#=GENOME_DIFF	1.0
#=CREATED	18:12:44 28 Nov 2024
#=PROGRAM	breseq 0.39.0 
#=COMMAND	breseq -j 8 -o /ld1/breseq_work/20231211run9/CV54_S10_L001_R1R2_001 -r /ld1/E.coli_MG1655_ref/MG1655/ncbi_dataset/data/GCF_000005845.2/genomic.gbff /ld1/raw_sequence_data/20231211run9/CV54_S10_L001_R1_001.fastq.gz /ld1/raw_sequence_data/20231211run9/CV54_S10_L001_R2_001.fastq.gz
#=REFSEQ	/ld1/E.coli_MG1655_ref/MG1655/ncbi_dataset/data/GCF_000005845.2/genomic.gbff
#=READSEQ	/ld1/raw_sequence_data/20231211run9/CV54_S10_L001_R1_001.fastq.gz
#=READSEQ	/ld1/raw_sequence_data/20231211run9/CV54_S10_L001_R2_001.fastq.gz
#=CONVERTED-BASES	169454412
#=CONVERTED-READS	704010
#=INPUT-BASES	169465866
#=INPUT-READS	704190
#=MAPPED-BASES	146844568
#=MAPPED-READS	615398
DEL	1	175	NC_000913	59092	15	repeat_length=15	repeat_new_copies=1	repeat_ref_copies=2	repeat_seq=CGGACGGTGCTAACC
SNP	2	87	NC_000913	100946	C
SNP	3	88	NC_000913	246747	T
DEL	4	166,179	NC_000913	257908	776
SNP	5	89	NC_000913	284535	G
SNP	6	90	NC_000913	302186	T
SNP	7	91	NC_000913	313543	A
SNP	8	92	NC_000913	367573	A
SUB	9	93,94	NC_000913	480295	2	AA
SNP	10	95	NC_000913	606499	A
SNP	11	96	NC_000913	657294	A
SNP	12	97	NC_000913	696470	T
MOB	13	180,181	NC_000913	788785	IS1	1	9
SNP	14	99	NC_000913	1001251	C
SNP	15	100	NC_000913	1148972	T
SNP	16	101	NC_000913	1169836	G
SNP	17	102	NC_000913	1189980	G
SNP	18	103	NC_000913	1287040	A
DEL	19	167,188	NC_000913	1299499	1199
SNP	20	104	NC_000913	1301992	T
SNP	21	105	NC_000913	1303150	A
SNP	22	106	NC_000913	1306736	G
SNP	23	107	NC_000913	1336674	A
SNP	24	108	NC_000913	1337394	G
SNP	25	109	NC_000913	1339315	T
SNP	26	110	NC_000913	1358859	C
SNP	27	111	NC_000913	1494914	T
SNP	28	112	NC_000913	1525172	T
SNP	29	113	NC_000913	1547958	T
MOB	30	189,190	NC_000913	1633132	IS5	1	4
SNP	31	114	NC_000913	1643679	T
SNP	32	115	NC_000913	1652331	C
SNP	33	116	NC_000913	1829887	A
SNP	34	117	NC_000913	1894839	C
SNP	35	118	NC_000913	1934804	G
DEL	36	168,191	NC_000913	1978503	776
SNP	37	119	NC_000913	2040433	A
SNP	38	120	NC_000913	2042171	A
SNP	39	121	NC_000913	2044642	C
DEL	40	122	NC_000913	2111259	1
DEL	41	123,124	NC_000913	2173363	2
SNP	42	125	NC_000913	2173448	T
MOB	43	192,197	NC_000913	2174205	IS1	1	9
MOB	44	193,194	NC_000913	2187650	IS1	-1	9
SNP	45	126	NC_000913	2237235	T
SNP	46	127	NC_000913	2331496	A
MOB	47	195,196	NC_000913	2468298	IS3	1	3
SNP	48	128	NC_000913	2587112	T
SNP	49	129	NC_000913	2867455	A
SNP	50	130	NC_000913	2877914	G
SNP	51	131	NC_000913	2926772	A
SNP	52	132	NC_000913	3152494	T
DEL	53	133	NC_000913	3207549	1
SNP	54	134	NC_000913	3266159	C
SNP	55	135	NC_000913	3266469	A
SNP	56	136	NC_000913	3329743	T
MOB	57	200,201	NC_000913	3350556	IS1	-1	8
SNP	58	137	NC_000913	3388041	G
MOB	59	183,185	NC_000913	3429986	IS3	-1	5	ins_end=T
SNP	60	138	NC_000913	3560443	G
INS	61	139	NC_000913	3560455	G
SNP	62	140	NC_000913	3707883	A
SNP	63	141	NC_000913	3707947	A
SNP	64	142	NC_000913	3725176	G
INS	65	143	NC_000913	3815883	C
SNP	66	144	NC_000913	3828830	C
SNP	67	145	NC_000913	4141053	A
SNP	68	146	NC_000913	4143377	T
SNP	69	147	NC_000913	4193996	G
DEL	70	148	NC_000913	4212973	1
SNP	71	149	NC_000913	4223638	C
SUB	72	150,151	NC_000913	4293781	2	AT
INS	73	152,153	NC_000913	4296381	GC
SNP	74	154	NC_000913	4325644	T
SNP	75	155	NC_000913	4392725	T
SNP	76	156	NC_000913	4400254	T
SNP	77	157	NC_000913	4423337	T
SNP	78	158	NC_000913	4449586	A
SNP	79	159	NC_000913	4473900	T
SNP	80	160	NC_000913	4475493	C
SNP	81	161	NC_000913	4510238	G
SNP	82	162	NC_000913	4532409	G
MOB	83	202,203	NC_000913	4541967	IS5	-1	4
SNP	84	163	NC_000913	4546601	T
SNP	85	164	NC_000913	4636925	C
SNP	86	165	NC_000913	4638240	A
RA	87	.	NC_000913	100946	0	T	C	bias_e_value=4625890	bias_p_value=0.996604	consensus_score=173.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.918721	major_base=C	major_cov=28/21	major_frequency=9.423e-01	minor_base=T	minor_cov=2/1	new_cov=28/21	polymorphism_frequency=9.423e-01	polymorphism_score=1.4	prediction=consensus	ref_cov=2/1	total_cov=30/22
RA	88	.	NC_000913	246747	0	G	T	bias_e_value=4641650	bias_p_value=1	consensus_score=244.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=50/26	major_frequency=9.744e-01	minor_base=G	minor_cov=1/1	new_cov=50/26	polymorphism_frequency=9.744e-01	polymorphism_score=-4.0	prediction=consensus	ref_cov=1/1	total_cov=51/27
RA	89	.	NC_000913	284535	0	T	G	bias_e_value=3434200	bias_p_value=0.739866	consensus_score=246.6	fisher_strand_p_value=0.394737	frequency=1	ks_quality_p_value=0.942426	major_base=G	major_cov=29/46	major_frequency=9.868e-01	minor_base=T	minor_cov=1/0	new_cov=29/46	polymorphism_frequency=9.868e-01	polymorphism_score=-5.6	prediction=consensus	ref_cov=1/0	total_cov=30/46
RA	90	.	NC_000913	302186	0	C	T	bias_e_value=4636900	bias_p_value=0.998977	consensus_score=175.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.955106	major_base=T	major_cov=23/32	major_frequency=9.649e-01	minor_base=C	minor_cov=1/1	new_cov=23/32	polymorphism_frequency=9.649e-01	polymorphism_score=-3.9	prediction=consensus	ref_cov=1/1	total_cov=24/33
RA	91	.	NC_000913	313543	0	G	A	consensus_score=77.7	frequency=1	major_base=A	major_cov=7/17	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/17	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/17
RA	92	.	NC_000913	367573	0	G	A	bias_e_value=4023050	bias_p_value=0.866728	consensus_score=162.4	fisher_strand_p_value=0.560071	frequency=1	ks_quality_p_value=0.94699	major_base=A	major_cov=20/31	major_frequency=9.444e-01	minor_base=G	minor_cov=2/1	new_cov=20/31	polymorphism_frequency=9.444e-01	polymorphism_score=-3.3	prediction=consensus	ref_cov=2/1	total_cov=22/32
RA	93	.	NC_000913	480295	0	G	A	bias_e_value=3461640	bias_p_value=0.745778	consensus_score=55.4	fisher_strand_p_value=0.485714	frequency=1	ks_quality_p_value=0.778313	major_base=A	major_cov=10/9	major_frequency=9.048e-01	minor_base=G	minor_cov=2/0	new_cov=10/9	polymorphism_frequency=9.048e-01	polymorphism_score=0.0	prediction=consensus	ref_cov=2/0	total_cov=12/9
RA	94	.	NC_000913	480296	0	G	A	bias_e_value=3615230	bias_p_value=0.778866	consensus_score=55.0	fisher_strand_p_value=0.485714	frequency=1	ks_quality_p_value=0.851802	major_base=A	major_cov=10/9	major_frequency=9.048e-01	minor_base=G	minor_cov=2/0	new_cov=10/9	polymorphism_frequency=9.048e-01	polymorphism_score=-0.4	prediction=consensus	ref_cov=2/0	total_cov=12/9
RA	95	.	NC_000913	606499	0	G	A	bias_e_value=3578270	bias_p_value=0.770903	consensus_score=78.8	fisher_strand_p_value=0.44	frequency=1	ks_quality_p_value=0.920044	major_base=A	major_cov=14/10	major_frequency=9.600e-01	minor_base=G	minor_cov=0/1	new_cov=14/10	polymorphism_frequency=9.600e-01	polymorphism_score=-4.0	prediction=consensus	ref_cov=0/1	total_cov=14/11
RA	96	.	NC_000913	657294	0	G	A	bias_e_value=4641640	bias_p_value=0.999997	consensus_score=91.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.997358	major_base=A	major_cov=15/12	major_frequency=9.643e-01	minor_base=G	minor_cov=1/0	new_cov=15/12	polymorphism_frequency=9.643e-01	polymorphism_score=-5.4	prediction=consensus	ref_cov=1/0	total_cov=16/12
