#=GENOME_DIFF	1.0
#=CREATED	10:41:44 29 Nov 2024
#=PROGRAM	breseq 0.39.0 
#=COMMAND	breseq -j 8 -o /ld1/breseq_work/20240527run10/CV74_S8_L001_R1R2_001 -r /ld1/E.coli_MG1655_ref/MG1655/ncbi_dataset/data/GCF_000005845.2/genomic.gbff /ld1/raw_sequence_data/20240527run10/CV74_S8_L001_R1_001.fastq.gz /ld1/raw_sequence_data/20240527run10/CV74_S8_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/20240527run10/CV74_S8_L001_R1_001.fastq.gz
#=READSEQ	/ld1/raw_sequence_data/20240527run10/CV74_S8_L001_R2_001.fastq.gz
#=CONVERTED-BASES	183512485
#=CONVERTED-READS	744818
#=INPUT-BASES	183516177
#=INPUT-READS	744906
#=MAPPED-BASES	170871917
#=MAPPED-READS	695545
SNP	1	144	NC_000913	70659	A
SNP	2	145	NC_000913	83882	A
SNP	3	146	NC_000913	100946	C
SNP	4	147	NC_000913	244775	A
SNP	5	148	NC_000913	245662	A
SNP	6	149	NC_000913	246747	T
SNP	7	150	NC_000913	248203	A
SNP	8	151	NC_000913	250009	A
SNP	9	152	NC_000913	251629	T
DEL	10	290,304	NC_000913	256108	115274
SUB	11	153,154	NC_000913	480295	2	AA
MOB	12	310,311	NC_000913	607765	IS150	1	3
SNP	13	155	NC_000913	696470	T
SUB	14	156,157	NC_000913	809217	2	AG
SNP	15	158	NC_000913	968837	A
SNP	16	160	NC_000913	1016006	A
MOB	17	307,308	NC_000913	1051342	IS5	1	4
SNP	18	161	NC_000913	1061935	A
SNP	19	162	NC_000913	1069743	T
DEL	20	163	NC_000913	1093346	1	repeat_length=1	repeat_new_copies=5	repeat_ref_copies=6	repeat_seq=T
SNP	21	164	NC_000913	1098620	A
SUB	22	165,166	NC_000913	1111727	2	TT
SNP	23	167	NC_000913	1169836	G
SNP	24	168	NC_000913	1189980	G
SNP	25	169	NC_000913	1196220	T
SNP	26	170	NC_000913	1196232	T
SNP	27	171	NC_000913	1196245	C
SNP	28	172	NC_000913	1196247	G
SNP	29	173	NC_000913	1196277	T
SNP	30	174	NC_000913	1196280	C
SNP	31	175	NC_000913	1196283	G
SNP	32	176	NC_000913	1196292	T
SNP	33	177	NC_000913	1196304	A
SNP	34	178	NC_000913	1196316	A
SNP	35	179	NC_000913	1196325	G
MOB	36	305,312	NC_000913	1291105	IS1	-1	9
SNP	37	180	NC_000913	1301992	T
SNP	38	181	NC_000913	1306736	G
SNP	39	182	NC_000913	1310770	G
SNP	40	183	NC_000913	1337394	G
SNP	41	184	NC_000913	1357202	T
SNP	42	185	NC_000913	1358859	C
SNP	43	186	NC_000913	1398925	T
DEL	44	293,314	NC_000913	1411925	23060
DEL	45	294,315	NC_000913	1506416	45
SNP	46	187	NC_000913	1539947	G
SNP	47	188	NC_000913	1643679	T
SNP	48	189	NC_000913	1652331	C
SNP	49	190	NC_000913	1680548	T
SNP	50	191	NC_000913	1728754	T
SNP	51	192	NC_000913	1829887	A
SNP	52	193	NC_000913	1855402	T
SNP	53	194	NC_000913	1894839	C
DEL	54	295,316	NC_000913	1978503	776
SNP	55	195	NC_000913	2040433	A
SNP	56	196	NC_000913	2042171	A
SNP	57	197	NC_000913	2044642	C
DEL	58	198	NC_000913	2111259	1
SNP	59	199	NC_000913	2325037	T
SNP	60	200	NC_000913	2339161	C
MOB	61	321,322	NC_000913	2468298	IS3	1	3
DEL	62	297,325	NC_000913	2558699	6790
SNP	63	204	NC_000913	2587112	T
SNP	64	205	NC_000913	2744030	C
MOB	65	323,324	NC_000913	2819278	IS5	1	4
SNP	66	206	NC_000913	2866609	A
SUB	67	207,208	NC_000913	2867454	2	AA
SNP	68	210	NC_000913	2926772	A
SNP	69	211	NC_000913	2939297	T
SNP	70	212	NC_000913	3131139	A
SNP	71	213	NC_000913	3152494	T
DEL	72	215	NC_000913	3207549	1
SNP	73	216	NC_000913	3258484	C
SNP	74	218	NC_000913	3329743	T
MOB	75	329,330	NC_000913	3350556	IS1	-1	8
SNP	76	219	NC_000913	3388041	G
SNP	77	220	NC_000913	3436697	A
SNP	78	221	NC_000913	3444905	T
SNP	79	222	NC_000913	3465502	A
SNP	80	223	NC_000913	3474424	G
DEL	81	298,331	NC_000913	3485658	5170
SNP	82	224	NC_000913	3511362	T
SNP	83	225	NC_000913	3560443	G
INS	84	226	NC_000913	3560455	G
DEL	85	299,335	NC_000913	3653231	10571	mediated=IS5
SNP	86	228	NC_000913	3707878	G
SNP	87	229	NC_000913	3707883	A
SNP	88	230	NC_000913	3707947	A
SNP	89	231	NC_000913	3725176	G
SNP	90	232	NC_000913	3815264	T
INS	91	233	NC_000913	3815883	C
MOB	92	332,334	NC_000913	3888869	IS1	1	9
SNP	93	235	NC_000913	3979080	T
SNP	94	236	NC_000913	3979723	T
SNP	95	238	NC_000913	4043852	A
SNP	96	239	NC_000913	4043901	A
SNP	97	240	NC_000913	4046594	A
SNP	98	241	NC_000913	4047415	A
SNP	99	242	NC_000913	4051809	A
SNP	100	243	NC_000913	4054219	A
SNP	101	244	NC_000913	4061021	A
SNP	102	245	NC_000913	4065117	A
SNP	103	246	NC_000913	4073952	A
SNP	104	247	NC_000913	4080078	A
SNP	105	248	NC_000913	4097875	C
SNP	106	249	NC_000913	4098150	A
SNP	107	250	NC_000913	4100227	A
SNP	108	251	NC_000913	4101785	A
SNP	109	252	NC_000913	4105917	A
SNP	110	253	NC_000913	4117807	A
SNP	111	254	NC_000913	4122023	A
SNP	112	255	NC_000913	4123470	T
SNP	113	256	NC_000913	4124375	A
DEL	114	257,258	NC_000913	4128813	2
SNP	115	259	NC_000913	4137772	A
SNP	116	260	NC_000913	4153441	A
SNP	117	261	NC_000913	4154691	A
SNP	118	262	NC_000913	4182782	T
SNP	119	263	NC_000913	4189636	A
SNP	120	264	NC_000913	4192667	A
SNP	121	265	NC_000913	4204555	A
DEL	122	266	NC_000913	4212973	1
SNP	123	267	NC_000913	4220685	G
SNP	124	268	NC_000913	4223638	C
SNP	125	269	NC_000913	4264192	T
SNP	126	270	NC_000913	4287464	A
INS	127	272,273	NC_000913	4296381	GC
SNP	128	274	NC_000913	4325644	T
SNP	129	276	NC_000913	4405043	A
SNP	130	277	NC_000913	4415505	T
SNP	131	278	NC_000913	4418060	T
SNP	132	279	NC_000913	4423110	A
SNP	133	280	NC_000913	4444187	A
SNP	134	281	NC_000913	4455812	A
SNP	135	282	NC_000913	4457427	A
SNP	136	283	NC_000913	4473900	T
SNP	137	284	NC_000913	4475493	C
SNP	138	285	NC_000913	4510238	G
SNP	139	286	NC_000913	4532409	G
MOB	140	318,333	NC_000913	4542250	IS1	1	9
SNP	141	287	NC_000913	4546601	T
SNP	142	288	NC_000913	4636925	C
SNP	143	289	NC_000913	4638240	A
RA	144	.	NC_000913	70659	0	G	A	consensus_score=74.0	frequency=1	major_base=A	major_cov=14/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=14/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=14/9
RA	145	.	NC_000913	83882	0	G	A	consensus_score=54.0	frequency=1	major_base=A	major_cov=8/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=8/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=8/12
RA	146	.	NC_000913	100946	0	T	C	consensus_score=105.5	frequency=1	major_base=C	major_cov=19/10	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=19/10	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=19/10
RA	147	.	NC_000913	244775	0	G	A	bias_e_value=4536270	bias_p_value=0.977297	consensus_score=95.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.794625	major_base=A	major_cov=10/19	major_frequency=9.667e-01	minor_base=G	minor_cov=0/1	new_cov=10/19	polymorphism_frequency=9.667e-01	polymorphism_score=-3.6	prediction=consensus	ref_cov=0/1	total_cov=11/20
RA	148	.	NC_000913	245662	0	G	A	consensus_score=100.1	frequency=1	major_base=A	major_cov=15/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/14
RA	149	.	NC_000913	246747	0	G	T	bias_e_value=3243100	bias_p_value=0.698696	consensus_score=102.7	fisher_strand_p_value=0.333333	frequency=1	ks_quality_p_value=0.997704	major_base=T	major_cov=20/9	major_frequency=9.667e-01	minor_base=G	minor_cov=0/1	new_cov=20/9	polymorphism_frequency=9.667e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=20/10
RA	150	.	NC_000913	248203	0	G	A	consensus_score=126.8	frequency=1	major_base=A	major_cov=23/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/15
RA	151	.	NC_000913	250009	0	G	A	consensus_score=178.2	frequency=1	major_base=A	major_cov=16/32	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=16/32	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=16/32
RA	152	.	NC_000913	251629	0	C	T	consensus_score=114.4	frequency=1	major_base=T	major_cov=13/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/19
RA	153	.	NC_000913	480295	0	G	A	bias_e_value=3390950	bias_p_value=0.730549	consensus_score=46.2	fisher_strand_p_value=0.375	frequency=1	ks_quality_p_value=0.967216	major_base=A	major_cov=5/10	major_frequency=9.375e-01	minor_base=C	minor_cov=1/0	new_cov=5/10	polymorphism_frequency=9.375e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=6/10
RA	154	.	NC_000913	480296	0	G	A	consensus_score=47.3	frequency=1	major_base=A	major_cov=6/10	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=6/10	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=6/10
RA	155	.	NC_000913	696470	0	C	T	consensus_score=109.5	frequency=1	major_base=T	major_cov=17/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=17/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=17/16
RA	156	.	NC_000913	809217	0	C	A	bias_e_value=4641650	bias_p_value=1	consensus_score=172.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999114	major_base=A	major_cov=23/24	major_frequency=9.792e-01	minor_base=G	minor_cov=0/1	new_cov=23/24	polymorphism_frequency=9.792e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/25
RA	157	.	NC_000913	809218	0	A	G	consensus_score=184.1	frequency=1	major_base=G	major_cov=23/25	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/25	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/25
