#=GENOME_DIFF	1.0
#=CREATED	13:28:50 10 Oct 2025
#=PROGRAM	breseq 0.39.0 
#=COMMAND	breseq -j 8 -o /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_run15_rmdup_trimmng-adaptors-polyG/ME8417_S7_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/ME8417_S7_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/ME8417_S7_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/ME8417_S7_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/ME8417_S7_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=CONVERTED-BASES	513735540
#=CONVERTED-READS	1737815
#=INPUT-BASES	513844883
#=INPUT-READS	1738188
#=MAPPED-BASES	496702716
#=MAPPED-READS	1681278
SNP	1	74	NC_000913	3645	A
SNP	2	76	NC_000913	81102	A
SNP	3	78	NC_000913	156068	G
SNP	4	79	NC_000913	156591	C
SNP	5	80	NC_000913	167798	A
SNP	6	81	NC_000913	229552	T
DEL	7	185,194	NC_000913	257908	776
MOB	8	195,197	NC_000913	258921	IS1	1	9
SNP	9	82	NC_000913	284535	G
MOB	10	193,203	NC_000913	458790	IS186	1	6	del_end=1
SNP	11	83	NC_000913	554419	G
SNP	12	85	NC_000913	650361	T
SNP	13	86	NC_000913	696470	T
SNP	14	91	NC_000913	1001251	C
SNP	15	94	NC_000913	1148972	T
SNP	16	95	NC_000913	1169836	G
SNP	17	96	NC_000913	1189980	G
SNP	18	99	NC_000913	1287040	A
SNP	19	100	NC_000913	1290847	A
SNP	20	101	NC_000913	1301992	T
SNP	21	102	NC_000913	1306736	G
SNP	22	105	NC_000913	1336674	A
SNP	23	106	NC_000913	1337394	G
SNP	24	107	NC_000913	1339315	T
SNP	25	109	NC_000913	1358859	C
SNP	26	117	NC_000913	1643679	T
SNP	27	118	NC_000913	1652331	C
DEL	28	187,216	NC_000913	1652878	4963
SNP	29	119	NC_000913	1699793	A
SNP	30	122	NC_000913	1829887	A
SNP	31	123	NC_000913	1894839	C
DEL	32	188,217	NC_000913	1978503	776
MOB	33	218,219	NC_000913	1979486	IS5	1	4
SNP	34	126	NC_000913	2040433	A
SNP	35	127	NC_000913	2042171	A
SNP	36	128	NC_000913	2044642	C
DEL	37	129	NC_000913	2111259	1
DEL	38	130,131	NC_000913	2173363	2
SNP	39	132	NC_000913	2173448	T
MOB	40	220,223	NC_000913	2468298	IS3	1	3
DEL	41	189,227	NC_000913	2558699	6790
SNP	42	136	NC_000913	2587112	T
SNP	43	139	NC_000913	2867455	A
SNP	44	140	NC_000913	2926772	A
SNP	45	144	NC_000913	3152494	T
DEL	46	145	NC_000913	3207549	1
SUB	47	146,147	NC_000913	3213989	2	GA
SNP	48	149	NC_000913	3329743	T
MOB	49	232,233	NC_000913	3350556	IS1	-1	8
SNP	50	150	NC_000913	3388041	G
MOB	51	210,222	NC_000913	3429988	IS3	-1	3
SNP	52	151	NC_000913	3511391	A
SNP	53	152	NC_000913	3560443	G
INS	54	153	NC_000913	3560455	G
SNP	55	155	NC_000913	3707883	A
SNP	56	156	NC_000913	3707947	A
SNP	57	158	NC_000913	3725176	G
SNP	58	161	NC_000913	3769209	T
INS	59	162	NC_000913	3815883	C
SNP	60	166	NC_000913	4212959	C
DEL	61	167	NC_000913	4212973	1
SNP	62	168	NC_000913	4223638	C
SNP	63	171	NC_000913	4287464	A
SNP	64	172	NC_000913	4294366	T
INS	65	174,175	NC_000913	4296381	GC
SNP	66	176	NC_000913	4325644	T
SNP	67	179	NC_000913	4473900	T
SNP	68	180	NC_000913	4475493	C
SNP	69	181	NC_000913	4510238	G
MOB	70	237,238	NC_000913	4542042	IS1	1	8
DEL	71	183	NC_000913	4563778	1	repeat_length=1	repeat_new_copies=5	repeat_ref_copies=6	repeat_seq=G
SNP	72	184	NC_000913	4616669	T
MOB	73	245,246	NC_000913	4640418	IS30	-1	2
RA	74	.	NC_000913	3645	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=334.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=51/48	major_frequency=9.900e-01	minor_base=C	minor_cov=1/0	new_cov=51/48	polymorphism_frequency=9.900e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=52/49
RA	75	.	NC_000913	12152	0	G	T	bias_e_value=27.5052	bias_p_value=5.92573e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=152.8	fisher_strand_p_value=3.75142e-07	frequency=3.039e-01	ks_quality_p_value=1	major_base=G	major_cov=33/38	major_frequency=6.961e-01	minor_base=T	minor_cov=0/31	new_cov=0/31	polymorphism_frequency=3.039e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=33/38	total_cov=33/69
RA	76	.	NC_000913	81102	0	G	A	consensus_score=336.4	frequency=1	major_base=A	major_cov=48/47	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=48/47	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=48/47
RA	77	.	NC_000913	141849	0	C	A	bias_e_value=0.0176909	bias_p_value=3.81134e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=281.3	fisher_strand_p_value=1.6188e-10	frequency=2.446e-01	ks_quality_p_value=1	major_base=C	major_cov=46/59	major_frequency=7.554e-01	minor_base=A	minor_cov=34/0	new_cov=34/0	polymorphism_frequency=2.446e-01	polymorphism_score=16.3	prediction=polymorphism	ref_cov=46/59	total_cov=80/60
RA	78	.	NC_000913	156068	0	A	G	consensus_score=544.1	frequency=1	major_base=G	major_cov=76/65	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=76/65	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=76/65
RA	79	.	NC_000913	156591	0	T	C	consensus_score=505.0	frequency=1	major_base=C	major_cov=60/71	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=60/71	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=60/71
RA	80	.	NC_000913	167798	0	C	A	consensus_score=291.3	frequency=1	major_base=A	major_cov=40/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/43
RA	81	.	NC_000913	229552	0	C	T	bias_e_value=2615180	bias_p_value=0.563415	consensus_score=616.1	fisher_strand_p_value=0.226878	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=94/84	major_frequency=9.889e-01	minor_base=G	minor_cov=0/2	new_cov=94/84	polymorphism_frequency=9.889e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=94/86
RA	82	.	NC_000913	284535	0	T	G	consensus_score=131.0	frequency=1	major_base=G	major_cov=22/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=22/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/15
RA	83	.	NC_000913	554419	0	T	G	bias_e_value=3422940	bias_p_value=0.737441	consensus_score=532.0	fisher_strand_p_value=0.369565	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=50/87	major_frequency=9.928e-01	minor_base=A	minor_cov=1/0	new_cov=50/87	polymorphism_frequency=9.928e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/87
RA	84	.	NC_000913	571586	0	G	T	bias_e_value=8.20143e-08	bias_p_value=1.76692e-14	consensus_reject=FREQUENCY_CUTOFF	consensus_score=418.4	fisher_strand_p_value=4.87324e-16	frequency=2.394e-01	ks_quality_p_value=1	major_base=G	major_cov=90/53	major_frequency=7.606e-01	minor_base=T	minor_cov=0/45	new_cov=0/45	polymorphism_frequency=2.394e-01	polymorphism_score=12.5	prediction=polymorphism	ref_cov=90/53	total_cov=90/98
RA	85	.	NC_000913	650361	0	C	T	bias_e_value=3644910	bias_p_value=0.785262	consensus_score=356.8	fisher_strand_p_value=0.421053	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=55/39	major_frequency=9.895e-01	minor_base=G	minor_cov=0/1	new_cov=55/39	polymorphism_frequency=9.895e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=55/40
RA	86	.	NC_000913	696470	0	C	T	bias_e_value=3930520	bias_p_value=0.846793	consensus_score=387.1	fisher_strand_p_value=0.500316	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=51/60	major_frequency=9.823e-01	minor_base=G	minor_cov=0/2	new_cov=51/60	polymorphism_frequency=9.823e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=51/63
RA	87	.	NC_000913	710830	0	G	T	bias_e_value=0.0111609	bias_p_value=2.40451e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=249.4	fisher_strand_p_value=1.00084e-10	frequency=2.734e-01	ks_quality_p_value=1	major_base=G	major_cov=55/46	major_frequency=7.266e-01	minor_base=T	minor_cov=0/38	new_cov=0/38	polymorphism_frequency=2.734e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=55/46	total_cov=55/84
RA	88	.	NC_000913	834674	0	C	A	bias_e_value=0.00654561	bias_p_value=1.41019e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=174.8	fisher_strand_p_value=5.73679e-11	frequency=3.053e-01	ks_quality_p_value=1	major_base=C	major_cov=21/45	major_frequency=6.947e-01	minor_base=A	minor_cov=29/0	new_cov=29/0	polymorphism_frequency=3.053e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=21/45	total_cov=50/45
RA	89	.	NC_000913	847955	0	G	A	bias_e_value=1.98918e-06	bias_p_value=4.28551e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=260.2	fisher_strand_p_value=1.29966e-14	frequency=2.465e-01	ks_quality_p_value=1	major_base=G	major_cov=74/33	major_frequency=7.535e-01	minor_base=A	minor_cov=0/35	new_cov=0/35	polymorphism_frequency=2.465e-01	polymorphism_score=36.8	prediction=polymorphism	ref_cov=74/33	total_cov=74/69
RA	90	.	NC_000913	952453	0	G	T	bias_e_value=0.200623	bias_p_value=4.32222e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=214.7	fisher_strand_p_value=2.05805e-09	frequency=2.833e-01	ks_quality_p_value=1	major_base=G	major_cov=46/40	major_frequency=7.167e-01	minor_base=T	minor_cov=0/34	new_cov=0/34	polymorphism_frequency=2.833e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=46/40	total_cov=46/74
RA	91	.	NC_000913	1001251	0	A	C	consensus_score=316.6	frequency=1	major_base=C	major_cov=41/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/42
RA	92	.	NC_000913	1015488	0	C	A	bias_e_value=0.0022553	bias_p_value=4.85883e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=298.0	fisher_strand_p_value=1.89124e-11	frequency=2.279e-01	ks_quality_p_value=1	major_base=C	major_cov=39/66	major_frequency=7.721e-01	minor_base=A	minor_cov=31/0	new_cov=31/0	polymorphism_frequency=2.279e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=39/66	total_cov=70/66
RA	93	.	NC_000913	1097118	0	C	A	bias_e_value=4402870	bias_p_value=0.948556	consensus_reject=FREQUENCY_CUTOFF	consensus_score=54.5	fisher_strand_p_value=1	frequency=2.750e-01	ks_quality_p_value=0.696889	major_base=C	major_cov=12/17	major_frequency=7.250e-01	minor_base=A	minor_cov=5/6	new_cov=5/6	polymorphism_frequency=2.750e-01	polymorphism_score=28.1	prediction=polymorphism	ref_cov=12/17	total_cov=17/23
RA	94	.	NC_000913	1148972	0	C	T	consensus_score=427.5	frequency=1	major_base=T	major_cov=53/70	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=53/70	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=53/70
RA	95	.	NC_000913	1169836	0	A	G	consensus_score=305.1	frequency=1	major_base=G	major_cov=30/51	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/51	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/51
RA	96	.	NC_000913	1189980	0	A	G	consensus_score=409.8	frequency=1	major_base=G	major_cov=56/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=56/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=56/54
RA	97	.	NC_000913	1214626	0	G	T	bias_e_value=0.00139693	bias_p_value=3.00955e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=369.5	fisher_strand_p_value=1.14915e-11	frequency=2.118e-01	ks_quality_p_value=1	major_base=G	major_cov=77/57	major_frequency=7.882e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=2.118e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=77/57	total_cov=77/93