RA	97	.	NC_000913	696470	0	C	T	consensus_score=66.5	frequency=1	major_base=T	major_cov=11/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/11
RA	98	.	NC_000913	898192	0	C	T	bias_e_value=26840.6	bias_p_value=0.00578256	consensus_reject=FREQUENCY_CUTOFF	consensus_score=42.4	fisher_strand_p_value=0.00069965	frequency=3.000e-01	ks_quality_p_value=1	major_base=C	major_cov=15/6	major_frequency=7.000e-01	minor_base=T	minor_cov=0/9	new_cov=0/9	polymorphism_frequency=3.000e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=15/6	total_cov=15/16
RA	99	.	NC_000913	1001251	0	A	C	bias_e_value=4641650	bias_p_value=1	consensus_score=107.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=17/12	major_frequency=9.667e-01	minor_base=A	minor_cov=1/0	new_cov=17/12	polymorphism_frequency=9.667e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=18/12
RA	100	.	NC_000913	1148972	0	C	T	bias_e_value=3308950	bias_p_value=0.712882	consensus_score=129.7	fisher_strand_p_value=0.439024	frequency=1	ks_quality_p_value=0.787396	major_base=T	major_cov=17/23	major_frequency=9.756e-01	minor_base=C	minor_cov=1/0	new_cov=17/23	polymorphism_frequency=9.756e-01	polymorphism_score=-4.0	prediction=consensus	ref_cov=1/0	total_cov=18/23
RA	101	.	NC_000913	1169836	0	A	G	consensus_score=79.3	frequency=1	major_base=G	major_cov=15/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/9
RA	102	.	NC_000913	1189980	0	A	G	consensus_score=97.0	frequency=1	major_base=G	major_cov=11/17	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/17	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/17
RA	103	.	NC_000913	1287040	0	G	A	bias_e_value=3395330	bias_p_value=0.731491	consensus_score=19.5	fisher_strand_p_value=0.363636	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=3/7	major_frequency=9.091e-01	minor_base=G	minor_cov=1/0	new_cov=3/7	polymorphism_frequency=9.091e-01	polymorphism_score=-7.2	prediction=consensus	ref_cov=1/0	total_cov=4/7
RA	104	.	NC_000913	1301992	0	A	T	consensus_score=104.7	frequency=1	major_base=T	major_cov=19/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=19/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=19/15
RA	105	.	NC_000913	1303150	0	T	A	bias_e_value=4641650	bias_p_value=1	consensus_score=90.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=14/13	major_frequency=9.643e-01	minor_base=C	minor_cov=0/1	new_cov=14/13	polymorphism_frequency=9.643e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=14/14
RA	106	.	NC_000913	1306736	0	T	G	consensus_score=71.4	frequency=1	major_base=G	major_cov=10/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/12
RA	107	.	NC_000913	1336674	0	G	A	consensus_score=96.2	frequency=1	major_base=A	major_cov=17/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=17/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=17/12
RA	108	.	NC_000913	1337394	0	A	G	consensus_score=77.1	frequency=1	major_base=G	major_cov=12/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/11
RA	109	.	NC_000913	1339315	0	C	T	consensus_score=63.3	frequency=1	major_base=T	major_cov=9/10	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/10	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/10
RA	110	.	NC_000913	1358859	0	T	C	consensus_score=115.7	frequency=1	major_base=C	major_cov=19/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=19/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=19/21
RA	111	.	NC_000913	1494914	0	G	T	consensus_score=74.9	frequency=1	major_base=T	major_cov=11/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/13
RA	112	.	NC_000913	1525172	0	C	T	consensus_score=82.6	frequency=1	major_base=T	major_cov=12/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/19
RA	113	.	NC_000913	1547958	0	G	T	bias_e_value=3297630	bias_p_value=0.710442	consensus_score=170.5	fisher_strand_p_value=0.343396	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=28/24	major_frequency=9.286e-01	minor_base=G	minor_cov=1/3	new_cov=28/24	polymorphism_frequency=9.286e-01	polymorphism_score=-0.4	prediction=consensus	ref_cov=1/3	total_cov=29/27
RA	114	.	NC_000913	1643679	0	A	T	consensus_score=80.1	frequency=1	major_base=T	major_cov=13/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/11
RA	115	.	NC_000913	1652331	0	T	C	bias_e_value=4641430	bias_p_value=0.999952	consensus_score=96.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.990196	major_base=C	major_cov=14/14	major_frequency=9.655e-01	minor_base=A	minor_cov=1/0	new_cov=14/14	polymorphism_frequency=9.655e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/14
RA	116	.	NC_000913	1829887	0	G	A	bias_e_value=3839220	bias_p_value=0.827124	consensus_score=112.0	fisher_strand_p_value=0.473684	frequency=1	ks_quality_p_value=0.998579	major_base=A	major_cov=17/20	major_frequency=9.737e-01	minor_base=T	minor_cov=1/0	new_cov=17/20	polymorphism_frequency=9.737e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=18/20
RA	117	.	NC_000913	1894839	0	T	C	consensus_score=71.2	frequency=1	major_base=C	major_cov=11/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/9
RA	118	.	NC_000913	1934804	0	A	G	bias_e_value=4626400	bias_p_value=0.996715	consensus_score=72.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.920044	major_base=G	major_cov=10/14	major_frequency=9.600e-01	minor_base=A	minor_cov=0/1	new_cov=10/14	polymorphism_frequency=9.600e-01	polymorphism_score=-4.7	prediction=consensus	ref_cov=0/1	total_cov=10/15
RA	119	.	NC_000913	2040433	0	C	A	bias_e_value=3853940	bias_p_value=0.830296	consensus_score=118.1	fisher_strand_p_value=0.477273	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=20/23	major_frequency=9.773e-01	minor_base=C	minor_cov=1/0	new_cov=20/23	polymorphism_frequency=9.773e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=21/24
RA	120	.	NC_000913	2042171	0	G	A	bias_e_value=4421740	bias_p_value=0.952622	consensus_score=87.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.708412	major_base=A	major_cov=11/15	major_frequency=9.630e-01	minor_base=G	minor_cov=0/1	new_cov=11/15	polymorphism_frequency=9.630e-01	polymorphism_score=-3.6	prediction=consensus	ref_cov=0/1	total_cov=11/16
RA	121	.	NC_000913	2044642	0	T	C	bias_e_value=3301380	bias_p_value=0.711251	consensus_score=96.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.344154	major_base=C	major_cov=6/24	major_frequency=9.375e-01	minor_base=T	minor_cov=0/2	new_cov=6/24	polymorphism_frequency=9.375e-01	polymorphism_score=-1.1	prediction=consensus	ref_cov=0/2	total_cov=6/26
RA	122	.	NC_000913	2111259	0	G	.	bias_e_value=4641650	bias_p_value=1	consensus_score=168.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=.	major_cov=19/18	major_frequency=9.737e-01	minor_base=C	minor_cov=0/1	new_cov=19/18	polymorphism_frequency=9.737e-01	polymorphism_score=-4.3	prediction=consensus	ref_cov=0/0	total_cov=19/19
