left_minus=0	max_min_left_plus=19	max_min_right=42	max_min_right_minus=42	max_min_right_plus=42	max_pos_hash_score=576	max_right=49	max_right_minus=42	max_right_plus=49	neg_log10_pos_hash_p_value=9.8	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.686e-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=0.93	side_1_overlap=6	side_1_possible_overlap_registers=294	side_1_read_count=97	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.11	side_2_overlap=0	side_2_possible_overlap_registers=288	side_2_read_count=114	side_2_redundant=0	total_non_overlap_reads=4
JC	162	.	NC_000913	3392102	-1	NC_000913	3392377	1	0	alignment_overlap=33	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.918e-02	junction_possible_overlap_registers=261	key=NC_000913__3392102__-1__NC_000913__3392344__1__33____300__300__0__0	max_left=165	max_left_minus=165	max_left_plus=121	max_min_left=121	max_min_left_minus=0	max_min_left_plus=121	max_min_right=101	max_min_right_minus=101	max_min_right_plus=0	max_pos_hash_score=522	max_right=142	max_right_minus=101	max_right_plus=142	neg_log10_pos_hash_p_value=9.2	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.918e-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=0.84	side_1_overlap=33	side_1_possible_overlap_registers=294	side_1_read_count=88	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.74	side_2_overlap=0	side_2_possible_overlap_registers=261	side_2_read_count=69	side_2_redundant=0	total_non_overlap_reads=3
JC	163	.	NC_000913	3468779	-1	NC_000913	3469104	1	0	alignment_overlap=17	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.203e-02	junction_possible_overlap_registers=277	key=NC_000913__3468779__-1__NC_000913__3469087__1__17____300__300__0__0	max_left=126	max_left_minus=86	max_left_plus=126	max_min_left=86	max_min_left_minus=86	max_min_left_plus=86	max_min_right=21	max_min_right_minus=0	max_min_right_plus=21	max_pos_hash_score=554	max_right=188	max_right_minus=188	max_right_plus=188	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.203e-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=0.93	side_1_overlap=17	side_1_possible_overlap_registers=294	side_1_read_count=98	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=277	side_2_read_count=89	side_2_redundant=0	total_non_overlap_reads=3
JC	164	.	NC_000913	3469040	-1	NC_000913	3469344	1	0	alignment_overlap=20	coverage_minus=4	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.900e-02	junction_possible_overlap_registers=274	key=NC_000913__3469040__-1__NC_000913__3469324__1__20____300__300__0__0	max_left=147	max_left_minus=147	max_left_plus=146	max_min_left=83	max_min_left_minus=83	max_min_left_plus=0	max_min_right=134	max_min_right_minus=133	max_min_right_plus=134	max_pos_hash_score=548	max_right=135	max_right_minus=135	max_right_plus=134	neg_log10_pos_hash_p_value=8.2	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=5.900e-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=0.93	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=97	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=274	side_2_read_count=101	side_2_redundant=0	total_non_overlap_reads=6
JC	165	.	NC_000913	3625588	-1	NC_000913	3720630	1	0	alignment_overlap=1	coverage_minus=43	coverage_plus=52	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__3625588__-1__NC_000913__3720629__1__1____300__300__0__0	max_left=295	max_left_minus=295	max_left_plus=295	max_min_left=149	max_min_left_minus=144	max_min_left_plus=149	max_min_right=146	max_min_right_minus=146	max_min_right_plus=130	max_pos_hash_score=586	max_right=297	max_right_minus=297	max_right_plus=295	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.91	new_junction_read_count=95	polymorphism_frequency=1.000e+00	pos_hash_score=60	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=1	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=0	total_non_overlap_reads=95
JC	166	.	NC_000913	4119780	-1	NC_000913	4120213	1	0	alignment_overlap=10	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.868e-02	junction_possible_overlap_registers=284	key=NC_000913__4119780__-1__NC_000913__4120203__1__10____300__300__0__0	max_left=132	max_left_minus=132	max_left_plus=132	max_min_left=18	max_min_left_minus=0	max_min_left_plus=18	max_min_right=51	max_min_right_minus=51	max_min_right_plus=51	max_pos_hash_score=568	max_right=141	max_right_minus=51	max_right_plus=141	neg_log10_pos_hash_p_value=9.0	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.868e-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=0.89	side_1_overlap=10	side_1_possible_overlap_registers=294	side_1_read_count=93	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.08	side_2_overlap=0	side_2_possible_overlap_registers=284	side_2_read_count=109	side_2_redundant=0	total_non_overlap_reads=4