RA	158	.	NC_000913	968837	0	G	A	consensus_score=109.8	frequency=1	major_base=A	major_cov=11/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/21
RA	159	.	NC_000913	1014028	0	A	G	bias_e_value=15.3295	bias_p_value=3.3026e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=87.2	fisher_strand_p_value=2.01142e-07	frequency=2.250e-01	ks_quality_p_value=1	major_base=A	major_cov=2/29	major_frequency=7.750e-01	minor_base=G	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.250e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=2/29	total_cov=11/29
RA	160	.	NC_000913	1016006	0	G	A	bias_e_value=4641640	bias_p_value=0.999998	consensus_score=106.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.997986	major_base=A	major_cov=22/9	major_frequency=9.688e-01	minor_base=C	minor_cov=1/0	new_cov=22/9	polymorphism_frequency=9.688e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/9
RA	161	.	NC_000913	1061935	0	G	A	bias_e_value=2682620	bias_p_value=0.577945	consensus_score=126.2	fisher_strand_p_value=0.236818	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=22/22	major_frequency=9.362e-01	minor_base=C	minor_cov=0/3	new_cov=22/22	polymorphism_frequency=9.362e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/25
RA	162	.	NC_000913	1069743	0	C	T	consensus_score=113.2	frequency=1	major_base=T	major_cov=26/8	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=26/8	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/8
RA	163	.	NC_000913	1093346	0	T	.	consensus_score=90.8	frequency=1	major_base=.	major_cov=8/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=8/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=8/12
RA	164	.	NC_000913	1098620	0	T	A	consensus_score=106.9	frequency=1	major_base=A	major_cov=18/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=18/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=18/13
RA	165	.	NC_000913	1111727	0	C	T	bias_e_value=4641490	bias_p_value=0.999966	consensus_score=153.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.991709	major_base=T	major_cov=29/17	major_frequency=9.787e-01	minor_base=C	minor_cov=1/0	new_cov=29/17	polymorphism_frequency=9.787e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=30/17
RA	166	.	NC_000913	1111728	0	C	T	consensus_score=159.7	frequency=1	major_base=T	major_cov=30/17	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/17	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/17
RA	167	.	NC_000913	1169836	0	A	G	consensus_score=85.5	frequency=1	major_base=G	major_cov=14/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=14/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=14/9
RA	168	.	NC_000913	1189980	0	A	G	consensus_score=102.5	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	169	.	NC_000913	1196220	0	C	T	consensus_score=77.2	frequency=1	major_base=T	major_cov=12/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/16
RA	170	.	NC_000913	1196232	0	C	T	consensus_score=76.9	frequency=1	major_base=T	major_cov=11/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/16
RA	171	.	NC_000913	1196245	0	T	C	consensus_score=63.7	frequency=1	major_base=C	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	172	.	NC_000913	1196247	0	A	G	bias_e_value=4641650	bias_p_value=1	consensus_score=61.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=11/12	major_frequency=9.583e-01	minor_base=T	minor_cov=0/1	new_cov=11/12	polymorphism_frequency=9.583e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/13
RA	173	.	NC_000913	1196277	0	C	T	consensus_score=37.9	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	174	.	NC_000913	1196280	0	G	C	consensus_score=44.6	frequency=1	major_base=C	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	175	.	NC_000913	1196283	0	A	G	consensus_score=42.2	frequency=1	major_base=G	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	176	.	NC_000913	1196292	0	C	T	consensus_score=44.1	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	177	.	NC_000913	1196304	0	G	A	consensus_score=36.4	frequency=1	major_base=A	major_cov=8/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=8/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=8/9
RA	178	.	NC_000913	1196316	0	T	A	consensus_score=21.8	frequency=1	major_base=A	major_cov=5/7	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=5/7	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=5/7
RA	179	.	NC_000913	1196325	0	A	G	bias_e_value=4640520	bias_p_value=0.999757	consensus_score=12.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.978023	major_base=G	major_cov=5/4	major_frequency=9.000e-01	minor_base=T	minor_cov=0/1	new_cov=5/4	polymorphism_frequency=9.000e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=5/5
RA	180	.	NC_000913	1301992	0	A	T	consensus_score=99.2	frequency=1	major_base=T	major_cov=17/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=17/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=17/13
RA	181	.	NC_000913	1306736	0	T	G	consensus_score=105.3	frequency=1	major_base=G	major_cov=17/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=17/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=17/13
RA	182	.	NC_000913	1310770	0	A	G	consensus_score=83.2	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	183	.	NC_000913	1337394	0	A	G	consensus_score=153.0	frequency=1	major_base=G	major_cov=22/20	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=22/20	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/20
RA	184	.	NC_000913	1357202	0	C	T	consensus_score=131.9	frequency=1	major_base=T	major_cov=23/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/14
RA	185	.	NC_000913	1358859	0	T	C	bias_e_value=4536880	bias_p_value=0.977428	consensus_score=92.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.795196	major_base=C	major_cov=13/19	major_frequency=9.697e-01	minor_base=A	minor_cov=0/1	new_cov=13/19	polymorphism_frequency=9.697e-01	polymorphism_score=-6.6	prediction=consensus	ref_cov=0/0	total_cov=13/20
RA	186	.	NC_000913	1398925	0	C	T	consensus_score=189.4	frequency=1	major_base=T	major_cov=30/22	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/22	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/22
RA	187	.	NC_000913	1539947	0	C	G	consensus_score=122.8	frequency=1	major_base=G	major_cov=27/6	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=27/6	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/6
RA	188	.	NC_000913	1643679	0	A	T	consensus_score=111.7	frequency=1	major_base=T	major_cov=16/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=16/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=16/15
RA	189	.	NC_000913	1652331	0	T	C	consensus_score=88.8	frequency=1	major_base=C	major_cov=4/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=4/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=4/19
RA	190	.	NC_000913	1680548	0	C	T	consensus_score=168.0	frequency=1	major_base=T	major_cov=22/27	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=22/27	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/27
RA	191	.	NC_000913	1728754	0	C	T	consensus_score=96.6	frequency=1	major_base=T	major_cov=14/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=14/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=14/15
RA	192	.	NC_000913	1829887	0	G	A	bias_e_value=3455360	bias_p_value=0.744425	consensus_score=114.9	fisher_strand_p_value=0.405405	frequency=1	ks_quality_p_value=0.929068	major_base=A	major_cov=14/22	major_frequency=9.730e-01	minor_base=T	minor_cov=1/0	new_cov=14/22	polymorphism_frequency=9.730e-01	polymorphism_score=-6.2	prediction=consensus	ref_cov=0/0	total_cov=15/22
RA	193	.	NC_000913	1855402	0	C	T	consensus_score=105.7	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	194	.	NC_000913	1894839	0	T	C	consensus_score=93.9	frequency=1	major_base=C	major_cov=17/9	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=17/9	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=17/9
RA	195	.	NC_000913	2040433	0	C	A	consensus_score=178.4	frequency=1	major_base=A	major_cov=22/27	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=22/27	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/27
RA	196	.	NC_000913	2042171	0	G	A	consensus_score=71.1	frequency=1	major_base=A	major_cov=9/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/11
RA	197	.	NC_000913	2044642	0	T	C	consensus_score=90.3	frequency=1	major_base=C	major_cov=9/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/16
RA	198	.	NC_000913	2111259	0	G	.	consensus_score=140.4	frequency=1	major_base=.	major_cov=24/7	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=24/7	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=24/7