RA	123	.	NC_000913	2173363	0	C	.	bias_e_value=319823	bias_p_value=0.0689029	consensus_score=63.8	fisher_strand_p_value=0.0175439	frequency=1	ks_quality_p_value=0.733742	major_base=.	major_cov=16/1	major_frequency=8.947e-01	minor_base=C	minor_cov=0/2	new_cov=16/1	polymorphism_frequency=8.947e-01	polymorphism_score=3.5	prediction=consensus	ref_cov=0/2	total_cov=16/3
RA	124	.	NC_000913	2173364	0	C	.	bias_e_value=319823	bias_p_value=0.0689029	consensus_score=64.1	fisher_strand_p_value=0.0175439	frequency=1	ks_quality_p_value=0.733742	major_base=.	major_cov=16/1	major_frequency=8.947e-01	minor_base=C	minor_cov=0/2	new_cov=16/1	polymorphism_frequency=8.947e-01	polymorphism_score=3.2	prediction=consensus	ref_cov=0/2	total_cov=16/3
RA	125	.	NC_000913	2173448	0	C	T	consensus_score=72.7	frequency=1	major_base=T	major_cov=16/5	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=16/5	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=16/5
RA	126	.	NC_000913	2237235	0	C	T	consensus_score=78.8	frequency=1	major_base=T	major_cov=11/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/13
RA	127	.	NC_000913	2331496	0	C	A	bias_e_value=4615010	bias_p_value=0.99426	consensus_score=133.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.894783	major_base=A	major_cov=20/21	major_frequency=9.535e-01	minor_base=C	minor_cov=1/1	new_cov=20/21	polymorphism_frequency=9.535e-01	polymorphism_score=-3.9	prediction=consensus	ref_cov=1/1	total_cov=21/22
RA	128	.	NC_000913	2587112	0	C	T	bias_e_value=3879680	bias_p_value=0.835839	consensus_score=104.9	fisher_strand_p_value=0.484848	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=15/17	major_frequency=9.697e-01	minor_base=C	minor_cov=1/0	new_cov=15/17	polymorphism_frequency=9.697e-01	polymorphism_score=-6.0	prediction=consensus	ref_cov=1/0	total_cov=16/17
RA	129	.	NC_000913	2867455	0	G	A	bias_e_value=3674790	bias_p_value=0.791699	consensus_score=83.7	fisher_strand_p_value=0.428571	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=11/16	major_frequency=9.643e-01	minor_base=C	minor_cov=1/0	new_cov=11/16	polymorphism_frequency=9.643e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/16
RA	130	.	NC_000913	2877914	0	C	G	bias_e_value=2502450	bias_p_value=0.539128	consensus_score=61.2	fisher_strand_p_value=0.45	frequency=1	ks_quality_p_value=0.468652	major_base=G	major_cov=11/8	major_frequency=9.500e-01	minor_base=C	minor_cov=0/1	new_cov=11/8	polymorphism_frequency=9.500e-01	polymorphism_score=-2.5	prediction=consensus	ref_cov=0/1	total_cov=11/9
RA	131	.	NC_000913	2926772	0	C	A	bias_e_value=4641530	bias_p_value=0.999975	consensus_score=104.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.992895	major_base=A	major_cov=16/17	major_frequency=9.706e-01	minor_base=C	minor_cov=1/0	new_cov=16/17	polymorphism_frequency=9.706e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=17/17
RA	132	.	NC_000913	3152494	0	G	T	bias_e_value=3628110	bias_p_value=0.781643	consensus_score=76.1	fisher_strand_p_value=0.540323	frequency=1	ks_quality_p_value=0.771561	major_base=T	major_cov=19/10	major_frequency=9.062e-01	minor_base=G	minor_cov=1/2	new_cov=19/10	polymorphism_frequency=9.062e-01	polymorphism_score=-1.1	prediction=consensus	ref_cov=1/2	total_cov=21/12
RA	133	.	NC_000913	3207549	0	G	.	consensus_score=132.0	frequency=1	major_base=.	major_cov=17/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=17/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=17/14
RA	134	.	NC_000913	3266159	0	A	C	consensus_score=75.5	frequency=1	major_base=C	major_cov=12/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/13
RA	135	.	NC_000913	3266469	0	C	A	consensus_score=65.6	frequency=1	major_base=A	major_cov=12/8	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/8	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/8
RA	136	.	NC_000913	3329743	0	G	T	consensus_score=64.6	frequency=1	major_base=T	major_cov=11/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/9
RA	137	.	NC_000913	3388041	0	T	G	consensus_score=81.5	frequency=1	major_base=G	major_cov=12/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/14
RA	138	.	NC_000913	3560443	0	C	G	bias_e_value=4630430	bias_p_value=0.997583	consensus_score=83.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.931285	major_base=G	major_cov=12/17	major_frequency=9.355e-01	minor_base=T	minor_cov=1/1	new_cov=12/17	polymorphism_frequency=9.355e-01	polymorphism_score=-5.2	prediction=consensus	ref_cov=0/0	total_cov=13/18
RA	139	.	NC_000913	3560455	1	.	G	consensus_score=105.0	frequency=1	major_base=G	major_cov=13/20	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/20	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/20
RA	140	.	NC_000913	3707883	0	G	A	bias_e_value=4640150	bias_p_value=0.999677	consensus_score=86.8	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.974685	major_base=A	major_cov=11/15	major_frequency=9.630e-01	minor_base=T	minor_cov=0/1	new_cov=11/15	polymorphism_frequency=9.630e-01	polymorphism_score=-4.5	prediction=consensus	ref_cov=0/0	total_cov=11/16
RA	141	.	NC_000913	3707947	0	C	A	consensus_score=62.5	frequency=1	major_base=A	major_cov=7/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/14
RA	142	.	NC_000913	3725176	0	T	G	consensus_score=76.5	frequency=1	major_base=G	major_cov=11/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/14
RA	143	.	NC_000913	3815883	1	.	C	bias_e_value=3311260	bias_p_value=0.713379	consensus_score=80.5	fisher_strand_p_value=0.346154	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=17/8	major_frequency=9.615e-01	minor_base=.	minor_cov=0/1	new_cov=17/8	polymorphism_frequency=9.615e-01	polymorphism_score=-4.3	prediction=consensus	ref_cov=0/1	total_cov=17/9
RA	144	.	NC_000913	3828830	0	T	C	consensus_score=75.8	frequency=1	major_base=C	major_cov=7/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=7/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=7/14
RA	145	.	NC_000913	4141053	0	G	A	bias_e_value=1474500	bias_p_value=0.317667	consensus_score=121.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.0945961	major_base=A	major_cov=18/22	major_frequency=9.302e-01	minor_base=G	minor_cov=1/2	new_cov=18/22	polymorphism_frequency=9.302e-01	polymorphism_score=1.9	prediction=consensus	ref_cov=1/2	total_cov=20/24
RA	146	.	NC_000913	4143377	0	C	T	bias_e_value=3619920	bias_p_value=0.779878	consensus_score=96.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.41488	major_base=T	major_cov=12/19	major_frequency=9.394e-01	minor_base=C	minor_cov=1/1	new_cov=12/19	polymorphism_frequency=9.394e-01	polymorphism_score=-0.8	prediction=consensus	ref_cov=1/1	total_cov=13/20
RA	147	.	NC_000913	4193996	0	T	G	bias_e_value=3323140	bias_p_value=0.715939	consensus_score=151.0	fisher_strand_p_value=0.489796	frequency=1	ks_quality_p_value=0.711673	major_base=G	major_cov=23/25	major_frequency=9.796e-01	minor_base=T	minor_cov=1/0	new_cov=23/25	polymorphism_frequency=9.796e-01	polymorphism_score=-4.4	prediction=consensus	ref_cov=1/0	total_cov=24/25