RA	98	.	NC_000913	1286793	0	A	G	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=203.1	fisher_strand_p_value=1	frequency=2.366e-01	ks_quality_p_value=1	major_base=A	major_cov=35/36	major_frequency=7.634e-01	minor_base=G	minor_cov=11/11	new_cov=11/11	polymorphism_frequency=2.366e-01	polymorphism_score=45.5	prediction=polymorphism	ref_cov=35/36	total_cov=47/47
RA	99	.	NC_000913	1287040	0	G	A	bias_e_value=3907940	bias_p_value=0.841928	consensus_score=137.9	fisher_strand_p_value=0.493361	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=25/27	major_frequency=9.630e-01	minor_base=G	minor_cov=0/2	new_cov=25/27	polymorphism_frequency=9.630e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/2	total_cov=26/29
RA	100	.	NC_000913	1290847	0	C	A	consensus_score=435.8	frequency=1	major_base=A	major_cov=49/72	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/72	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/72
RA	101	.	NC_000913	1301992	0	A	T	consensus_score=484.3	frequency=1	major_base=T	major_cov=52/90	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/90	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/90
RA	102	.	NC_000913	1306736	0	T	G	consensus_score=437.6	frequency=1	major_base=G	major_cov=73/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=73/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=73/40
RA	103	.	NC_000913	1334966	0	A	C	bias_e_value=0.0184892	bias_p_value=3.98331e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=394.2	fisher_strand_p_value=1.69517e-10	frequency=2.028e-01	ks_quality_p_value=1	major_base=A	major_cov=94/79	major_frequency=7.972e-01	minor_base=C	minor_cov=44/0	new_cov=44/0	polymorphism_frequency=2.028e-01	polymorphism_score=34.6	prediction=polymorphism	ref_cov=94/79	total_cov=138/79
RA	104	.	NC_000913	1335034	0	G	T	bias_e_value=2.59673e-10	bias_p_value=5.59441e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=471.3	fisher_strand_p_value=1.32683e-18	frequency=2.294e-01	ks_quality_p_value=1	major_base=G	major_cov=114/54	major_frequency=7.706e-01	minor_base=T	minor_cov=1/49	new_cov=1/49	polymorphism_frequency=2.294e-01	polymorphism_score=16.5	prediction=polymorphism	ref_cov=114/54	total_cov=115/103
RA	105	.	NC_000913	1336674	0	G	A	consensus_score=499.0	frequency=1	major_base=A	major_cov=77/73	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=77/73	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=77/73
RA	106	.	NC_000913	1337394	0	A	G	bias_e_value=4641610	bias_p_value=0.99999	consensus_score=302.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.995632	major_base=G	major_cov=51/34	major_frequency=9.884e-01	minor_base=A	minor_cov=1/0	new_cov=51/34	polymorphism_frequency=9.884e-01	polymorphism_score=-5.9	prediction=consensus	ref_cov=1/0	total_cov=52/34
RA	107	.	NC_000913	1339315	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=377.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999321	major_base=T	major_cov=49/59	major_frequency=9.908e-01	minor_base=G	minor_cov=0/1	new_cov=49/59	polymorphism_frequency=9.908e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/60
RA	108	.	NC_000913	1351463	0	C	A	bias_e_value=168.778	bias_p_value=3.63616e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=97.2	fisher_strand_p_value=2.62533e-06	frequency=3.429e-01	ks_quality_p_value=1	major_base=C	major_cov=22/24	major_frequency=6.571e-01	minor_base=A	minor_cov=24/0	new_cov=24/0	polymorphism_frequency=3.429e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=22/24	total_cov=46/24
RA	109	.	NC_000913	1358859	0	T	C	consensus_score=377.6	frequency=1	major_base=C	major_cov=52/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/50
RA	110	.	NC_000913	1423794	0	C	A	bias_e_value=0.000146873	bias_p_value=3.16423e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=300.3	fisher_strand_p_value=1.10919e-12	frequency=2.875e-01	ks_quality_p_value=1	major_base=C	major_cov=52/62	major_frequency=7.125e-01	minor_base=A	minor_cov=46/0	new_cov=46/0	polymorphism_frequency=2.875e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=52/62	total_cov=98/62
RA	111	.	NC_000913	1466432	0	A	G	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=170.2	fisher_strand_p_value=1	frequency=2.048e-01	ks_quality_p_value=1	major_base=A	major_cov=29/37	major_frequency=7.952e-01	minor_base=G	minor_cov=8/9	new_cov=8/9	polymorphism_frequency=2.048e-01	polymorphism_score=21.5	prediction=polymorphism	ref_cov=29/37	total_cov=37/46
RA	112	.	NC_000913	1470627	0	C	A	bias_e_value=6.54954e-08	bias_p_value=1.41104e-14	consensus_reject=FREQUENCY_CUTOFF	consensus_score=396.2	fisher_strand_p_value=3.86703e-16	frequency=2.299e-01	ks_quality_p_value=1	major_base=C	major_cov=44/90	major_frequency=7.701e-01	minor_base=A	minor_cov=40/0	new_cov=40/0	polymorphism_frequency=2.299e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=44/90	total_cov=85/90
RA	113	.	NC_000913	1502770	0	T	C	bias_e_value=0.000421141	bias_p_value=9.07309e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=253.0	fisher_strand_p_value=3.30713e-12	frequency=2.727e-01	ks_quality_p_value=1	major_base=T	major_cov=61/43	major_frequency=7.273e-01	minor_base=C	minor_cov=0/39	new_cov=0/39	polymorphism_frequency=2.727e-01	polymorphism_score=32.8	prediction=polymorphism	ref_cov=61/43	total_cov=61/82
RA	114	.	NC_000913	1502772	0	G	A	bias_e_value=1.09791	bias_p_value=2.36534e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=244.9	fisher_strand_p_value=1.23113e-08	frequency=2.324e-01	ks_quality_p_value=1	major_base=G	major_cov=60/49	major_frequency=7.676e-01	minor_base=A	minor_cov=1/32	new_cov=1/32	polymorphism_frequency=2.324e-01	polymorphism_score=30.0	prediction=polymorphism	ref_cov=60/49	total_cov=61/82
RA	115	.	NC_000913	1579973	0	C	A	bias_e_value=0.0513942	bias_p_value=1.10724e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=349.0	fisher_strand_p_value=4.93661e-10	frequency=2.209e-01	ks_quality_p_value=1	major_base=C	major_cov=68/66	major_frequency=7.791e-01	minor_base=A	minor_cov=38/0	new_cov=38/0	polymorphism_frequency=2.209e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=68/66	total_cov=106/67
RA	116	.	NC_000913	1611507	0	G	T	bias_e_value=0.0107123	bias_p_value=2.30787e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=257.5	fisher_strand_p_value=9.58903e-11	frequency=2.553e-01	ks_quality_p_value=1	major_base=G	major_cov=58/47	major_frequency=7.447e-01	minor_base=T	minor_cov=0/36	new_cov=0/36	polymorphism_frequency=2.553e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=58/47	total_cov=58/83
RA	117	.	NC_000913	1643679	0	A	T	consensus_score=332.5	frequency=1	major_base=T	major_cov=40/58	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/58	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/58
RA	118	.	NC_000913	1652331	0	T	C	consensus_score=467.3	frequency=1	major_base=C	major_cov=65/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=65/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=65/57
RA	119	.	NC_000913	1699793	0	G	A	bias_e_value=4639250	bias_p_value=0.999483	consensus_score=432.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.968015	major_base=A	major_cov=66/59	major_frequency=9.921e-01	minor_base=G	minor_cov=1/0	new_cov=66/59	polymorphism_frequency=9.921e-01	polymorphism_score=-4.3	prediction=consensus	ref_cov=1/0	total_cov=67/59
RA	120	.	NC_000913	1756353	0	C	A	bias_e_value=0.172446	bias_p_value=3.71519e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=223.8	fisher_strand_p_value=1.75573e-09	frequency=2.846e-01	ks_quality_p_value=1	major_base=C	major_cov=46/47	major_frequency=7.154e-01	minor_base=A	minor_cov=37/0	new_cov=37/0	polymorphism_frequency=2.846e-01	polymorphism_score=13.9	prediction=polymorphism	ref_cov=46/47	total_cov=83/47
RA	121	.	NC_000913	1812509	0	G	T	bias_e_value=6.93988e-06	bias_p_value=1.49513e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=258.4	fisher_strand_p_value=4.71879e-14	frequency=3.037e-01	ks_quality_p_value=1	major_base=G	major_cov=60/34	major_frequency=6.963e-01	minor_base=T	minor_cov=0/41	new_cov=0/41	polymorphism_frequency=3.037e-01	polymorphism_score=13.2	prediction=polymorphism	ref_cov=60/34	total_cov=60/75
RA	122	.	NC_000913	1829887	0	G	A	consensus_score=327.4	frequency=1	major_base=A	major_cov=56/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=56/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=56/40
RA	123	.	NC_000913	1894839	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_score=453.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=60/58	major_frequency=9.916e-01	minor_base=A	minor_cov=1/0	new_cov=60/58	polymorphism_frequency=9.916e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=61/58
RA	124	.	NC_000913	1902806	0	C	A	bias_e_value=0.342972	bias_p_value=7.38901e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=263.9	fisher_strand_p_value=3.61531e-09	frequency=2.366e-01	ks_quality_p_value=1	major_base=C	major_cov=40/60	major_frequency=7.634e-01	minor_base=A	minor_cov=30/1	new_cov=30/1	polymorphism_frequency=2.366e-01	polymorphism_score=14.4	prediction=polymorphism	ref_cov=40/60	total_cov=70/61
RA	125	.	NC_000913	1922815	0	C	A	bias_e_value=28.8886	bias_p_value=6.22378e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=286.5	fisher_strand_p_value=3.95322e-07	frequency=2.667e-01	ks_quality_p_value=1	major_base=C	major_cov=43/67	major_frequency=7.333e-01	minor_base=A	minor_cov=34/6	new_cov=34/6	polymorphism_frequency=2.667e-01	polymorphism_score=14.7	prediction=polymorphism	ref_cov=43/67	total_cov=77/73
RA	126	.	NC_000913	2040433	0	C	A	bias_e_value=3956410	bias_p_value=0.852372	consensus_score=237.1	fisher_strand_p_value=0.508468	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=42/31	major_frequency=9.733e-01	minor_base=C	minor_cov=2/0	new_cov=42/31	polymorphism_frequency=9.733e-01	polymorphism_score=NA	prediction=consensus	ref_cov=2/0	total_cov=44/31
RA	127	.	NC_000913	2042171	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=498.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999622	major_base=A	major_cov=89/56	major_frequency=9.932e-01	minor_base=G	minor_cov=1/0	new_cov=89/56	polymorphism_frequency=9.932e-01	polymorphism_score=-5.9	prediction=consensus	ref_cov=1/0	total_cov=90/56
RA	128	.	NC_000913	2044642	0	T	C	consensus_score=525.2	frequency=1	major_base=C	major_cov=64/76	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=64/76	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=64/76
RA	129	.	NC_000913	2111259	0	G	.	consensus_score=601.5	frequency=1	major_base=.	major_cov=43/82	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=43/82	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/82
RA	130	.	NC_000913	2173363	0	C	.	bias_e_value=3799410	bias_p_value=0.818547	consensus_score=364.1	fisher_strand_p_value=0.474359	frequency=1	ks_quality_p_value=0.973387	major_base=.	major_cov=36/41	major_frequency=9.872e-01	minor_base=C	minor_cov=1/0	new_cov=36/41	polymorphism_frequency=9.872e-01	polymorphism_score=-2.3	prediction=consensus	ref_cov=1/0	total_cov=37/41