RA	199	.	NC_000913	2325037	0	C	T	consensus_score=152.1	frequency=1	major_base=T	major_cov=22/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=22/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/19
RA	200	.	NC_000913	2339161	0	T	C	bias_e_value=1579540	bias_p_value=0.340296	consensus_score=186.2	fisher_strand_p_value=0.480769	frequency=1	ks_quality_p_value=0.217154	major_base=C	major_cov=24/27	major_frequency=9.808e-01	minor_base=T	minor_cov=1/0	new_cov=24/27	polymorphism_frequency=9.808e-01	polymorphism_score=-3.9	prediction=consensus	ref_cov=1/0	total_cov=25/27
RA	201	.	NC_000913	2434861	0	G	T	bias_e_value=1357.91	bias_p_value=0.000292549	consensus_reject=FREQUENCY_CUTOFF	consensus_score=36.3	fisher_strand_p_value=2.52486e-05	frequency=3.846e-01	ks_quality_p_value=1	major_base=G	major_cov=8/16	major_frequency=6.154e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.846e-01	polymorphism_score=17.7	prediction=polymorphism	ref_cov=8/16	total_cov=23/16
RA	202	.	NC_000913	2434882	0	T	G	bias_e_value=400.92	bias_p_value=8.63744e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=45.1	fisher_strand_p_value=6.6878e-06	frequency=4.250e-01	ks_quality_p_value=1	major_base=T	major_cov=7/16	major_frequency=5.750e-01	minor_base=G	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=4.250e-01	polymorphism_score=14.8	prediction=polymorphism	ref_cov=7/16	total_cov=25/16
RA	203	.	NC_000913	2530920	0	A	G	bias_e_value=832.412	bias_p_value=0.000179335	consensus_reject=FREQUENCY_CUTOFF	consensus_score=53.5	fisher_strand_p_value=1.51845e-05	frequency=3.636e-01	ks_quality_p_value=0.97436	major_base=A	major_cov=10/18	major_frequency=6.364e-01	minor_base=G	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.636e-01	polymorphism_score=13.5	prediction=polymorphism	ref_cov=10/18	total_cov=26/18
RA	204	.	NC_000913	2587112	0	C	T	consensus_score=121.8	frequency=1	major_base=T	major_cov=16/20	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=16/20	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=16/20
RA	205	.	NC_000913	2744030	0	T	C	consensus_score=121.9	frequency=1	major_base=C	major_cov=19/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=19/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=19/18
RA	206	.	NC_000913	2866609	0	C	A	consensus_score=135.4	frequency=1	major_base=A	major_cov=24/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=24/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=24/16
RA	207	.	NC_000913	2867454	0	T	A	consensus_score=138.3	frequency=1	major_base=A	major_cov=21/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=21/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/18
RA	208	.	NC_000913	2867455	0	G	A	consensus_score=136.8	frequency=1	major_base=A	major_cov=21/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=21/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/18
RA	209	.	NC_000913	2892195	0	A	T	bias_e_value=7235.4	bias_p_value=0.0015588	consensus_reject=FREQUENCY_CUTOFF	consensus_score=33.4	fisher_strand_p_value=0.000160039	frequency=4.118e-01	ks_quality_p_value=1	major_base=A	major_cov=7/13	major_frequency=5.882e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=4.118e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=7/13	total_cov=21/13
RA	210	.	NC_000913	2926772	0	C	A	consensus_score=161.6	frequency=1	major_base=A	major_cov=27/20	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=27/20	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/20
RA	211	.	NC_000913	2939297	0	G	T	bias_e_value=3797520	bias_p_value=0.81814	consensus_score=160.2	fisher_strand_p_value=0.468085	frequency=1	ks_quality_p_value=0.985308	major_base=T	major_cov=21/25	major_frequency=9.787e-01	minor_base=A	minor_cov=1/0	new_cov=21/25	polymorphism_frequency=9.787e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/25
RA	212	.	NC_000913	3131139	0	T	A	bias_e_value=2955940	bias_p_value=0.636829	consensus_score=13.2	fisher_strand_p_value=0.4	frequency=1	ks_quality_p_value=0.700784	major_base=A	major_cov=6/3	major_frequency=9.000e-01	minor_base=T	minor_cov=0/1	new_cov=6/3	polymorphism_frequency=9.000e-01	polymorphism_score=-2.7	prediction=consensus	ref_cov=0/1	total_cov=6/4
RA	213	.	NC_000913	3152494	0	G	T	bias_e_value=3272600	bias_p_value=0.70505	consensus_score=140.8	fisher_strand_p_value=0.355556	frequency=1	ks_quality_p_value=0.95171	major_base=T	major_cov=29/15	major_frequency=9.778e-01	minor_base=G	minor_cov=0/1	new_cov=29/15	polymorphism_frequency=9.778e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=29/16
RA	214	.	NC_000913	3203311	0	T	A	bias_e_value=173.095	bias_p_value=3.72917e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=92.7	fisher_strand_p_value=2.69778e-06	frequency=3.200e-01	ks_quality_p_value=1	major_base=T	major_cov=23/11	major_frequency=6.800e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.200e-01	polymorphism_score=17.3	prediction=polymorphism	ref_cov=23/11	total_cov=23/28
RA	215	.	NC_000913	3207549	0	G	.	consensus_score=274.6	frequency=1	major_base=.	major_cov=30/30	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/30	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/30
RA	216	.	NC_000913	3258484	0	T	C	consensus_score=169.4	frequency=1	major_base=C	major_cov=32/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=32/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=32/15
RA	217	.	NC_000913	3280406	0	C	A	bias_e_value=1110.68	bias_p_value=0.000239285	consensus_reject=FREQUENCY_CUTOFF	consensus_score=55.6	fisher_strand_p_value=2.02672e-05	frequency=2.895e-01	ks_quality_p_value=1	major_base=C	major_cov=23/4	major_frequency=7.105e-01	minor_base=A	minor_cov=1/10	new_cov=1/10	polymorphism_frequency=2.895e-01	polymorphism_score=12.9	prediction=polymorphism	ref_cov=23/4	total_cov=24/14
RA	218	.	NC_000913	3329743	0	G	T	consensus_score=148.0	frequency=1	major_base=T	major_cov=25/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=25/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=25/16
RA	219	.	NC_000913	3388041	0	T	G	consensus_score=105.6	frequency=1	major_base=G	major_cov=10/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/19
RA	220	.	NC_000913	3436697	0	G	A	bias_e_value=3857740	bias_p_value=0.831113	consensus_score=144.9	fisher_strand_p_value=0.487805	frequency=1	ks_quality_p_value=0.980677	major_base=A	major_cov=19/21	major_frequency=9.756e-01	minor_base=C	minor_cov=1/0	new_cov=19/21	polymorphism_frequency=9.756e-01	polymorphism_score=-5.6	prediction=consensus	ref_cov=0/0	total_cov=20/21
RA	221	.	NC_000913	3444905	0	C	T	bias_e_value=4586110	bias_p_value=0.988034	consensus_score=132.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.849342	major_base=T	major_cov=16/22	major_frequency=9.744e-01	minor_base=C	minor_cov=0/1	new_cov=16/22	polymorphism_frequency=9.744e-01	polymorphism_score=-4.0	prediction=consensus	ref_cov=0/1	total_cov=16/23
RA	222	.	NC_000913	3465502	0	G	A	consensus_score=93.4	frequency=1	major_base=A	major_cov=17/10	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=17/10	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=17/10
RA	223	.	NC_000913	3474424	0	T	G	bias_e_value=4641230	bias_p_value=0.999908	consensus_score=178.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.986487	major_base=G	major_cov=22/26	major_frequency=9.796e-01	minor_base=T	minor_cov=0/1	new_cov=22/26	polymorphism_frequency=9.796e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=22/27
RA	224	.	NC_000913	3511362	0	C	T	bias_e_value=3627200	bias_p_value=0.781445	consensus_score=125.8	fisher_strand_p_value=0.416667	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=21/14	major_frequency=9.722e-01	minor_base=G	minor_cov=0/1	new_cov=21/14	polymorphism_frequency=9.722e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/15
RA	225	.	NC_000913	3560443	0	C	G	consensus_score=199.9	frequency=1	major_base=G	major_cov=25/30	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=25/30	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=25/30
RA	226	.	NC_000913	3560455	1	.	G	consensus_score=196.9	frequency=1	major_base=G	major_cov=24/29	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=24/29	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=24/29
RA	227	.	NC_000913	3611455	0	G	A	bias_e_value=245.759	bias_p_value=5.29464e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=55.0	fisher_strand_p_value=3.93805e-06	frequency=2.778e-01	ks_quality_p_value=1	major_base=G	major_cov=4/22	major_frequency=7.222e-01	minor_base=A	minor_cov=10/0	new_cov=10/0	polymorphism_frequency=2.778e-01	polymorphism_score=12.2	prediction=polymorphism	ref_cov=4/22	total_cov=14/22