RA	148	.	NC_000913	4212973	0	T	.	consensus_score=19.7	frequency=1	major_base=.	major_cov=2/6	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=2/6	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=2/6
RA	149	.	NC_000913	4223638	0	T	C	consensus_score=63.9	frequency=1	major_base=C	major_cov=5/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=5/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=5/16
RA	150	.	NC_000913	4293781	0	G	A	bias_e_value=4630620	bias_p_value=0.997623	consensus_score=45.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.931846	major_base=A	major_cov=8/9	major_frequency=8.500e-01	minor_base=G	minor_cov=2/1	new_cov=8/9	polymorphism_frequency=8.500e-01	polymorphism_score=0.8	prediction=consensus	ref_cov=2/1	total_cov=10/10
RA	151	.	NC_000913	4293782	0	C	T	bias_e_value=4630620	bias_p_value=0.997623	consensus_score=46.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.931846	major_base=T	major_cov=8/9	major_frequency=8.500e-01	minor_base=C	minor_cov=2/1	new_cov=8/9	polymorphism_frequency=8.500e-01	polymorphism_score=2.2	prediction=consensus	ref_cov=2/1	total_cov=10/10
RA	152	.	NC_000913	4296380	1	.	C	consensus_score=84.8	frequency=1	major_base=C	major_cov=12/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/15
RA	153	.	NC_000913	4296380	2	.	G	consensus_score=81.9	frequency=1	major_base=G	major_cov=12/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/15
RA	154	.	NC_000913	4325644	0	C	T	bias_e_value=4641370	bias_p_value=0.99994	consensus_score=124.9	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.989084	major_base=T	major_cov=24/16	major_frequency=9.756e-01	minor_base=G	minor_cov=1/0	new_cov=24/16	polymorphism_frequency=9.756e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=25/16
RA	155	.	NC_000913	4392725	0	C	T	bias_e_value=2337850	bias_p_value=0.503668	consensus_score=43.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.188876	major_base=T	major_cov=9/11	major_frequency=8.333e-01	minor_base=C	minor_cov=2/2	new_cov=9/11	polymorphism_frequency=8.333e-01	polymorphism_score=6.3	prediction=consensus	ref_cov=2/2	total_cov=11/13
RA	156	.	NC_000913	4400254	0	C	T	bias_e_value=3714380	bias_p_value=0.800229	consensus_score=58.7	fisher_strand_p_value=0.47619	frequency=1	ks_quality_p_value=0.921439	major_base=T	major_cov=11/9	major_frequency=9.091e-01	minor_base=C	minor_cov=0/2	new_cov=11/9	polymorphism_frequency=9.091e-01	polymorphism_score=-1.7	prediction=consensus	ref_cov=0/2	total_cov=11/11
RA	157	.	NC_000913	4423337	0	C	T	consensus_score=113.5	frequency=1	major_base=T	major_cov=13/22	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/22	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/22
RA	158	.	NC_000913	4449586	0	G	A	bias_e_value=2636450	bias_p_value=0.567998	consensus_score=98.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.229981	major_base=A	major_cov=7/24	major_frequency=9.688e-01	minor_base=G	minor_cov=0/1	new_cov=7/24	polymorphism_frequency=9.688e-01	polymorphism_score=-3.6	prediction=consensus	ref_cov=0/1	total_cov=7/25
RA	159	.	NC_000913	4473900	0	C	T	consensus_score=99.3	frequency=1	major_base=T	major_cov=12/17	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/17	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/17
RA	160	.	NC_000913	4475493	0	T	C	consensus_score=44.8	frequency=1	major_base=C	major_cov=8/6	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=8/6	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=8/6
RA	161	.	NC_000913	4510238	0	T	G	bias_e_value=3909860	bias_p_value=0.842343	consensus_score=89.0	fisher_strand_p_value=0.503448	frequency=1	ks_quality_p_value=0.981133	major_base=G	major_cov=12/16	major_frequency=9.333e-01	minor_base=T	minor_cov=0/2	new_cov=12/16	polymorphism_frequency=9.333e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/2	total_cov=12/18
RA	162	.	NC_000913	4532409	0	T	G	bias_e_value=3967480	bias_p_value=0.854757	consensus_score=129.7	fisher_strand_p_value=0.512012	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=25/10	major_frequency=9.459e-01	minor_base=T	minor_cov=1/1	new_cov=25/10	polymorphism_frequency=9.459e-01	polymorphism_score=-3.1	prediction=consensus	ref_cov=1/1	total_cov=26/11
RA	163	.	NC_000913	4546601	0	C	T	consensus_score=87.3	frequency=1	major_base=T	major_cov=13/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/14
RA	164	.	NC_000913	4636925	0	G	C	consensus_score=74.2	frequency=1	major_base=C	major_cov=12/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/11
RA	165	.	NC_000913	4638240	0	G	A	bias_e_value=4060740	bias_p_value=0.874847	consensus_score=164.3	fisher_strand_p_value=0.602041	frequency=1	ks_quality_p_value=0.902658	major_base=A	major_cov=22/25	major_frequency=9.400e-01	minor_base=G	minor_cov=2/1	new_cov=22/25	polymorphism_frequency=9.400e-01	polymorphism_score=-1.1	prediction=consensus	ref_cov=2/1	total_cov=24/26
MC	166	.	NC_000913	257908	258683	0	0	left_inside_cov=0	left_outside_cov=46	right_inside_cov=1	right_outside_cov=47
MC	167	.	NC_000913	1299499	1300697	1197	0	left_inside_cov=0	left_outside_cov=26	right_inside_cov=0	right_outside_cov=26
MC	168	.	NC_000913	1978503	1979278	0	0	left_inside_cov=0	left_outside_cov=20	right_inside_cov=0	right_outside_cov=21
MC	169	.	NC_000913	2558699	2565487	0	0	left_inside_cov=0	left_outside_cov=30	right_inside_cov=4	right_outside_cov=5
MC	170	.	NC_000913	3423859	3424428	374	190	left_inside_cov=4	left_outside_cov=5	right_inside_cov=4	right_outside_cov=5
MC	171	.	NC_000913	4035371	4036856	359	1121	left_inside_cov=4	left_outside_cov=5	right_inside_cov=3	right_outside_cov=5
MC	172	.	NC_000913	4578535	4581932	0	0	left_inside_cov=2	left_outside_cov=35	right_inside_cov=3	right_outside_cov=5
MC	173	.	NC_000913	4582024	4583086	0	0	left_inside_cov=4	left_outside_cov=5	right_inside_cov=1	right_outside_cov=34
JC	174	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=9	coverage_plus=9	flanking_left=251	flanking_right=251	frequency=1	ignore=CIRCULAR_CHROMOSOME	junction_possible_overlap_registers=239	key=NC_000913__1__1__NC_000913__4641652__-1__0____251__251__0__0	max_left=250	max_left_minus=239	max_left_plus=250	max_min_left=113	max_min_left_minus=113	max_min_left_plus=91	max_min_right=104	max_min_right_minus=104	max_min_right_plus=70	max_pos_hash_score=480	max_right=223	max_right_minus=210	max_right_plus=223	neg_log10_pos_hash_p_value=0.7	new_junction_coverage=0.57	new_junction_read_count=18	polymorphism_frequency=1.000e+00	pos_hash_score=18	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=239	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=239	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=18