RA	131	.	NC_000913	2173364	0	C	.	bias_e_value=3799410	bias_p_value=0.818547	consensus_score=364.1	fisher_strand_p_value=0.474359	frequency=1	ks_quality_p_value=0.973387	major_base=.	major_cov=36/41	major_frequency=9.872e-01	minor_base=C	minor_cov=1/0	new_cov=36/41	polymorphism_frequency=9.872e-01	polymorphism_score=-2.3	prediction=consensus	ref_cov=1/0	total_cov=37/41
RA	132	.	NC_000913	2173448	0	C	T	consensus_score=252.4	frequency=1	major_base=T	major_cov=40/33	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/33	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/33
RA	133	.	NC_000913	2185850	0	G	T	bias_e_value=0.00330803	bias_p_value=7.12684e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=254.7	fisher_strand_p_value=2.81777e-11	frequency=2.778e-01	ks_quality_p_value=1	major_base=G	major_cov=54/37	major_frequency=7.222e-01	minor_base=T	minor_cov=0/35	new_cov=0/35	polymorphism_frequency=2.778e-01	polymorphism_score=15.0	prediction=polymorphism	ref_cov=54/37	total_cov=54/72
RA	134	.	NC_000913	2288418	0	G	T	bias_e_value=0.0828673	bias_p_value=1.7853e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=277.8	fisher_strand_p_value=8.1413e-10	frequency=2.148e-01	ks_quality_p_value=1	major_base=G	major_cov=62/44	major_frequency=7.852e-01	minor_base=T	minor_cov=0/29	new_cov=0/29	polymorphism_frequency=2.148e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=62/44	total_cov=62/73
RA	135	.	NC_000913	2477265	0	A	C	bias_e_value=4.24122e-05	bias_p_value=9.1373e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=172.7	fisher_strand_p_value=3.06481e-13	frequency=2.828e-01	ks_quality_p_value=1	major_base=A	major_cov=17/54	major_frequency=7.172e-01	minor_base=C	minor_cov=28/0	new_cov=28/0	polymorphism_frequency=2.828e-01	polymorphism_score=16.3	prediction=polymorphism	ref_cov=17/54	total_cov=45/54
RA	136	.	NC_000913	2587112	0	C	T	consensus_score=377.5	frequency=1	major_base=T	major_cov=61/48	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=61/48	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=61/48
RA	137	.	NC_000913	2671531	0	G	T	bias_e_value=12.8856	bias_p_value=2.77609e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=119.5	fisher_strand_p_value=1.67193e-07	frequency=3.563e-01	ks_quality_p_value=1	major_base=G	major_cov=28/28	major_frequency=6.437e-01	minor_base=T	minor_cov=0/31	new_cov=0/31	polymorphism_frequency=3.563e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=28/28	total_cov=28/59
RA	138	.	NC_000913	2767445	0	C	A	bias_e_value=0.00580892	bias_p_value=1.25148e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=172.7	fisher_strand_p_value=5.06548e-11	frequency=2.791e-01	ks_quality_p_value=1	major_base=C	major_cov=16/46	major_frequency=7.209e-01	minor_base=A	minor_cov=24/0	new_cov=24/0	polymorphism_frequency=2.791e-01	polymorphism_score=16.0	prediction=polymorphism	ref_cov=16/46	total_cov=40/46
RA	139	.	NC_000913	2867455	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=356.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=74/31	major_frequency=9.906e-01	minor_base=C	minor_cov=1/0	new_cov=74/31	polymorphism_frequency=9.906e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=75/32
RA	140	.	NC_000913	2926772	0	C	A	bias_e_value=3885970	bias_p_value=0.837195	consensus_score=389.1	fisher_strand_p_value=0.486726	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=54/58	major_frequency=9.912e-01	minor_base=C	minor_cov=1/0	new_cov=54/58	polymorphism_frequency=9.912e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=55/58
RA	141	.	NC_000913	2990480	0	C	A	bias_e_value=2.17468e-05	bias_p_value=4.68514e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=276.7	fisher_strand_p_value=1.53588e-13	frequency=3.101e-01	ks_quality_p_value=1	major_base=C	major_cov=49/60	major_frequency=6.899e-01	minor_base=A	minor_cov=49/0	new_cov=49/0	polymorphism_frequency=3.101e-01	polymorphism_score=17.5	prediction=polymorphism	ref_cov=49/60	total_cov=98/60
RA	142	.	NC_000913	3054886	0	G	T	bias_e_value=0.568849	bias_p_value=1.22553e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=202.6	fisher_strand_p_value=6.15668e-09	frequency=2.245e-01	ks_quality_p_value=1	major_base=G	major_cov=26/50	major_frequency=7.755e-01	minor_base=T	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=2.245e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=26/50	total_cov=49/50
RA	143	.	NC_000913	3054894	0	G	T	bias_e_value=2.59372	bias_p_value=5.58792e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=171.4	fisher_strand_p_value=3.05274e-08	frequency=2.353e-01	ks_quality_p_value=1	major_base=G	major_cov=17/48	major_frequency=7.647e-01	minor_base=T	minor_cov=19/1	new_cov=19/1	polymorphism_frequency=2.353e-01	polymorphism_score=12.6	prediction=polymorphism	ref_cov=17/48	total_cov=38/49
RA	144	.	NC_000913	3152494	0	G	T	consensus_score=363.7	frequency=1	major_base=T	major_cov=56/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=56/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=56/46
RA	145	.	NC_000913	3207549	0	G	.	consensus_score=644.0	frequency=1	major_base=.	major_cov=66/68	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=66/68	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=66/68
RA	146	.	NC_000913	3213989	0	T	G	consensus_score=399.9	frequency=1	major_base=G	major_cov=62/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=62/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=62/42
RA	147	.	NC_000913	3213990	0	G	A	consensus_score=363.2	frequency=1	major_base=A	major_cov=62/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=62/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=62/42
RA	148	.	NC_000913	3269948	0	T	C	bias_e_value=22.8468	bias_p_value=4.92213e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=185.1	fisher_strand_p_value=3.07749e-07	frequency=2.549e-01	ks_quality_p_value=1	major_base=T	major_cov=37/39	major_frequency=7.451e-01	minor_base=C	minor_cov=26/0	new_cov=26/0	polymorphism_frequency=2.549e-01	polymorphism_score=11.6	prediction=polymorphism	ref_cov=37/39	total_cov=63/39
RA	149	.	NC_000913	3329743	0	G	T	consensus_score=217.0	frequency=1	major_base=T	major_cov=38/24	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/24	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/24
RA	150	.	NC_000913	3388041	0	T	G	consensus_score=335.5	frequency=1	major_base=G	major_cov=47/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=47/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/42
RA	151	.	NC_000913	3511391	0	G	A	consensus_score=284.8	frequency=1	major_base=A	major_cov=44/38	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/38	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/38
RA	152	.	NC_000913	3560443	0	C	G	consensus_score=368.5	frequency=1	major_base=G	major_cov=44/53	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/53	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/53
RA	153	.	NC_000913	3560455	1	.	G	bias_e_value=4164740	bias_p_value=0.897254	consensus_score=339.0	fisher_strand_p_value=0.593431	frequency=1	ks_quality_p_value=0.981443	major_base=G	major_cov=40/48	major_frequency=9.670e-01	minor_base=.	minor_cov=2/1	new_cov=40/48	polymorphism_frequency=9.670e-01	polymorphism_score=5.4	prediction=consensus	ref_cov=2/1	total_cov=42/49
RA	154	.	NC_000913	3669715	0	G	T	bias_e_value=208.159	bias_p_value=4.48459e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=205.1	fisher_strand_p_value=3.29166e-06	frequency=2.368e-01	ks_quality_p_value=1	major_base=G	major_cov=38/49	major_frequency=7.632e-01	minor_base=T	minor_cov=0/27	new_cov=0/27	polymorphism_frequency=2.368e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=38/49	total_cov=38/76
RA	155	.	NC_000913	3707883	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=466.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=93/45	major_frequency=9.928e-01	minor_base=C	minor_cov=1/0	new_cov=93/45	polymorphism_frequency=9.928e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=94/45
RA	156	.	NC_000913	3707947	0	C	A	consensus_score=530.7	frequency=1	major_base=A	major_cov=97/56	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=97/56	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=97/56
RA	157	.	NC_000913	3718183	0	G	T	bias_e_value=54.9	bias_p_value=1.18277e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=184.6	fisher_strand_p_value=7.85532e-07	frequency=2.427e-01	ks_quality_p_value=1	major_base=G	major_cov=39/39	major_frequency=7.573e-01	minor_base=T	minor_cov=0/25	new_cov=0/25	polymorphism_frequency=2.427e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=39/39	total_cov=39/64
RA	158	.	NC_000913	3725176	0	T	G	consensus_score=336.3	frequency=1	major_base=G	major_cov=44/47	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/47	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/47
RA	159	.	NC_000913	3741871	0	G	T	bias_e_value=0.133207	bias_p_value=2.86982e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=156.4	fisher_strand_p_value=1.33908e-09	frequency=3.111e-01	ks_quality_p_value=1	major_base=G	major_cov=39/23	major_frequency=6.889e-01	minor_base=T	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=3.111e-01	polymorphism_score=14.0	prediction=polymorphism	ref_cov=39/23	total_cov=39/51
RA	160	.	NC_000913	3768435	0	C	A	bias_e_value=5.95326e-12	bias_p_value=1.28257e-18	consensus_reject=FREQUENCY_CUTOFF	consensus_score=377.9	fisher_strand_p_value=2.78658e-20	frequency=2.835e-01	ks_quality_p_value=1	major_base=C	major_cov=47/92	major_frequency=7.165e-01	minor_base=A	minor_cov=55/0	new_cov=55/0	polymorphism_frequency=2.835e-01	polymorphism_score=15.5	prediction=polymorphism	ref_cov=47/92	total_cov=102/92
RA	161	.	NC_000913	3769209	0	G	T	bias_e_value=4641650	bias_p_value=1	consensus_score=549.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=73/78	major_frequency=9.934e-01	minor_base=G	minor_cov=0/1	new_cov=73/78	polymorphism_frequency=9.934e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=73/79
RA	162	.	NC_000913	3815883	1	.	C	bias_e_value=1183050	bias_p_value=0.254877	consensus_score=451.6	fisher_strand_p_value=0.0697906	frequency=1	ks_quality_p_value=0.996161	major_base=C	major_cov=47/70	major_frequency=9.750e-01	minor_base=.	minor_cov=3/0	new_cov=47/70	polymorphism_frequency=9.750e-01	polymorphism_score=2.6	prediction=consensus	ref_cov=3/0	total_cov=51/70
RA	163	.	NC_000913	3911533	0	C	A	bias_e_value=3.81562e-05	bias_p_value=8.2204e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=218.9	fisher_strand_p_value=2.74718e-13	frequency=3.453e-01	ks_quality_p_value=1	major_base=C	major_cov=39/52	major_frequency=6.547e-01	minor_base=A	minor_cov=48/0	new_cov=48/0	polymorphism_frequency=3.453e-01	polymorphism_score=16.1	prediction=polymorphism	ref_cov=39/52	total_cov=87/52