RA	228	.	NC_000913	3707878	0	A	G	consensus_score=116.9	frequency=1	major_base=G	major_cov=14/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=14/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=14/19
RA	229	.	NC_000913	3707883	0	G	A	consensus_score=112.7	frequency=1	major_base=A	major_cov=14/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=14/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=14/19
RA	230	.	NC_000913	3707947	0	C	A	consensus_score=107.8	frequency=1	major_base=A	major_cov=11/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/19
RA	231	.	NC_000913	3725176	0	T	G	bias_e_value=3326430	bias_p_value=0.716647	consensus_score=124.8	fisher_strand_p_value=0.351351	frequency=1	ks_quality_p_value=0.994012	major_base=G	major_cov=12/24	major_frequency=9.730e-01	minor_base=T	minor_cov=1/0	new_cov=12/24	polymorphism_frequency=9.730e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=13/24
RA	232	.	NC_000913	3815264	0	C	T	consensus_score=155.8	frequency=1	major_base=T	major_cov=25/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=25/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=25/18
RA	233	.	NC_000913	3815883	1	.	C	bias_e_value=3854600	bias_p_value=0.830436	consensus_score=142.4	fisher_strand_p_value=0.487805	frequency=1	ks_quality_p_value=0.978799	major_base=C	major_cov=21/19	major_frequency=9.524e-01	minor_base=.	minor_cov=0/2	new_cov=21/19	polymorphism_frequency=9.524e-01	polymorphism_score=1.3	prediction=consensus	ref_cov=0/2	total_cov=21/21
RA	234	.	NC_000913	3943634	0	A	G	bias_e_value=176172	bias_p_value=0.0379546	consensus_reject=FREQUENCY_CUTOFF	consensus_score=42.2	fisher_strand_p_value=0.0233124	frequency=3.143e-01	ks_quality_p_value=0.267969	major_base=A	major_cov=13/11	major_frequency=6.857e-01	minor_base=G	minor_cov=1/10	new_cov=1/10	polymorphism_frequency=3.143e-01	polymorphism_score=29.8	prediction=polymorphism	ref_cov=13/11	total_cov=14/21
RA	235	.	NC_000913	3979080	0	C	T	consensus_score=100.3	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	236	.	NC_000913	3979723	0	C	T	consensus_score=86.3	frequency=1	major_base=T	major_cov=14/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=14/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=14/12
RA	237	.	NC_000913	4027233	0	T	A	bias_e_value=476.214	bias_p_value=0.000102596	consensus_reject=SCORE_CUTOFF,FREQUENCY_CUTOFF	consensus_score=1.2	fisher_strand_p_value=0.000152555	frequency=5.185e-01	ks_quality_p_value=0.0528352	major_base=A	major_cov=0/14	major_frequency=5.185e-01	minor_base=T	minor_cov=9/4	new_cov=0/14	polymorphism_frequency=5.185e-01	polymorphism_score=25.1	prediction=polymorphism	ref_cov=9/4	total_cov=9/18
RA	238	.	NC_000913	4043852	0	G	A	consensus_score=96.6	frequency=1	major_base=A	major_cov=10/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/16
RA	239	.	NC_000913	4043901	0	G	A	consensus_score=87.1	frequency=1	major_base=A	major_cov=9/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/16
RA	240	.	NC_000913	4046594	0	G	A	consensus_score=106.3	frequency=1	major_base=A	major_cov=11/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=11/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=11/18
RA	241	.	NC_000913	4047415	0	G	A	bias_e_value=2187210	bias_p_value=0.471214	consensus_score=189.9	fisher_strand_p_value=0.169989	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=24/32	major_frequency=9.180e-01	minor_base=C	minor_cov=4/1	new_cov=24/32	polymorphism_frequency=9.180e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=28/33
RA	242	.	NC_000913	4051809	0	G	A	consensus_score=80.9	frequency=1	major_base=A	major_cov=9/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/13
RA	243	.	NC_000913	4054219	0	G	A	consensus_score=153.9	frequency=1	major_base=A	major_cov=26/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=26/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/19
RA	244	.	NC_000913	4061021	0	G	A	consensus_score=89.6	frequency=1	major_base=A	major_cov=13/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/12
RA	245	.	NC_000913	4065117	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=38.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=6/6	major_frequency=9.231e-01	minor_base=T	minor_cov=0/1	new_cov=6/6	polymorphism_frequency=9.231e-01	polymorphism_score=-6.4	prediction=consensus	ref_cov=0/0	total_cov=6/7
RA	246	.	NC_000913	4073952	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=105.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=21/13	major_frequency=9.714e-01	minor_base=C	minor_cov=1/0	new_cov=21/13	polymorphism_frequency=9.714e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/13
RA	247	.	NC_000913	4080078	0	G	A	consensus_score=84.7	frequency=1	major_base=A	major_cov=13/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/12
RA	248	.	NC_000913	4097875	0	T	C	consensus_score=143.3	frequency=1	major_base=C	major_cov=19/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=19/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=19/19
RA	249	.	NC_000913	4098150	0	G	A	consensus_score=164.2	frequency=1	major_base=A	major_cov=20/26	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=20/26	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=20/26
RA	250	.	NC_000913	4100227	0	G	A	consensus_score=156.2	frequency=1	major_base=A	major_cov=19/23	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=19/23	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=19/23
RA	251	.	NC_000913	4101785	0	G	A	consensus_score=79.8	frequency=1	major_base=A	major_cov=15/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/11
RA	252	.	NC_000913	4105917	0	G	A	consensus_score=144.6	frequency=1	major_base=A	major_cov=20/23	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=20/23	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=20/23
RA	253	.	NC_000913	4117807	0	G	A	consensus_score=74.5	frequency=1	major_base=A	major_cov=13/10	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=13/10	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=13/10
RA	254	.	NC_000913	4122023	0	G	A	consensus_score=139.1	frequency=1	major_base=A	major_cov=21/23	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=21/23	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/23
RA	255	.	NC_000913	4123470	0	G	T	consensus_score=116.2	frequency=1	major_base=T	major_cov=15/17	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/17	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/17
RA	256	.	NC_000913	4124375	0	G	A	consensus_score=81.0	frequency=1	major_base=A	major_cov=12/12	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/12	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/12
RA	257	.	NC_000913	4128811	0	C	.	bias_e_value=4133750	bias_p_value=0.890578	consensus_score=161.5	fisher_strand_p_value=0.570303	frequency=1	ks_quality_p_value=1	major_base=.	major_cov=21/15	major_frequency=9.231e-01	minor_base=C	minor_cov=1/2	new_cov=21/15	polymorphism_frequency=9.231e-01	polymorphism_score=6.5	prediction=consensus	ref_cov=1/2	total_cov=22/17
RA	258	.	NC_000913	4128812	0	G	.	bias_e_value=4641650	bias_p_value=1	consensus_score=160.6	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=.	major_cov=21/15	major_frequency=9.474e-01	minor_base=G	minor_cov=1/1	new_cov=21/15	polymorphism_frequency=9.474e-01	polymorphism_score=2.3	prediction=consensus	ref_cov=1/1	total_cov=22/17
RA	259	.	NC_000913	4137772	0	G	A	consensus_score=67.6	frequency=1	major_base=A	major_cov=9/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/11
RA	260	.	NC_000913	4153441	0	G	A	consensus_score=78.9	frequency=1	major_base=A	major_cov=9/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=9/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=9/14
RA	261	.	NC_000913	4154691	0	G	A	consensus_score=117.8	frequency=1	major_base=A	major_cov=15/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/19
RA	262	.	NC_000913	4182782	0	A	T	consensus_score=128.7	frequency=1	major_base=T	major_cov=21/15	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=21/15	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/15
RA	263	.	NC_000913	4189636	0	G	A	bias_e_value=3824330	bias_p_value=0.823915	consensus_score=95.5	fisher_strand_p_value=0.46875	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=14/17	major_frequency=9.688e-01	minor_base=C	minor_cov=1/0	new_cov=14/17	polymorphism_frequency=9.688e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/17
RA	264	.	NC_000913	4192667	0	G	A	consensus_score=111.5	frequency=1	major_base=A	major_cov=15/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/16