JC	175	.	NC_000913	59090	1	NC_000913	59074	-1	0	alignment_overlap=17	coverage_minus=6	coverage_plus=7	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=222	key=NC_000913__59090__1__NC_000913__59091__-1__17____251__251__0__0	max_left=207	max_left_minus=207	max_left_plus=207	max_min_left=112	max_min_left_minus=112	max_min_left_plus=46	max_min_right=97	max_min_right_minus=91	max_min_right_plus=97	max_pos_hash_score=446	max_right=201	max_right_minus=201	max_right_plus=188	neg_log10_pos_hash_p_value=1.1	new_junction_coverage=0.45	new_junction_read_count=13	polymorphism_frequency=8.708e-01	pos_hash_score=13	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.06	side_1_overlap=17	side_1_possible_overlap_registers=239	side_1_read_count=2	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.07	side_2_overlap=0	side_2_possible_overlap_registers=222	side_2_read_count=2	side_2_redundant=0	total_non_overlap_reads=13
JC	176	.	NC_000913	168811	-1	NC_000913	258675	-1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=2	flanking_left=251	flanking_right=251	frequency=1.034e-01	junction_possible_overlap_registers=239	key=NC_000913__168811__-1__NC_000913__258675__-1__0____251__251__0__1	max_left=244	max_left_minus=157	max_left_plus=244	max_min_left=108	max_min_left_minus=0	max_min_left_plus=108	max_min_right=94	max_min_right_minus=94	max_min_right_plus=6	max_pos_hash_score=480	max_right=142	max_right_minus=94	max_right_plus=142	neg_log10_pos_hash_p_value=3.4	new_junction_coverage=0.10	new_junction_read_count=3	polymorphism_frequency=1.034e-01	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.83	side_1_overlap=0	side_1_possible_overlap_registers=239	side_1_read_count=26	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	177	.	NC_000913	244134	1	NC_000913	377392	-1	0	alignment_overlap=9	coverage_minus=17	coverage_plus=16	flanking_left=251	flanking_right=251	frequency=5.997e-01	junction_possible_overlap_registers=230	key=NC_000913__244134__1__NC_000913__377401__-1__9____251__251__0__0	max_left=240	max_left_minus=237	max_left_plus=240	max_min_left=116	max_min_left_minus=116	max_min_left_plus=71	max_min_right=102	max_min_right_minus=73	max_min_right_plus=102	max_pos_hash_score=462	max_right=240	max_right_minus=231	max_right_plus=240	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.09	new_junction_read_count=33	polymorphism_frequency=5.997e-01	pos_hash_score=32	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.80	side_1_overlap=9	side_1_possible_overlap_registers=239	side_1_read_count=25	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.66	side_2_overlap=0	side_2_possible_overlap_registers=230	side_2_read_count=20	side_2_redundant=0	total_non_overlap_reads=33
JC	178	.	NC_000913	256107	-1	NC_000913	371382	1	0	alignment_overlap=8	coverage_minus=7	coverage_plus=12	flanking_left=251	flanking_right=251	frequency=2.638e-01	junction_possible_overlap_registers=231	key=NC_000913__256107__-1__NC_000913__371374__1__8____251__251__0__0	max_left=219	max_left_minus=200	max_left_plus=219	max_min_left=102	max_min_left_minus=102	max_min_left_plus=98	max_min_right=116	max_min_right_minus=116	max_min_right_plus=116	max_pos_hash_score=464	max_right=234	max_right_minus=175	max_right_plus=234	neg_log10_pos_hash_p_value=0.7	new_junction_coverage=0.63	new_junction_read_count=19	polymorphism_frequency=2.638e-01	pos_hash_score=18	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.85	side_1_overlap=8	side_1_possible_overlap_registers=239	side_1_read_count=58	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.65	side_2_overlap=0	side_2_possible_overlap_registers=231	side_2_read_count=50	side_2_redundant=0	total_non_overlap_reads=19
JC	179	.	NC_000913	257907	-1	NC_000913	258684	1	0	alignment_overlap=8	coverage_minus=23	coverage_plus=21	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=231	key=NC_000913__257907__-1__NC_000913__258676__1__8____251__251__0__0	max_left=237	max_left_minus=229	max_left_plus=237	max_min_left=119	max_min_left_minus=106	max_min_left_plus=119	max_min_right=117	max_min_right_minus=108	max_min_right_plus=117	max_pos_hash_score=464	max_right=235	max_right_minus=225	max_right_plus=235	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.48	new_junction_read_count=45	polymorphism_frequency=1.000e+00	pos_hash_score=42	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=239	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=231	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=44
JC	180	.	NC_000913	257908	1	NC_000913	788785	1	0	alignment_overlap=0	coverage_minus=18	coverage_plus=18	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__257908__1__NC_000913__788785__1__0____251__251__1__0	max_left=218	max_left_minus=218	max_left_plus=211	max_min_left=124	max_min_left_minus=77	max_min_left_plus=124	max_min_right=121	max_min_right_minus=120	max_min_right_plus=121	max_pos_hash_score=480	max_right=242	max_right_minus=242	max_right_plus=222	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.21	new_junction_read_count=38	polymorphism_frequency=9.481e-01	pos_hash_score=34	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=0.07	side_2_overlap=0	side_2_possible_overlap_registers=230	side_2_read_count=2	side_2_redundant=0	total_non_overlap_reads=36
JC	181	.	NC_000913	258675	-1	NC_000913	788793	-1	0	alignment_overlap=0	coverage_minus=19	coverage_plus=20	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__258675__-1__NC_000913__788793__-1__0____251__251__1__0	max_left=248	max_left_minus=239	max_left_plus=248	max_min_left=105	max_min_left_minus=97	max_min_left_plus=105	max_min_right=116	max_min_right_minus=116	max_min_right_plus=89	max_pos_hash_score=480	max_right=243	max_right_minus=243	max_right_plus=223	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.27	new_junction_read_count=40	polymorphism_frequency=9.506e-01	pos_hash_score=39	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=0.07	side_2_overlap=0	side_2_possible_overlap_registers=230	side_2_read_count=2	side_2_redundant=0	total_non_overlap_reads=39
JC	182	.	NC_000913	258675	-1	NC_000913	1085990	-1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=2	flanking_left=251	flanking_right=251	frequency=1.034e-01	junction_possible_overlap_registers=239	key=NC_000913__258675__-1__NC_000913__1085990__-1__0____251__251__1__0	max_left=215	max_left_minus=34	max_left_plus=215	max_min_left=34	max_min_left_minus=34	max_min_left_plus=34	max_min_right=36	max_min_right_minus=0	max_min_right_plus=36	max_pos_hash_score=480	max_right=92	max_right_minus=92	max_right_plus=92	neg_log10_pos_hash_p_value=3.4	new_junction_coverage=0.10	new_junction_read_count=3	polymorphism_frequency=1.034e-01	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.83	side_2_overlap=0	side_2_possible_overlap_registers=239	side_2_read_count=26	side_2_redundant=0	total_non_overlap_reads=3