RA	164	.	NC_000913	4096422	0	C	A	bias_e_value=0.0996114	bias_p_value=2.14603e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=208.6	fisher_strand_p_value=9.87316e-10	frequency=3.025e-01	ks_quality_p_value=1	major_base=C	major_cov=39/44	major_frequency=6.975e-01	minor_base=A	minor_cov=36/0	new_cov=36/0	polymorphism_frequency=3.025e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=39/44	total_cov=75/44
RA	165	.	NC_000913	4136467	0	A	C	bias_e_value=239.212	bias_p_value=5.1536e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=151.4	fisher_strand_p_value=3.82485e-06	frequency=2.911e-01	ks_quality_p_value=1	major_base=A	major_cov=27/29	major_frequency=7.089e-01	minor_base=C	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=2.911e-01	polymorphism_score=10.9	prediction=polymorphism	ref_cov=27/29	total_cov=50/29
RA	166	.	NC_000913	4212959	0	G	C	consensus_score=152.5	frequency=1	major_base=C	major_cov=37/10	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=37/10	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=37/10
RA	167	.	NC_000913	4212973	0	T	.	consensus_score=213.7	frequency=1	major_base=.	major_cov=40/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/12
RA	168	.	NC_000913	4223638	0	T	C	bias_e_value=4250690	bias_p_value=0.915771	consensus_score=430.3	fisher_strand_p_value=0.618724	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=58/60	major_frequency=9.752e-01	minor_base=A	minor_cov=2/1	new_cov=58/60	polymorphism_frequency=9.752e-01	polymorphism_score=-4.2	prediction=consensus	ref_cov=0/0	total_cov=60/61
RA	169	.	NC_000913	4241875	0	G	T	bias_e_value=0.14034	bias_p_value=3.02348e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=258.9	fisher_strand_p_value=1.41439e-09	frequency=2.126e-01	ks_quality_p_value=1	major_base=G	major_cov=60/40	major_frequency=7.874e-01	minor_base=T	minor_cov=0/27	new_cov=0/27	polymorphism_frequency=2.126e-01	polymorphism_score=17.7	prediction=polymorphism	ref_cov=60/40	total_cov=60/67
RA	170	.	NC_000913	4261040	0	C	A	bias_e_value=1.21879e-09	bias_p_value=2.62576e-16	consensus_reject=FREQUENCY_CUTOFF	consensus_score=401.1	fisher_strand_p_value=6.4707e-18	frequency=2.618e-01	ks_quality_p_value=1	major_base=C	major_cov=51/90	major_frequency=7.382e-01	minor_base=A	minor_cov=50/0	new_cov=50/0	polymorphism_frequency=2.618e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=51/90	total_cov=101/90
RA	171	.	NC_000913	4287464	0	T	A	bias_e_value=4641650	bias_p_value=1	consensus_score=524.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=78/75	major_frequency=9.935e-01	minor_base=C	minor_cov=1/0	new_cov=78/75	polymorphism_frequency=9.935e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=80/75
RA	172	.	NC_000913	4294366	0	A	T	consensus_score=471.4	frequency=1	major_base=T	major_cov=56/83	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=56/83	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=56/83
RA	173	.	NC_000913	4296268	0	T	C	bias_e_value=4276010	bias_p_value=0.921227	consensus_reject=FREQUENCY_CUTOFF	consensus_score=97.7	fisher_strand_p_value=1	frequency=2.500e-01	ks_quality_p_value=0.630313	major_base=T	major_cov=23/16	major_frequency=7.500e-01	minor_base=C	minor_cov=8/5	new_cov=8/5	polymorphism_frequency=2.500e-01	polymorphism_score=31.8	prediction=polymorphism	ref_cov=23/16	total_cov=31/21
RA	174	.	NC_000913	4296380	1	.	C	bias_e_value=1992670	bias_p_value=0.429302	consensus_score=263.4	fisher_strand_p_value=0.166861	frequency=1	ks_quality_p_value=0.882395	major_base=C	major_cov=45/33	major_frequency=9.398e-01	minor_base=T	minor_cov=1/4	new_cov=45/33	polymorphism_frequency=9.398e-01	polymorphism_score=7.3	prediction=consensus	ref_cov=0/2	total_cov=46/39
RA	175	.	NC_000913	4296380	2	.	G	bias_e_value=2375660	bias_p_value=0.511813	consensus_score=293.2	fisher_strand_p_value=0.207563	frequency=1	ks_quality_p_value=0.933697	major_base=G	major_cov=46/37	major_frequency=9.765e-01	minor_base=.	minor_cov=0/2	new_cov=46/37	polymorphism_frequency=9.765e-01	polymorphism_score=0.2	prediction=consensus	ref_cov=0/2	total_cov=46/39
RA	176	.	NC_000913	4325644	0	C	T	consensus_score=322.4	frequency=1	major_base=T	major_cov=33/65	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=33/65	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=33/65
RA	177	.	NC_000913	4360965	0	C	A	bias_e_value=7.02754e-13	bias_p_value=1.51402e-19	consensus_reject=FREQUENCY_CUTOFF	consensus_score=363.6	fisher_strand_p_value=3.14047e-21	frequency=2.914e-01	ks_quality_p_value=1	major_base=C	major_cov=35/89	major_frequency=7.086e-01	minor_base=A	minor_cov=51/0	new_cov=51/0	polymorphism_frequency=2.914e-01	polymorphism_score=22.6	prediction=polymorphism	ref_cov=35/89	total_cov=86/89
RA	178	.	NC_000913	4427822	0	C	A	bias_e_value=5.46619e-05	bias_p_value=1.17764e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=338.0	fisher_strand_p_value=3.9851e-13	frequency=2.529e-01	ks_quality_p_value=1	major_base=C	major_cov=57/73	major_frequency=7.471e-01	minor_base=A	minor_cov=44/0	new_cov=44/0	polymorphism_frequency=2.529e-01	polymorphism_score=19.9	prediction=polymorphism	ref_cov=57/73	total_cov=101/73
RA	179	.	NC_000913	4473900	0	C	T	consensus_score=288.0	frequency=1	major_base=T	major_cov=45/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/37
RA	180	.	NC_000913	4475493	0	T	C	consensus_score=633.1	frequency=1	major_base=C	major_cov=93/74	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=93/74	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=93/74
RA	181	.	NC_000913	4510238	0	T	G	bias_e_value=16289.7	bias_p_value=0.00350945	consensus_score=418.5	fisher_strand_p_value=0.000397424	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=72/47	major_frequency=9.297e-01	minor_base=T	minor_cov=0/9	new_cov=72/47	polymorphism_frequency=9.297e-01	polymorphism_score=-3.9	prediction=consensus	ref_cov=0/9	total_cov=72/56
RA	182	.	NC_000913	4540411	0	C	A	bias_e_value=4.8369e-07	bias_p_value=1.04206e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=355.9	fisher_strand_p_value=3.02649e-15	frequency=2.684e-01	ks_quality_p_value=1	major_base=C	major_cov=60/79	major_frequency=7.316e-01	minor_base=A	minor_cov=51/0	new_cov=51/0	polymorphism_frequency=2.684e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=60/79	total_cov=111/79
RA	183	.	NC_000913	4563778	0	G	.	bias_e_value=2775020	bias_p_value=0.597852	consensus_score=497.2	fisher_strand_p_value=0.25739	frequency=1	ks_quality_p_value=0.974875	major_base=.	major_cov=59/47	major_frequency=9.725e-01	minor_base=G	minor_cov=3/0	new_cov=59/47	polymorphism_frequency=9.725e-01	polymorphism_score=4.8	prediction=consensus	ref_cov=3/0	total_cov=62/47
RA	184	.	NC_000913	4616669	0	G	T	bias_e_value=4641650	bias_p_value=1	consensus_score=330.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=36/61	major_frequency=9.898e-01	minor_base=G	minor_cov=0/1	new_cov=36/61	polymorphism_frequency=9.898e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=36/62
MC	185	.	NC_000913	257908	258683	766	0	left_inside_cov=0	left_outside_cov=130	right_inside_cov=13	right_outside_cov=138
MC	186	.	NC_000913	323451	362203	0	0	left_inside_cov=0	left_outside_cov=98	right_inside_cov=0	right_outside_cov=111
MC	187	.	NC_000913	1652878	1657840	0	0	left_inside_cov=0	left_outside_cov=134	right_inside_cov=0	right_outside_cov=134
MC	188	.	NC_000913	1978503	1979278	766	0	left_inside_cov=3	left_outside_cov=148	right_inside_cov=21	right_outside_cov=162
MC	189	.	NC_000913	2558699	2565488	0	0	left_inside_cov=0	left_outside_cov=96	right_inside_cov=1	right_outside_cov=97
MC	190	.	NC_000913	3423812	3424448	422	210	left_inside_cov=35	left_outside_cov=36	right_inside_cov=34	right_outside_cov=36
MC	191	.	NC_000913	4035375	4036920	358	1185	left_inside_cov=32	left_outside_cov=43	right_inside_cov=33	right_outside_cov=36
JC	192	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=71	coverage_plus=58	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=295	max_left_minus=295	max_left_plus=242	max_min_left=149	max_min_left_minus=149	max_min_left_plus=128	max_min_right=147	max_min_right_minus=147	max_min_right_plus=134	max_pos_hash_score=590	max_right=299	max_right_minus=287	max_right_plus=299	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.24	new_junction_read_count=134	polymorphism_frequency=1.000e+00	pos_hash_score=71	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=129
JC	193	.	NC_000913	15387	1	NC_000913	458795	-1	0	alignment_overlap=4	coverage_minus=55	coverage_plus=43	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=290	key=NC_000913__15387__1__NC_000913__458799__-1__4____300__300__1__0	max_left=293	max_left_minus=293	max_left_plus=275	max_min_left=144	max_min_left_minus=144	max_min_left_plus=143	max_min_right=147	max_min_right_minus=147	max_min_right_plus=144	max_pos_hash_score=582	max_right=291	max_right_minus=288	max_right_plus=291	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.95	new_junction_read_count=101	polymorphism_frequency=1.000e+00	pos_hash_score=65	prediction=consensus	read_count_offset=6	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=4	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=284	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=98
JC	194	.	NC_000913	257907	-1	NC_000913	258684	1	0	alignment_overlap=8	coverage_minus=52	coverage_plus=67	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=289	max_left_minus=289	max_left_plus=287	max_min_left=143	max_min_left_minus=100	max_min_left_plus=143	max_min_right=145	max_min_right_minus=143	max_min_right_plus=145	max_pos_hash_score=574	max_right=245	max_right_minus=245	max_right_plus=235	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.19	new_junction_read_count=125	polymorphism_frequency=1.000e+00	pos_hash_score=71	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=119
JC	195	.	NC_000913	257908	1	NC_000913	258921	1	0	alignment_overlap=0	coverage_minus=95	coverage_plus=39	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__257908__1__NC_000913__258921__1__0____300__300__1__0	max_left=286	max_left_minus=286	max_left_plus=263	max_min_left=140	max_min_left_minus=140	max_min_left_plus=140	max_min_right=149	max_min_right_minus=149	max_min_right_plus=145	max_pos_hash_score=590	max_right=295	max_right_minus=294	max_right_plus=295	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.25	new_junction_read_count=135	polymorphism_frequency=1.000e+00	pos_hash_score=78	prediction=consensus	read_count_offset=9	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=285	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=134