RA	265	.	NC_000913	4204555	0	G	A	consensus_score=154.4	frequency=1	major_base=A	major_cov=23/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/21
RA	266	.	NC_000913	4212973	0	T	.	consensus_score=15.4	frequency=1	major_base=.	major_cov=3/2	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=3/2	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=3/2
RA	267	.	NC_000913	4220685	0	A	G	consensus_score=63.1	frequency=1	major_base=G	major_cov=12/5	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=12/5	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=12/5
RA	268	.	NC_000913	4223638	0	T	C	bias_e_value=2048950	bias_p_value=0.441427	consensus_score=131.2	fisher_strand_p_value=0.153846	frequency=1	ks_quality_p_value=0.998651	major_base=C	major_cov=5/33	major_frequency=9.744e-01	minor_base=T	minor_cov=1/0	new_cov=5/33	polymorphism_frequency=9.744e-01	polymorphism_score=-6.6	prediction=consensus	ref_cov=1/0	total_cov=6/33
RA	269	.	NC_000913	4264192	0	C	T	bias_e_value=4640150	bias_p_value=0.999677	consensus_score=90.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.974685	major_base=T	major_cov=16/10	major_frequency=9.630e-01	minor_base=C	minor_cov=1/0	new_cov=16/10	polymorphism_frequency=9.630e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=17/10
RA	270	.	NC_000913	4287464	0	T	A	consensus_score=117.7	frequency=1	major_base=A	major_cov=18/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=18/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=18/14
RA	271	.	NC_000913	4296268	0	T	C	bias_e_value=2817730	bias_p_value=0.607053	consensus_reject=FREQUENCY_CUTOFF	consensus_score=16.9	fisher_strand_p_value=0.626697	frequency=3.333e-01	ks_quality_p_value=0.411112	major_base=T	major_cov=4/8	major_frequency=6.667e-01	minor_base=C	minor_cov=3/3	new_cov=3/3	polymorphism_frequency=3.333e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=4/8	total_cov=7/11
RA	272	.	NC_000913	4296380	1	.	C	bias_e_value=2870050	bias_p_value=0.618325	consensus_score=95.9	fisher_strand_p_value=0.266667	frequency=1	ks_quality_p_value=0.997704	major_base=C	major_cov=7/22	major_frequency=9.667e-01	minor_base=.	minor_cov=1/0	new_cov=7/22	polymorphism_frequency=9.667e-01	polymorphism_score=-3.6	prediction=consensus	ref_cov=1/0	total_cov=8/22
RA	273	.	NC_000913	4296380	2	.	G	bias_e_value=2858780	bias_p_value=0.615897	consensus_score=88.7	fisher_strand_p_value=0.266667	frequency=1	ks_quality_p_value=0.990847	major_base=G	major_cov=7/22	major_frequency=9.667e-01	minor_base=.	minor_cov=1/0	new_cov=7/22	polymorphism_frequency=9.667e-01	polymorphism_score=-3.9	prediction=consensus	ref_cov=1/0	total_cov=8/22
RA	274	.	NC_000913	4325644	0	C	T	consensus_score=125.4	frequency=1	major_base=T	major_cov=21/14	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=21/14	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/14
RA	275	.	NC_000913	4336901	0	T	A	bias_e_value=421.011	bias_p_value=9.07029e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=33.7	fisher_strand_p_value=9.51905e-06	frequency=3.333e-01	ks_quality_p_value=0.740818	major_base=T	major_cov=17/3	major_frequency=6.667e-01	minor_base=A	minor_cov=0/10	new_cov=0/10	polymorphism_frequency=3.333e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=17/3	total_cov=17/13
RA	276	.	NC_000913	4405043	0	G	A	consensus_score=143.9	frequency=1	major_base=A	major_cov=21/19	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=21/19	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/19
RA	277	.	NC_000913	4415505	0	C	T	consensus_score=158.9	frequency=1	major_base=T	major_cov=22/25	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=22/25	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/25
RA	278	.	NC_000913	4418060	0	C	T	consensus_score=123.2	frequency=1	major_base=T	major_cov=20/13	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=20/13	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=20/13
RA	279	.	NC_000913	4423110	0	G	A	bias_e_value=3479490	bias_p_value=0.749624	consensus_score=222.4	fisher_strand_p_value=0.387097	frequency=1	ks_quality_p_value=0.986866	major_base=A	major_cov=23/38	major_frequency=9.839e-01	minor_base=C	minor_cov=1/0	new_cov=23/38	polymorphism_frequency=9.839e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=24/38
RA	280	.	NC_000913	4444187	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=119.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	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=0/0	total_cov=17/17
RA	281	.	NC_000913	4455812	0	G	A	bias_e_value=3193320	bias_p_value=0.68797	consensus_score=112.1	fisher_strand_p_value=0.323529	frequency=1	ks_quality_p_value=0.998219	major_base=A	major_cov=23/10	major_frequency=9.706e-01	minor_base=G	minor_cov=0/1	new_cov=23/10	polymorphism_frequency=9.706e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=23/11
RA	282	.	NC_000913	4457427	0	G	A	consensus_score=186.8	frequency=1	major_base=A	major_cov=30/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/21
RA	283	.	NC_000913	4473900	0	C	T	consensus_score=151.0	frequency=1	major_base=T	major_cov=23/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/18
RA	284	.	NC_000913	4475493	0	T	C	bias_e_value=2632670	bias_p_value=0.567183	consensus_score=117.8	fisher_strand_p_value=0.454545	frequency=1	ks_quality_p_value=0.50474	major_base=C	major_cov=14/18	major_frequency=9.697e-01	minor_base=T	minor_cov=1/0	new_cov=14/18	polymorphism_frequency=9.697e-01	polymorphism_score=-3.6	prediction=consensus	ref_cov=1/0	total_cov=15/18
RA	285	.	NC_000913	4510238	0	T	G	consensus_score=111.6	frequency=1	major_base=G	major_cov=15/16	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=15/16	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=15/16
RA	286	.	NC_000913	4532409	0	T	G	consensus_score=154.1	frequency=1	major_base=G	major_cov=30/11	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/11	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/11
RA	287	.	NC_000913	4546601	0	C	T	consensus_score=80.2	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	288	.	NC_000913	4636925	0	G	C	consensus_score=148.1	frequency=1	major_base=C	major_cov=22/20	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=22/20	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=22/20
RA	289	.	NC_000913	4638240	0	G	A	consensus_score=98.3	frequency=1	major_base=A	major_cov=10/18	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=10/18	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=10/18
MC	290	.	NC_000913	256108	371381	0	0	left_inside_cov=0	left_outside_cov=39	right_inside_cov=1	right_outside_cov=40
MC	291	.	NC_000913	1196352	1211461	0	0	left_inside_cov=5	left_outside_cov=7	right_inside_cov=6	right_outside_cov=7
MC	292	.	NC_000913	1292514	1292677	0	0	left_inside_cov=5	left_outside_cov=7	right_inside_cov=6	right_outside_cov=7
MC	293	.	NC_000913	1411925	1434984	0	0	left_inside_cov=0	left_outside_cov=29	right_inside_cov=2	right_outside_cov=31
MC	294	.	NC_000913	1506416	1506460	0	0	left_inside_cov=0	left_outside_cov=37	right_inside_cov=0	right_outside_cov=37
MC	295	.	NC_000913	1978503	1979278	767	0	left_inside_cov=0	left_outside_cov=25	right_inside_cov=2	right_outside_cov=27
MC	296	.	NC_000913	2172548	2175524	0	0	left_inside_cov=0	left_outside_cov=33	right_inside_cov=0	right_outside_cov=37
MC	297	.	NC_000913	2558699	2565488	0	0	left_inside_cov=0	left_outside_cov=43	right_inside_cov=1	right_outside_cov=44
MC	298	.	NC_000913	3485658	3490827	0	0	left_inside_cov=0	left_outside_cov=36	right_inside_cov=1	right_outside_cov=37
MC	299	.	NC_000913	3652251	3663801	983	0	left_inside_cov=6	left_outside_cov=7	right_inside_cov=1	right_outside_cov=37
MC	300	.	NC_000913	4035390	4036886	343	1150	left_inside_cov=6	left_outside_cov=7	right_inside_cov=5	right_outside_cov=7
MC	301	.	NC_000913	4088916	4088995	0	0	left_inside_cov=6	left_outside_cov=7	right_inside_cov=6	right_outside_cov=7
MC	302	.	NC_000913	4166485	4168509	1735	0	left_inside_cov=6	left_outside_cov=7	right_inside_cov=6	right_outside_cov=8
JC	303	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=12	coverage_plus=10	flanking_left=251	flanking_right=251	frequency=1	ignore=CIRCULAR_CHROMOSOME	junction_possible_overlap_registers=245	key=NC_000913__1__1__NC_000913__4641652__-1__0____251__251__0__0	max_left=244	max_left_minus=243	max_left_plus=244	max_min_left=123	max_min_left_minus=123	max_min_left_plus=117	max_min_right=110	max_min_right_minus=110	max_min_right_plus=100	max_pos_hash_score=490	max_right=235	max_right_minus=235	max_right_plus=222	neg_log10_pos_hash_p_value=0.7	new_junction_coverage=0.58	new_junction_read_count=22	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=0	side_1_possible_overlap_registers=245	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=245	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=22