JC	183	.	NC_000913	315229	1	NC_000913	3429986	1	-1	alignment_overlap=-1	coverage_minus=13	coverage_plus=21	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=238	key=NC_000913__315229__1__NC_000913__3429986__1__-1__T__251__251__0__0	max_left=246	max_left_minus=242	max_left_plus=246	max_min_left=88	max_min_left_minus=88	max_min_left_plus=80	max_min_right=112	max_min_right_minus=112	max_min_right_plus=91	max_pos_hash_score=478	max_right=235	max_right_minus=235	max_right_plus=230	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.25	new_junction_read_count=39	polymorphism_frequency=9.055e-01	pos_hash_score=31	prediction=consensus	read_count_offset=5	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=0.13	side_2_overlap=0	side_2_possible_overlap_registers=234	side_2_read_count=4	side_2_redundant=0	total_non_overlap_reads=34	unique_read_sequence=T
JC	184	.	NC_000913	366180	-1	NC_000913	366274	1	0	alignment_overlap=0	coverage_minus=23	coverage_plus=25	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__366180__-1__NC_000913__366274__1__0____251__251__0__0	max_left=248	max_left_minus=228	max_left_plus=248	max_min_left=121	max_min_left_minus=121	max_min_left_plus=116	max_min_right=122	max_min_right_minus=122	max_min_right_plus=120	max_pos_hash_score=480	max_right=249	max_right_minus=235	max_right_plus=249	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.56	new_junction_read_count=49	polymorphism_frequency=9.703e-01	pos_hash_score=43	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.06	side_1_overlap=0	side_1_possible_overlap_registers=239	side_1_read_count=2	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=0	side_2_possible_overlap_registers=239	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=48
JC	185	.	NC_000913	1094245	1	NC_000913	3429990	-1	0	alignment_overlap=1	coverage_minus=10	coverage_plus=18	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=238	key=NC_000913__1094245__1__NC_000913__3429991__-1__1____251__251__1__0	max_left=243	max_left_minus=233	max_left_plus=243	max_min_left=121	max_min_left_minus=121	max_min_left_plus=101	max_min_right=115	max_min_right_minus=113	max_min_right_plus=115	max_pos_hash_score=478	max_right=242	max_right_minus=237	max_right_plus=242	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.99	new_junction_read_count=31	polymorphism_frequency=8.835e-01	pos_hash_score=26	prediction=consensus	read_count_offset=5	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.13	side_2_overlap=0	side_2_possible_overlap_registers=233	side_2_read_count=4	side_2_redundant=0	total_non_overlap_reads=28
JC	186	.	NC_000913	1207790	1	NC_000913	1209619	1	0	alignment_overlap=16	coverage_minus=5	coverage_plus=6	flanking_left=251	flanking_right=251	frequency=5.856e-01	junction_possible_overlap_registers=223	key=NC_000913__1207790__1__NC_000913__1209603__1__16____251__251__0__0	max_left=228	max_left_minus=190	max_left_plus=228	max_min_left=80	max_min_left_minus=80	max_min_left_plus=21	max_min_right=95	max_min_right_minus=89	max_min_right_plus=95	max_pos_hash_score=448	max_right=207	max_right_minus=155	max_right_plus=207	neg_log10_pos_hash_p_value=1.3	new_junction_coverage=0.44	new_junction_read_count=13	polymorphism_frequency=5.856e-01	pos_hash_score=11	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.29	side_1_overlap=16	side_1_possible_overlap_registers=239	side_1_read_count=9	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.34	side_2_overlap=0	side_2_possible_overlap_registers=223	side_2_read_count=10	side_2_redundant=0	total_non_overlap_reads=11
JC	187	.	NC_000913	1207805	-1	NC_000913	1209602	-1	0	alignment_overlap=16	coverage_minus=4	coverage_plus=11	flanking_left=251	flanking_right=251	frequency=6.469e-01	junction_possible_overlap_registers=223	key=NC_000913__1207805__-1__NC_000913__1209618__-1__16____251__251__0__0	max_left=228	max_left_minus=184	max_left_plus=228	max_min_left=117	max_min_left_minus=117	max_min_left_plus=86	max_min_right=116	max_min_right_minus=103	max_min_right_plus=116	max_pos_hash_score=448	max_right=205	max_right_minus=118	max_right_plus=205	neg_log10_pos_hash_p_value=0.9	new_junction_coverage=0.55	new_junction_read_count=16	polymorphism_frequency=6.469e-01	pos_hash_score=15	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.25	side_1_overlap=16	side_1_possible_overlap_registers=239	side_1_read_count=8	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.34	side_2_overlap=0	side_2_possible_overlap_registers=223	side_2_read_count=10	side_2_redundant=0	total_non_overlap_reads=15
JC	188	.	NC_000913	1299498	-1	NC_000913	1300698	1	0	alignment_overlap=4	coverage_minus=14	coverage_plus=9	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=235	key=NC_000913__1299498__-1__NC_000913__1300694__1__4____251__251__0__0	max_left=236	max_left_minus=224	max_left_plus=236	max_min_left=112	max_min_left_minus=112	max_min_left_plus=103	max_min_right=113	max_min_right_minus=113	max_min_right_plus=84	max_pos_hash_score=472	max_right=225	max_right_minus=208	max_right_plus=225	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.84	new_junction_read_count=26	polymorphism_frequency=1.000e+00	pos_hash_score=22	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=239	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=235	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=23
JC	189	.	NC_000913	1396044	1	NC_000913	1633135	-1	0	alignment_overlap=2	coverage_minus=5	coverage_plus=12	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=237	key=NC_000913__1396044__1__NC_000913__1633137__-1__2____251__251__1__0	max_left=239	max_left_minus=231	max_left_plus=239	max_min_left=104	max_min_left_minus=104	max_min_left_plus=101	max_min_right=101	max_min_right_minus=18	max_min_right_plus=101	max_pos_hash_score=476	max_right=187	max_right_minus=183	max_right_plus=187	neg_log10_pos_hash_p_value=1.0	new_junction_coverage=0.55	new_junction_read_count=17	polymorphism_frequency=1.000e+00	pos_hash_score=15	prediction=consensus	read_count_offset=4	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=233	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=17
JC	190	.	NC_000913	1633132	1	NC_000913	2101749	1	0	alignment_overlap=1	coverage_minus=10	coverage_plus=9	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=238	key=NC_000913__1633131__1__NC_000913__2101749__1__1____251__251__0__1	max_left=225	max_left_minus=192	max_left_plus=225	max_min_left=95	max_min_left_minus=86	max_min_left_plus=95	max_min_right=122	max_min_right_minus=122	max_min_right_plus=118	max_pos_hash_score=478	max_right=243	max_right_minus=206	max_right_plus=243	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.64	new_junction_read_count=20	polymorphism_frequency=1.000e+00	pos_hash_score=19	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=234	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=1	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=19