JC	196	.	NC_000913	257908	1	NC_000913	323450	-1	0	alignment_overlap=0	coverage_minus=47	coverage_plus=49	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__257908__1__NC_000913__323450__-1__0____300__300__1__0	max_left=296	max_left_minus=286	max_left_plus=296	max_min_left=143	max_min_left_minus=139	max_min_left_plus=143	max_min_right=141	max_min_right_minus=139	max_min_right_plus=141	max_pos_hash_score=590	max_right=295	max_right_minus=295	max_right_plus=293	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.90	new_junction_read_count=98	polymorphism_frequency=1.000e+00	pos_hash_score=62	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=96
JC	197	.	NC_000913	258675	-1	NC_000913	258929	-1	0	alignment_overlap=0	coverage_minus=42	coverage_plus=53	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__258675__-1__NC_000913__258929__-1__0____300__300__1__0	max_left=296	max_left_minus=296	max_left_plus=289	max_min_left=147	max_min_left_minus=147	max_min_left_plus=140	max_min_right=147	max_min_right_minus=147	max_min_right_plus=124	max_pos_hash_score=590	max_right=254	max_right_minus=254	max_right_plus=250	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.96	new_junction_read_count=104	polymorphism_frequency=1.000e+00	pos_hash_score=57	prediction=consensus	read_count_offset=9	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=285	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=95
JC	198	.	NC_000913	258675	-1	NC_000913	362204	1	0	alignment_overlap=0	coverage_minus=66	coverage_plus=42	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__258675__-1__NC_000913__362204__1__0____300__300__1__0	max_left=291	max_left_minus=263	max_left_plus=291	max_min_left=148	max_min_left_minus=148	max_min_left_plus=146	max_min_right=147	max_min_right_minus=147	max_min_right_plus=136	max_pos_hash_score=590	max_right=297	max_right_minus=297	max_right_plus=296	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.02	new_junction_read_count=110	polymorphism_frequency=1.000e+00	pos_hash_score=76	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=108
JC	199	.	NC_000913	271761	-1	NC_000913	3131574	-1	0	alignment_overlap=1	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.909e-02	junction_possible_overlap_registers=293	key=NC_000913__271762__-1__NC_000913__3131574__-1__1____300__300__0__0	max_left=143	max_left_minus=111	max_left_plus=143	max_min_left=143	max_min_left_minus=111	max_min_left_plus=143	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=588	max_right=187	max_right_minus=187	max_right_plus=172	neg_log10_pos_hash_p_value=9.6	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.909e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.68	side_2_overlap=1	side_2_possible_overlap_registers=294	side_2_read_count=74	side_2_redundant=0	total_non_overlap_reads=3
JC	200	.	NC_000913	271761	-1	NC_000913	4640419	-1	0	alignment_overlap=3	coverage_minus=6	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=5.891e-01	junction_possible_overlap_registers=291	key=NC_000913__271762__-1__NC_000913__4640421__-1__3____300__300__0__0	max_left=282	max_left_minus=282	max_left_plus=273	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=120	max_min_right_minus=113	max_min_right_plus=120	max_pos_hash_score=584	max_right=120	max_right_minus=113	max_right_plus=120	neg_log10_pos_hash_p_value=7.1	new_junction_coverage=0.09	new_junction_read_count=10	polymorphism_frequency=5.891e-01	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=2	side_1_read_count=NA	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.07	side_2_overlap=1	side_2_possible_overlap_registers=292	side_2_read_count=7	side_2_redundant=0	total_non_overlap_reads=10
JC	201	.	NC_000913	273955	1	NC_000913	681659	-1	0	alignment_overlap=0	coverage_minus=47	coverage_plus=33	flanking_left=300	flanking_right=300	frequency=7.593e-01	junction_possible_overlap_registers=294	key=NC_000913__273955__1__NC_000913__681659__-1__0____300__300__1__0	max_left=283	max_left_minus=283	max_left_plus=272	max_min_left=149	max_min_left_minus=131	max_min_left_plus=149	max_min_right=143	max_min_right_minus=143	max_min_right_plus=81	max_pos_hash_score=590	max_right=299	max_right_minus=299	max_right_plus=290	neg_log10_pos_hash_p_value=0.7	new_junction_coverage=0.76	new_junction_read_count=82	polymorphism_frequency=7.593e-01	pos_hash_score=53	prediction=polymorphism	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.24	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=26	side_2_redundant=0	total_non_overlap_reads=80
JC	202	.	NC_000913	280111	-1	NC_000913	3131574	-1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.896e-02	junction_possible_overlap_registers=294	key=NC_000913__280111__-1__NC_000913__3131574__-1__0____300__300__0__0	max_left=143	max_left_minus=111	max_left_plus=143	max_min_left=143	max_min_left_minus=111	max_min_left_plus=143	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=590	max_right=188	max_right_minus=188	max_right_plus=173	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.896e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.68	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=74	side_2_redundant=0	total_non_overlap_reads=3
JC	203	.	NC_000913	458790	1	NC_000913	609350	-1	0	alignment_overlap=3	coverage_minus=50	coverage_plus=56	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=291	key=NC_000913__458787__1__NC_000913__609350__-1__3____300__300__0__1	max_left=296	max_left_minus=295	max_left_plus=296	max_min_left=143	max_min_left_minus=143	max_min_left_plus=133	max_min_right=143	max_min_right_minus=138	max_min_right_plus=143	max_pos_hash_score=584	max_right=292	max_right_minus=292	max_right_plus=287	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=1.01	new_junction_read_count=108	polymorphism_frequency=1.000e+00	pos_hash_score=60	prediction=consensus	read_count_offset=6	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=285	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=3	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=106
JC	204	.	NC_000913	696469	-1	NC_000913	696941	1	-36	alignment_overlap=-36	coverage_minus=8	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=1.839e-01	junction_possible_overlap_registers=258	key=NC_000913__696469__-1__NC_000913__696941__1__-36__TAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAA__300__300__0__0	max_left=262	max_left_minus=262	max_left_plus=262	max_min_left=34	max_min_left_minus=0	max_min_left_plus=34	max_min_right=122	max_min_right_minus=82	max_min_right_plus=122	max_pos_hash_score=518	max_right=166	max_right_minus=82	max_right_plus=166	neg_log10_pos_hash_p_value=4.8	new_junction_coverage=0.19	new_junction_read_count=18	polymorphism_frequency=1.839e-01	pos_hash_score=13	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.94	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=102	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=294	side_2_read_count=80	side_2_redundant=0	total_non_overlap_reads=14	unique_read_sequence=TAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAA
JC	205	.	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=5.421e-02	junction_possible_overlap_registers=249	key=NC_000913__696506__-1__NC_000913__697057__1__-45__AAATTGGTTTTGAATTTGCCGAACATATTCGATACATTCAGAATT__300__300__0__0	max_left=231	max_left_minus=231	max_left_plus=223	max_min_left=71	max_min_left_minus=71	max_min_left_plus=71	max_min_right=46	max_min_right_minus=24	max_min_right_plus=46	max_pos_hash_score=500	max_right=103	max_right_minus=103	max_right_plus=103	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.421e-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=1.06	side_1_overlap=0	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=0.84	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=91	side_2_redundant=0	total_non_overlap_reads=5	unique_read_sequence=AAATTGGTTTTGAATTTGCCGAACATATTCGATACATTCAGAATT
JC	206	.	NC_000913	732239	-1	NC_000913	3622029	1	0	alignment_overlap=12	coverage_minus=4	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=1.664e-01	junction_possible_overlap_registers=282	key=NC_000913__732239__-1__NC_000913__3622017__1__12____300__300__0__0	max_left=140	max_left_minus=140	max_left_plus=118	max_min_left=140	max_min_left_minus=140	max_min_left_plus=118	max_min_right=110	max_min_right_minus=110	max_min_right_plus=0	max_pos_hash_score=566	max_right=170	max_right_minus=158	max_right_plus=170	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=1.664e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.43	side_1_overlap=12	side_1_possible_overlap_registers=294	side_1_read_count=47	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.05	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=5	side_2_redundant=0	total_non_overlap_reads=5
JC	207	.	NC_000913	732239	-1	NC_000913	3765020	1	0	alignment_overlap=12	coverage_minus=4	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=1.637e-01	junction_possible_overlap_registers=282	key=NC_000913__732239__-1__NC_000913__3765008__1__12____300__300__0__0	max_left=140	max_left_minus=140	max_left_plus=118	max_min_left=140	max_min_left_minus=140	max_min_left_plus=118	max_min_right=110	max_min_right_minus=110	max_min_right_plus=0	max_pos_hash_score=566	max_right=170	max_right_minus=158	max_right_plus=170	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=1.637e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.43	side_1_overlap=12	side_1_possible_overlap_registers=294	side_1_read_count=47	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.06	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=6	side_2_redundant=0	total_non_overlap_reads=5
JC	208	.	NC_000913	781322	-1	NC_000913	781811	1	0	alignment_overlap=39	coverage_minus=5	coverage_plus=5	flanking_left=300	flanking_right=300	frequency=1.408e-01	junction_possible_overlap_registers=255	key=NC_000913__781322__-1__NC_000913__781772__1__39____300__300__0__0	max_left=150	max_left_minus=150	max_left_plus=150	max_min_left=45	max_min_left_minus=45	max_min_left_plus=45	max_min_right=64	max_min_right_minus=64	max_min_right_plus=64	max_pos_hash_score=512	max_right=114	max_right_minus=96	max_right_plus=114	neg_log10_pos_hash_p_value=6.0	new_junction_coverage=0.12	new_junction_read_count=11	polymorphism_frequency=1.408e-01	pos_hash_score=9	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.61	side_1_overlap=39	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=0.82	side_2_overlap=0	side_2_possible_overlap_registers=255	side_2_read_count=77	side_2_redundant=0	total_non_overlap_reads=10