JC	304	.	NC_000913	256107	-1	NC_000913	371382	1	0	alignment_overlap=8	coverage_minus=16	coverage_plus=23	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=237	key=NC_000913__256107__-1__NC_000913__371374__1__8____251__251__0__0	max_left=242	max_left_minus=236	max_left_plus=242	max_min_left=118	max_min_left_minus=105	max_min_left_plus=118	max_min_right=109	max_min_right_minus=109	max_min_right_plus=102	max_pos_hash_score=474	max_right=224	max_right_minus=224	max_right_plus=220	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.07	new_junction_read_count=39	polymorphism_frequency=1.000e+00	pos_hash_score=37	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=245	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=237	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=39
JC	305	.	NC_000913	258675	-1	NC_000913	1291105	1	0	alignment_overlap=1	coverage_minus=13	coverage_plus=23	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=244	key=NC_000913__258675__-1__NC_000913__1291104__1__1____251__251__1__0	max_left=245	max_left_minus=222	max_left_plus=245	max_min_left=124	max_min_left_minus=124	max_min_left_plus=117	max_min_right=115	max_min_right_minus=109	max_min_right_plus=115	max_pos_hash_score=488	max_right=248	max_right_minus=244	max_right_plus=248	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.96	new_junction_read_count=36	polymorphism_frequency=1.000e+00	pos_hash_score=35	prediction=consensus	read_count_offset=9	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=235	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=36
JC	306	.	NC_000913	271761	-1	NC_000913	4640418	1	0	alignment_overlap=2	coverage_minus=4	coverage_plus=2	flanking_left=251	flanking_right=251	frequency=2.007e-01	junction_possible_overlap_registers=243	key=NC_000913__271762__-1__NC_000913__4640417__1__2____251__251__0__0	max_left=159	max_left_minus=159	max_left_plus=93	max_min_left=93	max_min_left_minus=32	max_min_left_plus=93	max_min_right=114	max_min_right_minus=114	max_min_right_plus=0	max_pos_hash_score=486	max_right=235	max_right_minus=235	max_right_plus=197	neg_log10_pos_hash_p_value=3.0	new_junction_coverage=0.16	new_junction_read_count=6	polymorphism_frequency=2.007e-01	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	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=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.64	side_2_overlap=1	side_2_possible_overlap_registers=244	side_2_read_count=24	side_2_redundant=0	total_non_overlap_reads=6
JC	307	.	NC_000913	273955	1	NC_000913	1051342	1	0	alignment_overlap=0	coverage_minus=9	coverage_plus=12	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__273955__1__NC_000913__1051342__1__0____251__251__1__0	max_left=237	max_left_minus=193	max_left_plus=237	max_min_left=116	max_min_left_minus=107	max_min_left_plus=116	max_min_right=110	max_min_right_minus=110	max_min_right_plus=106	max_pos_hash_score=490	max_right=231	max_right_minus=211	max_right_plus=231	neg_log10_pos_hash_p_value=0.8	new_junction_coverage=0.55	new_junction_read_count=21	polymorphism_frequency=1.000e+00	pos_hash_score=21	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=241	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=21
JC	308	.	NC_000913	275149	-1	NC_000913	1051345	-1	0	alignment_overlap=0	coverage_minus=11	coverage_plus=15	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__275149__-1__NC_000913__1051345__-1__0____251__251__1__0	max_left=231	max_left_minus=213	max_left_plus=231	max_min_left=119	max_min_left_minus=109	max_min_left_plus=119	max_min_right=115	max_min_right_minus=81	max_min_right_plus=115	max_pos_hash_score=490	max_right=218	max_right_minus=218	max_right_plus=206	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.69	new_junction_read_count=26	polymorphism_frequency=1.000e+00	pos_hash_score=25	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=241	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=26
JC	309	.	NC_000913	280111	-1	NC_000913	4640418	1	0	alignment_overlap=1	coverage_minus=4	coverage_plus=2	flanking_left=251	flanking_right=251	frequency=2.000e-01	junction_possible_overlap_registers=244	key=NC_000913__280111__-1__NC_000913__4640417__1__1____251__251__0__0	max_left=159	max_left_minus=159	max_left_plus=93	max_min_left=93	max_min_left_minus=32	max_min_left_plus=93	max_min_right=115	max_min_right_minus=115	max_min_right_plus=0	max_pos_hash_score=488	max_right=236	max_right_minus=236	max_right_plus=198	neg_log10_pos_hash_p_value=3.1	new_junction_coverage=0.16	new_junction_read_count=6	polymorphism_frequency=2.000e-01	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	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=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.64	side_2_overlap=0	side_2_possible_overlap_registers=244	side_2_read_count=24	side_2_redundant=0	total_non_overlap_reads=6
JC	310	.	NC_000913	607765	1	NC_000913	3722075	-1	0	alignment_overlap=1	coverage_minus=17	coverage_plus=15	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=244	key=NC_000913__607764__1__NC_000913__3722075__-1__1____251__251__0__0	max_left=249	max_left_minus=249	max_left_plus=228	max_min_left=122	max_min_left_minus=122	max_min_left_plus=118	max_min_right=96	max_min_right_minus=49	max_min_right_plus=96	max_pos_hash_score=488	max_right=242	max_right_minus=242	max_right_plus=240	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.90	new_junction_read_count=34	polymorphism_frequency=9.711e-01	pos_hash_score=32	prediction=consensus	read_count_offset=3	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=0	side_1_possible_overlap_registers=241	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=1	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=0	total_non_overlap_reads=32
JC	311	.	NC_000913	607767	-1	NC_000913	3720633	1	0	alignment_overlap=2	coverage_minus=6	coverage_plus=13	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=243	key=NC_000913__607769__-1__NC_000913__3720633__1__2____251__251__0__0	max_left=234	max_left_minus=79	max_left_plus=234	max_min_left=116	max_min_left_minus=79	max_min_left_plus=116	max_min_right=98	max_min_right_minus=0	max_min_right_plus=98	max_pos_hash_score=486	max_right=248	max_right_minus=248	max_right_plus=219	neg_log10_pos_hash_p_value=1.1	new_junction_coverage=0.51	new_junction_read_count=19	polymorphism_frequency=9.494e-01	pos_hash_score=17	prediction=consensus	read_count_offset=3	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.03	side_1_overlap=0	side_1_possible_overlap_registers=240	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=2	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=0	total_non_overlap_reads=19
JC	312	.	NC_000913	1291113	-1	NC_000913	1978503	1	0	alignment_overlap=0	coverage_minus=22	coverage_plus=11	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__1291113__-1__NC_000913__1978503__1__0____251__251__0__1	max_left=237	max_left_minus=237	max_left_plus=231	max_min_left=120	max_min_left_minus=120	max_min_left_plus=116	max_min_right=124	max_min_right_minus=124	max_min_right_plus=118	max_pos_hash_score=490	max_right=223	max_right_minus=223	max_right_plus=221	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.87	new_junction_read_count=33	polymorphism_frequency=1.000e+00	pos_hash_score=33	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=236	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=33
JC	313	.	NC_000913	1299498	-1	NC_000913	1300698	1	0	alignment_overlap=4	coverage_minus=10	coverage_plus=10	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=241	key=NC_000913__1299498__-1__NC_000913__1300694__1__4____251__251__0__0	max_left=235	max_left_minus=235	max_left_plus=226	max_min_left=100	max_min_left_minus=97	max_min_left_plus=100	max_min_right=112	max_min_right_minus=97	max_min_right_plus=112	max_pos_hash_score=482	max_right=217	max_right_minus=217	max_right_plus=208	neg_log10_pos_hash_p_value=0.9	new_junction_coverage=0.54	new_junction_read_count=20	polymorphism_frequency=1.000e+00	pos_hash_score=20	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=245	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=241	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=20