JC	191	.	NC_000913	1978502	-1	NC_000913	1979279	1	0	alignment_overlap=8	coverage_minus=8	coverage_plus=10	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=231	key=NC_000913__1978502__-1__NC_000913__1979271__1__8____251__251__0__0	max_left=237	max_left_minus=208	max_left_plus=237	max_min_left=107	max_min_left_minus=102	max_min_left_plus=107	max_min_right=88	max_min_right_minus=71	max_min_right_plus=88	max_pos_hash_score=464	max_right=200	max_right_minus=141	max_right_plus=200	neg_log10_pos_hash_p_value=0.8	new_junction_coverage=0.66	new_junction_read_count=20	polymorphism_frequency=1.000e+00	pos_hash_score=16	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=239	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=231	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=18
JC	192	.	NC_000913	1978503	1	NC_000913	2174205	1	0	alignment_overlap=0	coverage_minus=12	coverage_plus=22	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__1978503__1__NC_000913__2174205__1__0____251__251__1__0	max_left=208	max_left_minus=149	max_left_plus=208	max_min_left=124	max_min_left_minus=108	max_min_left_plus=124	max_min_right=120	max_min_right_minus=114	max_min_right_plus=120	max_pos_hash_score=480	max_right=239	max_right_minus=239	max_right_plus=228	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.08	new_junction_read_count=34	polymorphism_frequency=1.000e+00	pos_hash_score=32	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=230	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=34
JC	193	.	NC_000913	1978503	1	NC_000913	2187658	-1	0	alignment_overlap=0	coverage_minus=6	coverage_plus=16	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__1978503__1__NC_000913__2187658__-1__0____251__251__1__0	max_left=244	max_left_minus=241	max_left_plus=244	max_min_left=110	max_min_left_minus=42	max_min_left_plus=110	max_min_right=109	max_min_right_minus=47	max_min_right_plus=109	max_pos_hash_score=480	max_right=249	max_right_minus=214	max_right_plus=249	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.73	new_junction_read_count=23	polymorphism_frequency=1.000e+00	pos_hash_score=21	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=230	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=22
JC	194	.	NC_000913	1979270	-1	NC_000913	2187650	1	0	alignment_overlap=0	coverage_minus=11	coverage_plus=14	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__1979270__-1__NC_000913__2187650__1__0____251__251__1__0	max_left=208	max_left_minus=192	max_left_plus=208	max_min_left=112	max_min_left_minus=94	max_min_left_plus=112	max_min_right=125	max_min_right_minus=125	max_min_right_plus=118	max_pos_hash_score=480	max_right=238	max_right_minus=238	max_right_plus=228	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.80	new_junction_read_count=25	polymorphism_frequency=1.000e+00	pos_hash_score=24	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=230	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=25
JC	195	.	NC_000913	2170171	1	NC_000913	2468300	-1	0	alignment_overlap=0	coverage_minus=8	coverage_plus=13	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__2170171__1__NC_000913__2468300__-1__0____251__251__1__0	max_left=249	max_left_minus=230	max_left_plus=249	max_min_left=86	max_min_left_minus=86	max_min_left_plus=82	max_min_right=109	max_min_right_minus=109	max_min_right_plus=87	max_pos_hash_score=480	max_right=242	max_right_minus=203	max_right_plus=242	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.73	new_junction_read_count=23	polymorphism_frequency=8.833e-01	pos_hash_score=21	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=0.10	side_2_overlap=0	side_2_possible_overlap_registers=236	side_2_read_count=3	side_2_redundant=0	total_non_overlap_reads=21
JC	196	.	NC_000913	2171428	-1	NC_000913	2468298	1	0	alignment_overlap=1	coverage_minus=9	coverage_plus=18	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=238	key=NC_000913__2171428__-1__NC_000913__2468297__1__1____251__251__1__0	max_left=238	max_left_minus=225	max_left_plus=238	max_min_left=114	max_min_left_minus=70	max_min_left_plus=114	max_min_right=124	max_min_right_minus=124	max_min_right_plus=123	max_pos_hash_score=478	max_right=234	max_right_minus=231	max_right_plus=234	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.86	new_junction_read_count=27	polymorphism_frequency=8.989e-01	pos_hash_score=26	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=0.10	side_2_overlap=0	side_2_possible_overlap_registers=235	side_2_read_count=3	side_2_redundant=0	total_non_overlap_reads=27
JC	197	.	NC_000913	2174213	-1	NC_000913	3583428	1	0	alignment_overlap=0	coverage_minus=10	coverage_plus=16	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__2174213__-1__NC_000913__3583428__1__0____251__251__0__1	max_left=244	max_left_minus=226	max_left_plus=244	max_min_left=108	max_min_left_minus=108	max_min_left_plus=90	max_min_right=113	max_min_right_minus=97	max_min_right_plus=113	max_pos_hash_score=480	max_right=242	max_right_minus=208	max_right_plus=242	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.86	new_junction_read_count=27	polymorphism_frequency=1.000e+00	pos_hash_score=24	prediction=consensus	read_count_offset=9	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=230	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=26
JC	198	.	NC_000913	2558698	-1	NC_000913	2565489	1	0	alignment_overlap=8	coverage_minus=19	coverage_plus=11	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=231	key=NC_000913__2558698__-1__NC_000913__2565481__1__8____251__251__0__0	max_left=237	max_left_minus=237	max_left_plus=217	max_min_left=120	max_min_left_minus=120	max_min_left_plus=115	max_min_right=72	max_min_right_minus=72	max_min_right_plus=62	max_pos_hash_score=464	max_right=236	max_right_minus=236	max_right_plus=233	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.99	new_junction_read_count=30	polymorphism_frequency=1.000e+00	pos_hash_score=29	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=239	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=231	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=30
JC	199	.	NC_000913	3187426	-1	NC_000913	4124494	1	0	alignment_overlap=0	coverage_minus=1	coverage_plus=2	flanking_left=251	flanking_right=251	frequency=6.977e-02	junction_possible_overlap_registers=239	key=NC_000913__3187426__-1__NC_000913__4124494__1__0____251__251__1__0	max_left=135	max_left_minus=135	max_left_plus=135	max_min_left=112	max_min_left_minus=0	max_min_left_plus=112	max_min_right=82	max_min_right_minus=82	max_min_right_plus=82	max_pos_hash_score=480	max_right=139	max_right_minus=82	max_right_plus=139	neg_log10_pos_hash_p_value=3.4	new_junction_coverage=0.10	new_junction_read_count=3	polymorphism_frequency=6.977e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.27	side_2_overlap=0	side_2_possible_overlap_registers=239	side_2_read_count=40	side_2_redundant=0	total_non_overlap_reads=3