JC	209	.	NC_000913	781577	1	NC_000913	2521006	-1	-4	alignment_overlap=-4	coverage_minus=5	coverage_plus=7	flanking_left=300	flanking_right=300	frequency=1.548e-01	junction_possible_overlap_registers=290	key=NC_000913__781577__1__NC_000913__2521006__-1__-4__GAAG__300__300__0__0	max_left=196	max_left_minus=180	max_left_plus=196	max_min_left=48	max_min_left_minus=0	max_min_left_plus=48	max_min_right=129	max_min_right_minus=129	max_min_right_plus=100	max_pos_hash_score=582	max_right=275	max_right_minus=129	max_right_plus=275	neg_log10_pos_hash_p_value=7.1	new_junction_coverage=0.14	new_junction_read_count=15	polymorphism_frequency=1.548e-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=0.66	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=71	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.88	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=95	side_2_redundant=0	total_non_overlap_reads=12	unique_read_sequence=GAAG
JC	210	.	NC_000913	1094245	1	NC_000913	3429990	-1	0	alignment_overlap=1	coverage_minus=51	coverage_plus=59	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__1094245__1__NC_000913__3429991__-1__1____300__300__1__0	max_left=296	max_left_minus=295	max_left_plus=296	max_min_left=140	max_min_left_minus=136	max_min_left_plus=140	max_min_right=139	max_min_right_minus=138	max_min_right_plus=139	max_pos_hash_score=588	max_right=295	max_right_minus=295	max_right_plus=288	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.05	new_junction_read_count=113	polymorphism_frequency=9.911e-01	pos_hash_score=73	prediction=consensus	read_count_offset=3	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=0.01	side_2_overlap=0	side_2_possible_overlap_registers=290	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=110
JC	211	.	NC_000913	1166125	-1	NC_000913	1166621	1	0	alignment_overlap=15	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.326e-02	junction_possible_overlap_registers=279	key=NC_000913__1166125__-1__NC_000913__1166606__1__15____300__300__0__0	max_left=137	max_left_minus=137	max_left_plus=77	max_min_left=77	max_min_left_minus=77	max_min_left_plus=77	max_min_right=18	max_min_right_minus=18	max_min_right_plus=17	max_pos_hash_score=560	max_right=84	max_right_minus=84	max_right_plus=84	neg_log10_pos_hash_p_value=8.2	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.326e-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=0.95	side_1_overlap=15	side_1_possible_overlap_registers=294	side_1_read_count=103	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.78	side_2_overlap=0	side_2_possible_overlap_registers=279	side_2_read_count=80	side_2_redundant=0	total_non_overlap_reads=5
JC	212	.	NC_000913	1207790	1	NC_000913	1209619	1	0	alignment_overlap=16	coverage_minus=53	coverage_plus=30	flanking_left=300	flanking_right=300	frequency=6.999e-01	junction_possible_overlap_registers=278	key=NC_000913__1207790__1__NC_000913__1209603__1__16____300__300__0__0	max_left=281	max_left_minus=255	max_left_plus=281	max_min_left=138	max_min_left_minus=134	max_min_left_plus=138	max_min_right=142	max_min_right_minus=134	max_min_right_plus=142	max_pos_hash_score=558	max_right=283	max_right_minus=283	max_right_plus=280	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.83	new_junction_read_count=85	polymorphism_frequency=6.999e-01	pos_hash_score=60	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=294	side_1_read_count=39	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.35	side_2_overlap=0	side_2_possible_overlap_registers=278	side_2_read_count=36	side_2_redundant=0	total_non_overlap_reads=83
JC	213	.	NC_000913	1207805	-1	NC_000913	1209602	-1	0	alignment_overlap=16	coverage_minus=38	coverage_plus=26	flanking_left=300	flanking_right=300	frequency=6.408e-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=276	max_min_left=126	max_min_left_minus=126	max_min_left_plus=108	max_min_right=142	max_min_right_minus=142	max_min_right_plus=117	max_pos_hash_score=558	max_right=274	max_right_minus=262	max_right_plus=274	neg_log10_pos_hash_p_value=1.0	new_junction_coverage=0.63	new_junction_read_count=65	polymorphism_frequency=6.408e-01	pos_hash_score=44	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=294	side_1_read_count=39	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.35	side_2_overlap=0	side_2_possible_overlap_registers=278	side_2_read_count=36	side_2_redundant=0	total_non_overlap_reads=64
JC	214	.	NC_000913	1286906	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=5	coverage_plus=4	flanking_left=300	flanking_right=300	frequency=1.455e-01	junction_possible_overlap_registers=274	key=NC_000913__1286906__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=270	max_left_minus=270	max_left_plus=135	max_min_left=135	max_min_left_minus=0	max_min_left_plus=135	max_min_right=76	max_min_right_minus=76	max_min_right_plus=60	max_pos_hash_score=550	max_right=145	max_right_minus=76	max_right_plus=145	neg_log10_pos_hash_p_value=6.8	new_junction_coverage=0.11	new_junction_read_count=11	polymorphism_frequency=1.455e-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=0.65	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=0.63	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=64	side_2_redundant=0	total_non_overlap_reads=9
JC	215	.	NC_000913	1299498	-1	NC_000913	1300698	1	0	alignment_overlap=4	coverage_minus=92	coverage_plus=69	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=290	key=NC_000913__1299498__-1__NC_000913__1300694__1__4____300__300__0__0	max_left=294	max_left_minus=290	max_left_plus=294	max_min_left=144	max_min_left_minus=139	max_min_left_plus=144	max_min_right=144	max_min_right_minus=143	max_min_right_plus=144	max_pos_hash_score=582	max_right=295	max_right_minus=292	max_right_plus=295	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.51	new_junction_read_count=161	polymorphism_frequency=1.000e+00	pos_hash_score=104	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=161
JC	216	.	NC_000913	1652877	-1	NC_000913	1657841	1	0	alignment_overlap=0	coverage_minus=52	coverage_plus=74	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1652877__-1__NC_000913__1657841__1__0____300__300__0__0	max_left=299	max_left_minus=291	max_left_plus=299	max_min_left=149	max_min_left_minus=145	max_min_left_plus=149	max_min_right=147	max_min_right_minus=147	max_min_right_plus=123	max_pos_hash_score=590	max_right=297	max_right_minus=297	max_right_plus=292	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.24	new_junction_read_count=134	polymorphism_frequency=1.000e+00	pos_hash_score=73	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=126
JC	217	.	NC_000913	1978502	-1	NC_000913	1979279	1	0	alignment_overlap=8	coverage_minus=64	coverage_plus=67	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=286	key=NC_000913__1978502__-1__NC_000913__1979271__1__8____300__300__0__0	max_left=290	max_left_minus=290	max_left_plus=286	max_min_left=144	max_min_left_minus=132	max_min_left_plus=144	max_min_right=140	max_min_right_minus=138	max_min_right_plus=140	max_pos_hash_score=574	max_right=211	max_right_minus=211	max_right_plus=209	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=1.34	new_junction_read_count=141	polymorphism_frequency=9.898e-01	pos_hash_score=58	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=8	side_1_possible_overlap_registers=294	side_1_read_count=3	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=286	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=131
JC	218	.	NC_000913	1979486	1	NC_000913	2101749	1	0	alignment_overlap=0	coverage_minus=60	coverage_plus=75	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1979486__1__NC_000913__2101749__1__0____300__300__0__1	max_left=292	max_left_minus=284	max_left_plus=292	max_min_left=141	max_min_left_minus=141	max_min_left_plus=138	max_min_right=149	max_min_right_minus=149	max_min_right_plus=141	max_pos_hash_score=590	max_right=293	max_right_minus=293	max_right_plus=285	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.27	new_junction_read_count=138	polymorphism_frequency=1.000e+00	pos_hash_score=84	prediction=consensus	read_count_offset=4	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=290	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=135
JC	219	.	NC_000913	1979489	-1	NC_000913	2290113	-1	0	alignment_overlap=0	coverage_minus=27	coverage_plus=58	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1979489__-1__NC_000913__2290113__-1__0____300__300__0__1	max_left=219	max_left_minus=214	max_left_plus=219	max_min_left=144	max_min_left_minus=123	max_min_left_plus=144	max_min_right=132	max_min_right_minus=132	max_min_right_plus=132	max_pos_hash_score=590	max_right=288	max_right_minus=278	max_right_plus=288	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.85	new_junction_read_count=92	polymorphism_frequency=1.000e+00	pos_hash_score=58	prediction=consensus	read_count_offset=4	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=290	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=85
JC	220	.	NC_000913	2170171	1	NC_000913	2468300	-1	0	alignment_overlap=0	coverage_minus=75	coverage_plus=69	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__2170171__1__NC_000913__2468300__-1__0____300__300__1__0	max_left=295	max_left_minus=290	max_left_plus=295	max_min_left=142	max_min_left_minus=142	max_min_left_plus=136	max_min_right=149	max_min_right_minus=149	max_min_right_plus=145	max_pos_hash_score=590	max_right=285	max_right_minus=285	max_right_plus=282	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.38	new_junction_read_count=149	polymorphism_frequency=1.000e+00	pos_hash_score=93	prediction=consensus	read_count_offset=3	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=291	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=144
JC	221	.	NC_000913	2170171	1	NC_000913	2903398	-1	0	alignment_overlap=0	coverage_minus=3	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.217e-02	junction_possible_overlap_registers=294	key=NC_000913__2170171__1__NC_000913__2903398__-1__0____300__300__1__0	max_left=235	max_left_minus=209	max_left_plus=235	max_min_left=123	max_min_left_minus=71	max_min_left_plus=123	max_min_right=116	max_min_right_minus=91	max_min_right_plus=116	max_pos_hash_score=590	max_right=237	max_right_minus=237	max_right_plus=177	neg_log10_pos_hash_p_value=8.0	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=5.217e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.01	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=109	side_2_redundant=0	total_non_overlap_reads=6
JC	222	.	NC_000913	2170171	1	NC_000913	3429988	1	0	alignment_overlap=2	coverage_minus=46	coverage_plus=45	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=292	key=NC_000913__2170171__1__NC_000913__3429986__1__2____300__300__1__0	max_left=293	max_left_minus=292	max_left_plus=293	max_min_left=148	max_min_left_minus=148	max_min_left_plus=141	max_min_right=142	max_min_right_minus=140	max_min_right_plus=142	max_pos_hash_score=586	max_right=297	max_right_minus=297	max_right_plus=293	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.85	new_junction_read_count=91	polymorphism_frequency=1.000e+00	pos_hash_score=59	prediction=consensus	read_count_offset=3	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=2	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=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=91