JC	314	.	NC_000913	1411924	-1	NC_000913	1434985	1	0	alignment_overlap=26	coverage_minus=9	coverage_plus=17	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=219	key=NC_000913__1411924__-1__NC_000913__1434959__1__26____251__251__0__0	max_left=223	max_left_minus=223	max_left_plus=221	max_min_left=107	max_min_left_minus=107	max_min_left_plus=95	max_min_right=103	max_min_right_minus=89	max_min_right_plus=103	max_pos_hash_score=438	max_right=212	max_right_minus=201	max_right_plus=212	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.86	new_junction_read_count=29	polymorphism_frequency=1.000e+00	pos_hash_score=25	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=26	side_1_possible_overlap_registers=245	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=219	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=26
JC	315	.	NC_000913	1506415	-1	NC_000913	1506461	1	0	alignment_overlap=14	coverage_minus=18	coverage_plus=17	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=231	key=NC_000913__1506415__-1__NC_000913__1506447__1__14____251__251__0__0	max_left=231	max_left_minus=179	max_left_plus=231	max_min_left=106	max_min_left_minus=90	max_min_left_plus=106	max_min_right=115	max_min_right_minus=115	max_min_right_plus=62	max_pos_hash_score=462	max_right=235	max_right_minus=234	max_right_plus=235	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.04	new_junction_read_count=37	polymorphism_frequency=1.000e+00	pos_hash_score=34	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=14	side_1_possible_overlap_registers=245	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=35
JC	316	.	NC_000913	1978502	-1	NC_000913	1979279	1	0	alignment_overlap=8	coverage_minus=14	coverage_plus=10	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=237	key=NC_000913__1978502__-1__NC_000913__1979271__1__8____251__251__0__0	max_left=228	max_left_minus=215	max_left_plus=228	max_min_left=112	max_min_left_minus=112	max_min_left_plus=107	max_min_right=117	max_min_right_minus=117	max_min_right_plus=115	max_pos_hash_score=474	max_right=215	max_right_minus=215	max_right_plus=213	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.68	new_junction_read_count=25	polymorphism_frequency=1.000e+00	pos_hash_score=24	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=245	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=237	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=24
JC	317	.	NC_000913	1978503	1	NC_000913	2175525	1	0	alignment_overlap=0	coverage_minus=19	coverage_plus=18	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__1978503__1__NC_000913__2175525__1__0____251__251__1__0	max_left=240	max_left_minus=237	max_left_plus=240	max_min_left=110	max_min_left_minus=110	max_min_left_plus=110	max_min_right=115	max_min_right_minus=115	max_min_right_plus=106	max_pos_hash_score=490	max_right=246	max_right_minus=239	max_right_plus=246	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.98	new_junction_read_count=37	polymorphism_frequency=1.000e+00	pos_hash_score=34	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=245	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=37
JC	318	.	NC_000913	1978503	1	NC_000913	4542250	1	0	alignment_overlap=4	coverage_minus=21	coverage_plus=15	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=241	key=NC_000913__1978503__1__NC_000913__4542246__1__4____251__251__1__0	max_left=231	max_left_minus=231	max_left_plus=199	max_min_left=76	max_min_left_minus=63	max_min_left_plus=76	max_min_right=113	max_min_right_minus=111	max_min_right_plus=113	max_pos_hash_score=482	max_right=244	max_right_minus=239	max_right_plus=244	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.97	new_junction_read_count=36	polymorphism_frequency=1.000e+00	pos_hash_score=36	prediction=consensus	read_count_offset=9	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=232	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=36
JC	319	.	NC_000913	1978503	1	NC_000913	4555143	1	0	alignment_overlap=0	coverage_minus=2	coverage_plus=1	flanking_left=251	flanking_right=251	frequency=8.824e-02	junction_possible_overlap_registers=245	key=NC_000913__1978503__1__NC_000913__4555143__1__0____251__251__1__0	max_left=212	max_left_minus=212	max_left_plus=140	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=121	max_min_right_minus=121	max_min_right_plus=111	max_pos_hash_score=490	max_right=121	max_right_minus=121	max_right_plus=111	neg_log10_pos_hash_p_value=4.1	new_junction_coverage=0.08	new_junction_read_count=3	polymorphism_frequency=8.824e-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=0.82	side_2_overlap=0	side_2_possible_overlap_registers=245	side_2_read_count=31	side_2_redundant=0	total_non_overlap_reads=3
JC	320	.	NC_000913	1979270	-1	NC_000913	2172547	-1	0	alignment_overlap=0	coverage_minus=17	coverage_plus=12	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__1979270__-1__NC_000913__2172547__-1__0____251__251__1__0	max_left=248	max_left_minus=248	max_left_plus=245	max_min_left=116	max_min_left_minus=111	max_min_left_plus=116	max_min_right=123	max_min_right_minus=108	max_min_right_plus=123	max_pos_hash_score=490	max_right=243	max_right_minus=243	max_right_plus=210	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.85	new_junction_read_count=32	polymorphism_frequency=1.000e+00	pos_hash_score=29	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=245	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=29
JC	321	.	NC_000913	2170171	1	NC_000913	2468300	-1	0	alignment_overlap=0	coverage_minus=14	coverage_plus=16	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__2170171__1__NC_000913__2468300__-1__0____251__251__1__0	max_left=250	max_left_minus=234	max_left_plus=250	max_min_left=107	max_min_left_minus=107	max_min_left_plus=79	max_min_right=118	max_min_right_minus=95	max_min_right_plus=118	max_pos_hash_score=490	max_right=247	max_right_minus=247	max_right_plus=232	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.79	new_junction_read_count=30	polymorphism_frequency=1.000e+00	pos_hash_score=29	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=242	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=30
JC	322	.	NC_000913	2171428	-1	NC_000913	2468298	1	0	alignment_overlap=1	coverage_minus=16	coverage_plus=12	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=244	key=NC_000913__2171428__-1__NC_000913__2468297__1__1____251__251__1__0	max_left=248	max_left_minus=248	max_left_plus=238	max_min_left=111	max_min_left_minus=106	max_min_left_plus=111	max_min_right=121	max_min_right_minus=113	max_min_right_plus=121	max_pos_hash_score=488	max_right=242	max_right_minus=221	max_right_plus=242	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.80	new_junction_read_count=30	polymorphism_frequency=1.000e+00	pos_hash_score=28	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=241	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=28
JC	323	.	NC_000913	2288919	1	NC_000913	2819278	1	0	alignment_overlap=1	coverage_minus=27	coverage_plus=15	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=244	key=NC_000913__2288919__1__NC_000913__2819277__1__1____251__251__1__0	max_left=236	max_left_minus=224	max_left_plus=236	max_min_left=124	max_min_left_minus=115	max_min_left_plus=124	max_min_right=119	max_min_right_minus=116	max_min_right_plus=119	max_pos_hash_score=488	max_right=249	max_right_minus=248	max_right_plus=249	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.11	new_junction_read_count=42	polymorphism_frequency=1.000e+00	pos_hash_score=38	prediction=consensus	read_count_offset=4	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=240	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=42
JC	324	.	NC_000913	2290113	-1	NC_000913	2819281	-1	0	alignment_overlap=1	coverage_minus=16	coverage_plus=27	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=244	key=NC_000913__2290113__-1__NC_000913__2819282__-1__1____251__251__1__0	max_left=223	max_left_minus=222	max_left_plus=223	max_min_left=115	max_min_left_minus=107	max_min_left_plus=115	max_min_right=111	max_min_right_minus=111	max_min_right_plus=87	max_pos_hash_score=488	max_right=248	max_right_minus=236	max_right_plus=248	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.14	new_junction_read_count=43	polymorphism_frequency=1.000e+00	pos_hash_score=42	prediction=consensus	read_count_offset=4	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=240	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=43
JC	325	.	NC_000913	2558698	-1	NC_000913	2565489	1	0	alignment_overlap=8	coverage_minus=25	coverage_plus=17	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=237	key=NC_000913__2558698__-1__NC_000913__2565481__1__8____251__251__0__0	max_left=241	max_left_minus=241	max_left_plus=235	max_min_left=119	max_min_left_minus=119	max_min_left_plus=115	max_min_right=110	max_min_right_minus=110	max_min_right_plus=107	max_pos_hash_score=474	max_right=235	max_right_minus=235	max_right_plus=231	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.17	new_junction_read_count=43	polymorphism_frequency=1.000e+00	pos_hash_score=40	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=245	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=237	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=42