JC	200	.	NC_000913	3350556	1	NC_000913	3583428	1	0	alignment_overlap=0	coverage_minus=15	coverage_plus=8	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__3350556__1__NC_000913__3583428__1__0____251__251__0__1	max_left=244	max_left_minus=244	max_left_plus=230	max_min_left=119	max_min_left_minus=50	max_min_left_plus=119	max_min_right=117	max_min_right_minus=117	max_min_right_plus=97	max_pos_hash_score=480	max_right=237	max_right_minus=237	max_right_plus=212	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.73	new_junction_read_count=23	polymorphism_frequency=9.570e-01	pos_hash_score=22	prediction=consensus	read_count_offset=8	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=0	side_1_possible_overlap_registers=231	side_1_read_count=1	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=23
JC	201	.	NC_000913	3350563	-1	NC_000913	3584195	-1	0	alignment_overlap=0	coverage_minus=7	coverage_plus=13	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__3350563__-1__NC_000913__3584195__-1__0____251__251__0__1	max_left=248	max_left_minus=225	max_left_plus=248	max_min_left=112	max_min_left_minus=89	max_min_left_plus=112	max_min_right=120	max_min_right_minus=26	max_min_right_plus=120	max_pos_hash_score=480	max_right=227	max_right_minus=217	max_right_plus=227	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.64	new_junction_read_count=20	polymorphism_frequency=9.508e-01	pos_hash_score=19	prediction=consensus	read_count_offset=8	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=0	side_1_possible_overlap_registers=231	side_1_read_count=1	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=20
JC	202	.	NC_000913	3652036	1	NC_000913	4541970	-1	0	alignment_overlap=0	coverage_minus=9	coverage_plus=19	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__3652036__1__NC_000913__4541970__-1__0____251__251__1__0	max_left=244	max_left_minus=216	max_left_plus=244	max_min_left=118	max_min_left_minus=93	max_min_left_plus=118	max_min_right=104	max_min_right_minus=98	max_min_right_plus=104	max_pos_hash_score=480	max_right=219	max_right_minus=192	max_right_plus=219	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.89	new_junction_read_count=28	polymorphism_frequency=1.000e+00	pos_hash_score=26	prediction=consensus	read_count_offset=4	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=235	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=28
JC	203	.	NC_000913	3653230	-1	NC_000913	4541967	1	0	alignment_overlap=0	coverage_minus=6	coverage_plus=9	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=239	key=NC_000913__3653230__-1__NC_000913__4541967__1__0____251__251__1__0	max_left=229	max_left_minus=220	max_left_plus=229	max_min_left=107	max_min_left_minus=79	max_min_left_plus=107	max_min_right=105	max_min_right_minus=61	max_min_right_plus=105	max_pos_hash_score=480	max_right=240	max_right_minus=209	max_right_plus=240	neg_log10_pos_hash_p_value=1.0	new_junction_coverage=0.51	new_junction_read_count=16	polymorphism_frequency=1.000e+00	pos_hash_score=15	prediction=consensus	read_count_offset=4	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=235	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=15
JC	204	.	NC_000913	4578534	-1	NC_000913	4583087	1	0	alignment_overlap=1	coverage_minus=18	coverage_plus=15	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=238	key=NC_000913__4578534__-1__NC_000913__4583086__1__1____251__251__0__0	max_left=237	max_left_minus=229	max_left_plus=237	max_min_left=122	max_min_left_minus=95	max_min_left_plus=122	max_min_right=119	max_min_right_minus=92	max_min_right_plus=119	max_pos_hash_score=478	max_right=243	max_right_minus=243	max_right_plus=239	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.05	new_junction_read_count=33	polymorphism_frequency=9.566e-01	pos_hash_score=33	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.06	side_1_overlap=1	side_1_possible_overlap_registers=239	side_1_read_count=2	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.03	side_2_overlap=0	side_2_possible_overlap_registers=238	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=33
UN	205	.	NC_000913	15570	15570
UN	206	.	NC_000913	15573	15573
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UN	212	.	NC_000913	16549	16549
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UN	215	.	NC_000913	19989	20360
UN	216	.	NC_000913	20362	20362
UN	217	.	NC_000913	20365	20365
UN	218	.	NC_000913	20738	20738
UN	219	.	NC_000913	59075	59089
UN	220	.	NC_000913	153317	153317
UN	221	.	NC_000913	223847	223847
UN	222	.	NC_000913	223863	223863
UN	223	.	NC_000913	223865	223865
UN	224	.	NC_000913	223868	223869
UN	225	.	NC_000913	223871	223871
UN	226	.	NC_000913	223875	223877
UN	227	.	NC_000913	223879	224549
UN	228	.	NC_000913	224551	224552
UN	229	.	NC_000913	224554	224554
UN	230	.	NC_000913	224565	224565
UN	231	.	NC_000913	224572	224572
UN	232	.	NC_000913	225091	225091
UN	233	.	NC_000913	225102	225381
UN	234	.	NC_000913	227178	228474
UN	235	.	NC_000913	237055	237055
UN	236	.	NC_000913	257908	258683
UN	237	.	NC_000913	270736	270737
UN	238	.	NC_000913	270739	271083
UN	239	.	NC_000913	274176	274176
UN	240	.	NC_000913	274180	274928
UN	241	.	NC_000913	279385	279386
UN	242	.	NC_000913	279388	279704
UN	243	.	NC_000913	279707	279707
UN	244	.	NC_000913	279710	279710
UN	245	.	NC_000913	290820	290821
UN	246	.	NC_000913	290824	290824
UN	247	.	NC_000913	290828	291175
UN	248	.	NC_000913	315465	315465
UN	249	.	NC_000913	315467	315468
UN	250	.	NC_000913	315470	316274
UN	251	.	NC_000913	357868	357868
UN	252	.	NC_000913	357873	357873
UN	253	.	NC_000913	357875	357875
UN	254	.	NC_000913	357881	357883
UN	255	.	NC_000913	357886	357886
UN	256	.	NC_000913	357890	357890
UN	257	.	NC_000913	357918	357918
UN	258	.	NC_000913	366181	366273
UN	259	.	NC_000913	381417	381417
UN	260	.	NC_000913	381423	381423
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UN	273	.	NC_000913	445523	445529
UN	274	.	NC_000913	445544	445544
UN	275	.	NC_000913	445566	445566
UN	276	.	NC_000913	526063	526063
UN	277	.	NC_000913	526068	526526
UN	278	.	NC_000913	526544	526544
UN	279	.	NC_000913	528139	528139
UN	280	.	NC_000913	528766	528766
UN	281	.	NC_000913	528769	528779
UN	282	.	NC_000913	528784	528786
UN	283	.	NC_000913	528801	528801
UN	284	.	NC_000913	528811	528811
UN	285	.	NC_000913	528825	528825
UN	286	.	NC_000913	566987	567876
UN	287	.	NC_000913	567880	567880
UN	288	.	NC_000913	567884	567885
UN	289	.	NC_000913	574790	575578
UN	290	.	NC_000913	575580	575580
UN	291	.	NC_000913	608123	608123
UN	292	.	NC_000913	608130	608131
UN	293	.	NC_000913	608134	609155
UN	294	.	NC_000913	618369	618370
UN	295	.	NC_000913	618378	618381
UN	296	.	NC_000913	618384	618391
UN	297	.	NC_000913	685914	685914
UN	298	.	NC_000913	686033	686033
UN	299	.	NC_000913	686046	686047
UN	300	.	NC_000913	686054	686059
UN	301	.	NC_000913	686062	686067
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UN	722	.	NC_000913	3366602	3366602
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