JC	223	.	NC_000913	2171428	-1	NC_000913	2468298	1	0	alignment_overlap=1	coverage_minus=50	coverage_plus=65	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__2171428__-1__NC_000913__2468297__1__1____300__300__1__0	max_left=297	max_left_minus=297	max_left_plus=296	max_min_left=148	max_min_left_minus=146	max_min_left_plus=148	max_min_right=142	max_min_right_minus=140	max_min_right_plus=142	max_pos_hash_score=588	max_right=297	max_right_minus=297	max_right_plus=297	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=1.08	new_junction_read_count=117	polymorphism_frequency=1.000e+00	pos_hash_score=67	prediction=consensus	read_count_offset=3	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=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=115
JC	224	.	NC_000913	2357664	-1	NC_000913	2357848	1	0	alignment_overlap=11	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=2.609e-02	junction_possible_overlap_registers=283	key=NC_000913__2357664__-1__NC_000913__2357837__1__11____300__300__0__0	max_left=238	max_left_minus=238	max_left_plus=122	max_min_left=143	max_min_left_minus=143	max_min_left_plus=122	max_min_right=14	max_min_right_minus=14	max_min_right_plus=0	max_pos_hash_score=568	max_right=166	max_right_minus=146	max_right_plus=166	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.609e-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=294	side_1_read_count=134	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=283	side_2_read_count=95	side_2_redundant=0	total_non_overlap_reads=3
JC	225	.	NC_000913	2357690	-1	NC_000913	2357874	1	0	alignment_overlap=25	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.535e-02	junction_possible_overlap_registers=269	key=NC_000913__2357690__-1__NC_000913__2357849__1__25____300__300__0__0	max_left=189	max_left_minus=189	max_left_plus=150	max_min_left=21	max_min_left_minus=21	max_min_left_plus=21	max_min_right=114	max_min_right_minus=81	max_min_right_plus=114	max_pos_hash_score=540	max_right=146	max_right_minus=146	max_right_plus=146	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=4.535e-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=1.25	side_1_overlap=25	side_1_possible_overlap_registers=294	side_1_read_count=135	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=269	side_2_read_count=87	side_2_redundant=0	total_non_overlap_reads=5
JC	226	.	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=7.703e-02	junction_possible_overlap_registers=254	key=NC_000913__2357730__-1__NC_000913__2357886__1__40____300__300__0__0	max_left=253	max_left_minus=177	max_left_plus=253	max_min_left=93	max_min_left_minus=93	max_min_left_plus=36	max_min_right=83	max_min_right_minus=83	max_min_right_plus=23	max_pos_hash_score=510	max_right=198	max_right_minus=194	max_right_plus=198	neg_log10_pos_hash_p_value=6.4	new_junction_coverage=0.09	new_junction_read_count=8	polymorphism_frequency=7.703e-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=1.17	side_1_overlap=40	side_1_possible_overlap_registers=294	side_1_read_count=127	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=254	side_2_read_count=82	side_2_redundant=0	total_non_overlap_reads=8
JC	227	.	NC_000913	2558698	-1	NC_000913	2565489	1	0	alignment_overlap=8	coverage_minus=41	coverage_plus=51	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=290	max_left_minus=269	max_left_plus=290	max_min_left=141	max_min_left_minus=140	max_min_left_plus=141	max_min_right=142	max_min_right_minus=127	max_min_right_plus=142	max_pos_hash_score=574	max_right=268	max_right_minus=268	max_right_plus=265	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.91	new_junction_read_count=96	polymorphism_frequency=1.000e+00	pos_hash_score=59	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=92
JC	228	.	NC_000913	2714396	-1	NC_000913	3270072	1	-10	alignment_overlap=-10	coverage_minus=0	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=6.137e-02	junction_possible_overlap_registers=284	key=NC_000913__2714396__-1__NC_000913__3270072__1__-10__CAACAATCTG__300__300__0__0	max_left=51	max_left_minus=0	max_left_plus=51	max_min_left=51	max_min_left_minus=0	max_min_left_plus=51	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=570	max_right=283	max_right_minus=0	max_right_plus=283	neg_log10_pos_hash_p_value=7.8	new_junction_coverage=0.06	new_junction_read_count=6	polymorphism_frequency=6.137e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.95	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=103	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.80	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=87	side_2_redundant=0	total_non_overlap_reads=6	unique_read_sequence=CAACAATCTG
JC	229	.	NC_000913	2817668	-1	NC_000913	2818216	1	0	alignment_overlap=21	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.009e-02	junction_possible_overlap_registers=273	key=NC_000913__2817668__-1__NC_000913__2818195__1__21____300__300__0__0	max_left=83	max_left_minus=83	max_left_plus=83	max_min_left=5	max_min_left_minus=0	max_min_left_plus=5	max_min_right=47	max_min_right_minus=47	max_min_right_plus=47	max_pos_hash_score=548	max_right=191	max_right_minus=47	max_right_plus=191	neg_log10_pos_hash_p_value=9.3	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=4.009e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.35	side_1_overlap=21	side_1_possible_overlap_registers=294	side_1_read_count=146	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.56	side_2_overlap=0	side_2_possible_overlap_registers=273	side_2_read_count=56	side_2_redundant=0	total_non_overlap_reads=3
JC	230	.	NC_000913	2904225	-1	NC_000913	2904409	1	0	alignment_overlap=30	coverage_minus=3	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=6.493e-02	junction_possible_overlap_registers=264	key=NC_000913__2904225__-1__NC_000913__2904379__1__30____300__300__0__0	max_left=99	max_left_minus=99	max_left_plus=1	max_min_left=99	max_min_left_minus=99	max_min_left_plus=1	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=530	max_right=269	max_right_minus=211	max_right_plus=269	neg_log10_pos_hash_p_value=7.4	new_junction_coverage=0.07	new_junction_read_count=7	polymorphism_frequency=6.493e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.85	side_1_overlap=30	side_1_possible_overlap_registers=294	side_1_read_count=92	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.22	side_2_overlap=0	side_2_possible_overlap_registers=264	side_2_read_count=119	side_2_redundant=0	total_non_overlap_reads=6
JC	231	.	NC_000913	3131574	-1	NC_000913	4507459	1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.896e-02	junction_possible_overlap_registers=294	key=NC_000913__3131574__-1__NC_000913__4507459__1__0____300__300__0__1	max_left=188	max_left_minus=173	max_left_plus=188	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=143	max_min_right_minus=143	max_min_right_plus=111	max_pos_hash_score=590	max_right=143	max_right_minus=143	max_right_plus=111	neg_log10_pos_hash_p_value=9.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.896e-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=0.68	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=74	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=3
JC	232	.	NC_000913	3350556	1	NC_000913	3583428	1	0	alignment_overlap=0	coverage_minus=39	coverage_plus=48	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__3350556__1__NC_000913__3583428__1__0____300__300__0__1	max_left=297	max_left_minus=297	max_left_plus=293	max_min_left=142	max_min_left_minus=125	max_min_left_plus=142	max_min_right=150	max_min_right_minus=127	max_min_right_plus=150	max_pos_hash_score=590	max_right=289	max_right_minus=262	max_right_plus=289	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.84	new_junction_read_count=91	polymorphism_frequency=1.000e+00	pos_hash_score=59	prediction=consensus	read_count_offset=8	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=286	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=87
JC	233	.	NC_000913	3350563	-1	NC_000913	3584195	-1	0	alignment_overlap=0	coverage_minus=67	coverage_plus=75	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__3350563__-1__NC_000913__3584195__-1__0____300__300__0__1	max_left=297	max_left_minus=294	max_left_plus=297	max_min_left=149	max_min_left_minus=149	max_min_left_plus=140	max_min_right=149	max_min_right_minus=148	max_min_right_plus=149	max_pos_hash_score=590	max_right=291	max_right_minus=271	max_right_plus=291	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.34	new_junction_read_count=145	polymorphism_frequency=1.000e+00	pos_hash_score=86	prediction=consensus	read_count_offset=8	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=286	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=142
JC	234	.	NC_000913	3468761	-1	NC_000913	3469086	1	0	alignment_overlap=2	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.333e-02	junction_possible_overlap_registers=292	key=NC_000913__3468761__-1__NC_000913__3469084__1__2____300__300__0__0	max_left=88	max_left_minus=88	max_left_plus=88	max_min_left=88	max_min_left_minus=88	max_min_left_plus=88	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=586	max_right=127	max_right_minus=127	max_right_plus=127	neg_log10_pos_hash_p_value=9.6	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.333e-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=1.08	side_1_overlap=2	side_1_possible_overlap_registers=294	side_1_read_count=117	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.25	side_2_overlap=0	side_2_possible_overlap_registers=292	side_2_read_count=135	side_2_redundant=0	total_non_overlap_reads=3
JC	235	.	NC_000913	3468773	-1	NC_000913	3469401	1	0	alignment_overlap=11	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=3.352e-02	junction_possible_overlap_registers=283	key=NC_000913__3468773__-1__NC_000913__3469390__1__11____300__300__0__0	max_left=30	max_left_minus=30	max_left_plus=30	max_min_left=11	max_min_left_minus=11	max_min_left_plus=0	max_min_right=27	max_min_right_minus=27	max_min_right_plus=27	max_pos_hash_score=568	max_right=40	max_right_minus=40	max_right_plus=27	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.352e-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=1.07	side_1_overlap=11	side_1_possible_overlap_registers=294	side_1_read_count=116	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.14	side_2_overlap=0	side_2_possible_overlap_registers=283	side_2_read_count=119	side_2_redundant=0	total_non_overlap_reads=3