JC	167	.	NC_000913	4122947	-1	NC_000913	4123315	1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.119e-02	junction_possible_overlap_registers=285	key=NC_000913__4122947__-1__NC_000913__4123306__1__9____300__300__0__0	max_left=182	max_left_minus=182	max_left_plus=181	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=110	max_min_right_minus=108	max_min_right_plus=110	max_pos_hash_score=570	max_right=110	max_right_minus=108	max_right_plus=110	neg_log10_pos_hash_p_value=9.0	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.119e-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=1.10	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=115	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=285	side_2_read_count=137	side_2_redundant=0	total_non_overlap_reads=4
JC	168	.	NC_000913	4284306	-1	NC_000913	4284340	1	0	alignment_overlap=4	coverage_minus=51	coverage_plus=50	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=290	key=NC_000913__4284306__-1__NC_000913__4284336__1__4____300__300__0__0	max_left=292	max_left_minus=292	max_left_plus=287	max_min_left=141	max_min_left_minus=141	max_min_left_plus=141	max_min_right=145	max_min_right_minus=138	max_min_right_plus=145	max_pos_hash_score=580	max_right=294	max_right_minus=294	max_right_plus=278	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.99	new_junction_read_count=102	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=4	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=101
JC	169	.	NC_000913	4295870	-1	NC_000913	4296434	1	0	alignment_overlap=39	coverage_minus=3	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=8.226e-02	junction_possible_overlap_registers=255	key=NC_000913__4295870__-1__NC_000913__4296395__1__39____300__300__0__0	max_left=196	max_left_minus=196	max_left_plus=186	max_min_left=26	max_min_left_minus=0	max_min_left_plus=26	max_min_right=75	max_min_right_minus=63	max_min_right_plus=75	max_pos_hash_score=510	max_right=222	max_right_minus=63	max_right_plus=222	neg_log10_pos_hash_p_value=7.3	new_junction_coverage=0.10	new_junction_read_count=9	polymorphism_frequency=8.226e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.16	side_1_overlap=39	side_1_possible_overlap_registers=294	side_1_read_count=122	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.04	side_2_overlap=0	side_2_possible_overlap_registers=255	side_2_read_count=95	side_2_redundant=0	total_non_overlap_reads=8
JC	170	.	NC_000913	4542682	1	NC_000913	4542996	1	0	alignment_overlap=9	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.480e-02	junction_possible_overlap_registers=285	key=NC_000913__4542682__1__NC_000913__4542987__1__9____300__300__0__0	max_left=253	max_left_minus=219	max_left_plus=253	max_min_left=114	max_min_left_minus=0	max_min_left_plus=114	max_min_right=71	max_min_right_minus=71	max_min_right_plus=38	max_pos_hash_score=570	max_right=177	max_right_minus=71	max_right_plus=177	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.480e-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=1.27	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=133	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.05	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=107	side_2_redundant=0	total_non_overlap_reads=3
JC	171	.	NC_000913	4542690	-1	NC_000913	4542986	-1	0	alignment_overlap=9	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=2.403e-02	junction_possible_overlap_registers=285	key=NC_000913__4542690__-1__NC_000913__4542995__-1__9____300__300__0__0	max_left=165	max_left_minus=144	max_left_plus=165	max_min_left=144	max_min_left_minus=144	max_min_left_plus=0	max_min_right=126	max_min_right_minus=0	max_min_right_plus=126	max_pos_hash_score=570	max_right=275	max_right_minus=275	max_right_plus=126	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.403e-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=1.35	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=142	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.04	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=106	side_2_redundant=0	total_non_overlap_reads=3
JC	172	.	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=8.928e-02	junction_possible_overlap_registers=205	key=NC_000913__4606166__-1__NC_000913__4606314__1__89____300__300__0__0	max_left=187	max_left_minus=187	max_left_plus=121	max_min_left=85	max_min_left_minus=85	max_min_left_plus=24	max_min_right=96	max_min_right_minus=52	max_min_right_plus=96	max_pos_hash_score=410	max_right=193	max_right_minus=126	max_right_plus=193	neg_log10_pos_hash_p_value=5.2	new_junction_coverage=0.11	new_junction_read_count=8	polymorphism_frequency=8.928e-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=1.00	side_1_overlap=89	side_1_possible_overlap_registers=294	side_1_read_count=105	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.23	side_2_overlap=0	side_2_possible_overlap_registers=205	side_2_read_count=90	side_2_redundant=0	total_non_overlap_reads=8
UN	173	.	NC_000913	15663	15663
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