JC	236	.	NC_000913	3469405	-1	NC_000913	3469715	1	0	alignment_overlap=16	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.086e-02	junction_possible_overlap_registers=278	key=NC_000913__3469405__-1__NC_000913__3469699__1__16____300__300__0__0	max_left=138	max_left_minus=138	max_left_plus=117	max_min_left=59	max_min_left_minus=0	max_min_left_plus=59	max_min_right=105	max_min_right_minus=105	max_min_right_plus=105	max_pos_hash_score=558	max_right=105	max_right_minus=105	max_right_plus=105	neg_log10_pos_hash_p_value=8.7	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.086e-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=16	side_1_possible_overlap_registers=294	side_1_read_count=124	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.31	side_2_overlap=0	side_2_possible_overlap_registers=278	side_2_read_count=134	side_2_redundant=0	total_non_overlap_reads=4
JC	237	.	NC_000913	3583428	1	NC_000913	4542049	-1	0	alignment_overlap=1	coverage_minus=72	coverage_plus=53	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__3583428__1__NC_000913__4542050__-1__1____300__300__1__0	max_left=288	max_left_minus=277	max_left_plus=288	max_min_left=141	max_min_left_minus=141	max_min_left_plus=136	max_min_right=147	max_min_right_minus=147	max_min_right_plus=145	max_pos_hash_score=588	max_right=297	max_right_minus=293	max_right_plus=297	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.21	new_junction_read_count=131	polymorphism_frequency=1.000e+00	pos_hash_score=68	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=125
JC	238	.	NC_000913	3584195	-1	NC_000913	4542042	1	0	alignment_overlap=0	coverage_minus=75	coverage_plus=46	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__3584195__-1__NC_000913__4542042__1__0____300__300__1__0	max_left=294	max_left_minus=291	max_left_plus=294	max_min_left=144	max_min_left_minus=144	max_min_left_plus=143	max_min_right=138	max_min_right_minus=138	max_min_right_plus=138	max_pos_hash_score=590	max_right=298	max_right_minus=298	max_right_plus=297	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.14	new_junction_read_count=123	polymorphism_frequency=1.000e+00	pos_hash_score=71	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=121
JC	239	.	NC_000913	3621836	-1	NC_000913	3622017	1	0	alignment_overlap=12	coverage_minus=4	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=5.104e-01	junction_possible_overlap_registers=282	key=NC_000913__3621848__-1__NC_000913__3622017__1__12____300__300__1__0	max_left=140	max_left_minus=140	max_left_plus=118	max_min_left=140	max_min_left_minus=140	max_min_left_plus=118	max_min_right=110	max_min_right_minus=110	max_min_right_plus=0	max_pos_hash_score=566	max_right=170	max_right_minus=158	max_right_plus=170	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=5.104e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.05	side_2_overlap=12	side_2_possible_overlap_registers=294	side_2_read_count=5	side_2_redundant=0	total_non_overlap_reads=5
JC	240	.	NC_000913	3626042	-1	NC_000913	3626294	1	0	alignment_overlap=11	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=2.978e-02	junction_possible_overlap_registers=283	key=NC_000913__3626042__-1__NC_000913__3626283__1__11____300__300__0__0	max_left=277	max_left_minus=277	max_left_plus=156	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=132	max_min_right_minus=98	max_min_right_plus=132	max_pos_hash_score=568	max_right=132	max_right_minus=98	max_right_plus=132	neg_log10_pos_hash_p_value=9.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.978e-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=11	side_1_possible_overlap_registers=294	side_1_read_count=94	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.01	side_2_overlap=0	side_2_possible_overlap_registers=283	side_2_read_count=105	side_2_redundant=0	total_non_overlap_reads=3
JC	241	.	NC_000913	3651580	-1	NC_000913	3652036	1	0	alignment_overlap=0	coverage_minus=6	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.333e-02	junction_possible_overlap_registers=294	key=NC_000913__3651580__-1__NC_000913__3652036__1__0____300__300__0__1	max_left=237	max_left_minus=237	max_left_plus=201	max_min_left=130	max_min_left_minus=73	max_min_left_plus=130	max_min_right=97	max_min_right_minus=65	max_min_right_plus=97	max_pos_hash_score=590	max_right=260	max_right_minus=260	max_right_plus=170	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.07	new_junction_read_count=8	polymorphism_frequency=5.333e-02	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.31	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=142	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=8
JC	242	.	NC_000913	3764827	-1	NC_000913	3765008	1	0	alignment_overlap=12	coverage_minus=4	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=4.649e-01	junction_possible_overlap_registers=282	key=NC_000913__3764839__-1__NC_000913__3765008__1__12____300__300__1__0	max_left=140	max_left_minus=140	max_left_plus=118	max_min_left=140	max_min_left_minus=140	max_min_left_plus=118	max_min_right=110	max_min_right_minus=110	max_min_right_plus=0	max_pos_hash_score=566	max_right=170	max_right_minus=158	max_right_plus=170	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.05	new_junction_read_count=5	polymorphism_frequency=4.649e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.06	side_2_overlap=12	side_2_possible_overlap_registers=294	side_2_read_count=6	side_2_redundant=0	total_non_overlap_reads=5
JC	243	.	NC_000913	4094350	-1	NC_000913	4094719	1	0	alignment_overlap=41	coverage_minus=5	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=1.357e-01	junction_possible_overlap_registers=253	key=NC_000913__4094350__-1__NC_000913__4094678__1__41____300__300__0__0	max_left=219	max_left_minus=219	max_left_plus=59	max_min_left=116	max_min_left_minus=116	max_min_left_plus=59	max_min_right=86	max_min_right_minus=86	max_min_right_plus=0	max_pos_hash_score=508	max_right=199	max_right_minus=192	max_right_plus=199	neg_log10_pos_hash_p_value=6.8	new_junction_coverage=0.10	new_junction_read_count=9	polymorphism_frequency=1.357e-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=0.62	side_1_overlap=41	side_1_possible_overlap_registers=294	side_1_read_count=67	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.61	side_2_overlap=0	side_2_possible_overlap_registers=253	side_2_read_count=57	side_2_redundant=0	total_non_overlap_reads=8
JC	244	.	NC_000913	4235952	-1	NC_000913	4236085	1	0	alignment_overlap=11	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.370e-02	junction_possible_overlap_registers=283	key=NC_000913__4235952__-1__NC_000913__4236074__1__11____300__300__0__0	max_left=253	max_left_minus=253	max_left_plus=106	max_min_left=106	max_min_left_minus=0	max_min_left_plus=106	max_min_right=89	max_min_right_minus=89	max_min_right_plus=0	max_pos_hash_score=568	max_right=221	max_right_minus=89	max_right_plus=221	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.04	new_junction_read_count=4	polymorphism_frequency=3.370e-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=11	side_1_possible_overlap_registers=294	side_1_read_count=124	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.05	side_2_overlap=0	side_2_possible_overlap_registers=283	side_2_read_count=110	side_2_redundant=0	total_non_overlap_reads=4
JC	245	.	NC_000913	4507459	1	NC_000913	4640419	-1	0	alignment_overlap=2	coverage_minus=66	coverage_plus=58	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=292	key=NC_000913__4507459__1__NC_000913__4640421__-1__2____300__300__1__0	max_left=291	max_left_minus=287	max_left_plus=291	max_min_left=140	max_min_left_minus=138	max_min_left_plus=140	max_min_right=145	max_min_right_minus=145	max_min_right_plus=138	max_pos_hash_score=586	max_right=296	max_right_minus=295	max_right_plus=296	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.16	new_junction_read_count=125	polymorphism_frequency=9.539e-01	pos_hash_score=79	prediction=consensus	read_count_offset=2	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=2	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.06	side_2_overlap=0	side_2_possible_overlap_registers=290	side_2_read_count=6	side_2_redundant=0	total_non_overlap_reads=124
JC	246	.	NC_000913	4508679	-1	NC_000913	4640418	1	0	alignment_overlap=1	coverage_minus=65	coverage_plus=48	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__4508679__-1__NC_000913__4640417__1__1____300__300__1__0	max_left=297	max_left_minus=267	max_left_plus=297	max_min_left=141	max_min_left_minus=135	max_min_left_plus=141	max_min_right=136	max_min_right_minus=121	max_min_right_plus=136	max_pos_hash_score=588	max_right=297	max_right_minus=297	max_right_plus=294	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.08	new_junction_read_count=117	polymorphism_frequency=9.509e-01	pos_hash_score=74	prediction=consensus	read_count_offset=2	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=0.06	side_2_overlap=0	side_2_possible_overlap_registers=291	side_2_read_count=6	side_2_redundant=0	total_non_overlap_reads=113
JC	247	.	NC_000913	4542682	1	NC_000913	4542996	1	0	alignment_overlap=9	coverage_minus=31	coverage_plus=73	flanking_left=300	flanking_right=300	frequency=7.890e-01	junction_possible_overlap_registers=285	key=NC_000913__4542682__1__NC_000913__4542987__1__9____300__300__0__0	max_left=290	max_left_minus=290	max_left_plus=281	max_min_left=141	max_min_left_minus=141	max_min_left_plus=141	max_min_right=136	max_min_right_minus=136	max_min_right_plus=124	max_pos_hash_score=572	max_right=276	max_right_minus=260	max_right_plus=276	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=1.00	new_junction_read_count=105	polymorphism_frequency=7.890e-01	pos_hash_score=60	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.26	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=28	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.28	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=29	side_2_redundant=0	total_non_overlap_reads=104
JC	248	.	NC_000913	4542690	-1	NC_000913	4542986	-1	0	alignment_overlap=9	coverage_minus=70	coverage_plus=48	flanking_left=300	flanking_right=300	frequency=7.872e-01	junction_possible_overlap_registers=285	key=NC_000913__4542690__-1__NC_000913__4542995__-1__9____300__300__0__0	max_left=284	max_left_minus=275	max_left_plus=284	max_min_left=144	max_min_left_minus=144	max_min_left_plus=139	max_min_right=142	max_min_right_minus=142	max_min_right_plus=130	max_pos_hash_score=572	max_right=288	max_right_minus=288	max_right_plus=287	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.14	new_junction_read_count=120	polymorphism_frequency=7.872e-01	pos_hash_score=69	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.34	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=37	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.28	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=29	side_2_redundant=0	total_non_overlap_reads=118
UN	249	.	NC_000913	15663	16458
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