JC	326	.	NC_000913	2818197	1	NC_000913	2818471	-1	0	alignment_overlap=79	coverage_minus=10	coverage_plus=6	flanking_left=251	flanking_right=251	frequency=4.614e-01	junction_possible_overlap_registers=166	key=NC_000913__2818197__1__NC_000913__2818550__-1__79____251__251__0__0	max_left=164	max_left_minus=164	max_left_plus=132	max_min_left=78	max_min_left_minus=78	max_min_left_plus=74	max_min_right=51	max_min_right_minus=34	max_min_right_plus=51	max_pos_hash_score=332	max_right=169	max_right_minus=169	max_right_plus=141	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.66	new_junction_read_count=17	polymorphism_frequency=4.614e-01	pos_hash_score=16	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.85	side_1_overlap=79	side_1_possible_overlap_registers=245	side_1_read_count=32	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.70	side_2_overlap=0	side_2_possible_overlap_registers=166	side_2_read_count=18	side_2_redundant=0	total_non_overlap_reads=16
JC	327	.	NC_000913	3013860	1	NC_000913	3720633	1	0	alignment_overlap=2	coverage_minus=14	coverage_plus=14	flanking_left=251	flanking_right=251	frequency=7.568e-01	junction_possible_overlap_registers=243	key=NC_000913__3013858__1__NC_000913__3720633__1__2____251__251__0__0	max_left=245	max_left_minus=236	max_left_plus=245	max_min_left=108	max_min_left_minus=108	max_min_left_plus=77	max_min_right=109	max_min_right_minus=109	max_min_right_plus=84	max_pos_hash_score=486	max_right=245	max_right_minus=245	max_right_plus=192	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.75	new_junction_read_count=28	polymorphism_frequency=7.568e-01	pos_hash_score=27	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.24	side_1_overlap=0	side_1_possible_overlap_registers=243	side_1_read_count=9	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=2	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=0	total_non_overlap_reads=28
JC	328	.	NC_000913	3013862	-1	NC_000913	3722075	-1	0	alignment_overlap=1	coverage_minus=13	coverage_plus=18	flanking_left=251	flanking_right=251	frequency=7.757e-01	junction_possible_overlap_registers=244	key=NC_000913__3013862__-1__NC_000913__3722076__-1__1____251__251__0__0	max_left=242	max_left_minus=223	max_left_plus=242	max_min_left=121	max_min_left_minus=121	max_min_left_plus=68	max_min_right=115	max_min_right_minus=104	max_min_right_plus=115	max_pos_hash_score=488	max_right=247	max_right_minus=235	max_right_plus=247	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.82	new_junction_read_count=31	polymorphism_frequency=7.757e-01	pos_hash_score=30	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.24	side_1_overlap=1	side_1_possible_overlap_registers=245	side_1_read_count=9	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=0	total_non_overlap_reads=31
JC	329	.	NC_000913	3350556	1	NC_000913	3583428	1	0	alignment_overlap=0	coverage_minus=18	coverage_plus=22	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__3350556__1__NC_000913__3583428__1__0____251__251__0__1	max_left=250	max_left_minus=244	max_left_plus=250	max_min_left=118	max_min_left_minus=118	max_min_left_plus=113	max_min_right=120	max_min_right_minus=120	max_min_right_plus=114	max_pos_hash_score=490	max_right=248	max_right_minus=248	max_right_plus=243	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.11	new_junction_read_count=42	polymorphism_frequency=1.000e+00	pos_hash_score=39	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=237	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=40
JC	330	.	NC_000913	3350563	-1	NC_000913	3584195	-1	0	alignment_overlap=0	coverage_minus=21	coverage_plus=19	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__3350563__-1__NC_000913__3584195__-1__0____251__251__0__1	max_left=243	max_left_minus=242	max_left_plus=243	max_min_left=102	max_min_left_minus=102	max_min_left_plus=97	max_min_right=113	max_min_right_minus=102	max_min_right_plus=113	max_pos_hash_score=490	max_right=245	max_right_minus=245	max_right_plus=220	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.08	new_junction_read_count=41	polymorphism_frequency=1.000e+00	pos_hash_score=35	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=237	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=40
JC	331	.	NC_000913	3485657	-1	NC_000913	3490828	1	0	alignment_overlap=8	coverage_minus=18	coverage_plus=17	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=237	key=NC_000913__3485657__-1__NC_000913__3490820__1__8____251__251__0__0	max_left=216	max_left_minus=216	max_left_plus=208	max_min_left=114	max_min_left_minus=104	max_min_left_plus=114	max_min_right=120	max_min_right_minus=120	max_min_right_plus=120	max_pos_hash_score=474	max_right=242	max_right_minus=242	max_right_plus=221	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.98	new_junction_read_count=36	polymorphism_frequency=1.000e+00	pos_hash_score=35	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=245	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=237	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=35
JC	332	.	NC_000913	3583428	1	NC_000913	3888877	-1	0	alignment_overlap=0	coverage_minus=12	coverage_plus=29	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__3583428__1__NC_000913__3888877__-1__0____251__251__1__0	max_left=242	max_left_minus=239	max_left_plus=242	max_min_left=121	max_min_left_minus=111	max_min_left_plus=121	max_min_right=123	max_min_right_minus=108	max_min_right_plus=123	max_pos_hash_score=490	max_right=247	max_right_minus=210	max_right_plus=247	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.11	new_junction_read_count=42	polymorphism_frequency=1.000e+00	pos_hash_score=41	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=236	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=41
JC	333	.	NC_000913	3583428	1	NC_000913	4542258	-1	0	alignment_overlap=0	coverage_minus=18	coverage_plus=23	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__3583428__1__NC_000913__4542258__-1__0____251__251__1__0	max_left=239	max_left_minus=238	max_left_plus=239	max_min_left=112	max_min_left_minus=112	max_min_left_plus=106	max_min_right=108	max_min_right_minus=108	max_min_right_plus=108	max_pos_hash_score=490	max_right=250	max_right_minus=241	max_right_plus=250	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.08	new_junction_read_count=41	polymorphism_frequency=9.753e-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=0.03	side_2_overlap=0	side_2_possible_overlap_registers=236	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=41
JC	334	.	NC_000913	3584195	-1	NC_000913	3888869	1	0	alignment_overlap=0	coverage_minus=21	coverage_plus=17	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__3584195__-1__NC_000913__3888869__1__0____251__251__1__0	max_left=240	max_left_minus=240	max_left_plus=234	max_min_left=114	max_min_left_minus=114	max_min_left_plus=108	max_min_right=122	max_min_right_minus=111	max_min_right_plus=122	max_pos_hash_score=490	max_right=231	max_right_minus=231	max_right_plus=221	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.00	new_junction_read_count=38	polymorphism_frequency=1.000e+00	pos_hash_score=36	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=236	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=38
JC	335	.	NC_000913	3653230	-1	NC_000913	3663802	1	0	alignment_overlap=0	coverage_minus=17	coverage_plus=19	flanking_left=251	flanking_right=251	frequency=1	junction_possible_overlap_registers=245	key=NC_000913__3653230__-1__NC_000913__3663802__1__0____251__251__1__0	max_left=245	max_left_minus=245	max_left_plus=241	max_min_left=125	max_min_left_minus=125	max_min_left_plus=120	max_min_right=124	max_min_right_minus=124	max_min_right_plus=103	max_pos_hash_score=490	max_right=233	max_right_minus=230	max_right_plus=233	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.95	new_junction_read_count=36	polymorphism_frequency=9.730e-01	pos_hash_score=36	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=0.03	side_2_overlap=0	side_2_possible_overlap_registers=245	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=36
JC	336	.	NC_000913	4507459	1	NC_000913	4640418	1	0	alignment_overlap=1	coverage_minus=4	coverage_plus=2	flanking_left=251	flanking_right=251	frequency=2.000e-01	junction_possible_overlap_registers=244	key=NC_000913__4507459__1__NC_000913__4640417__1__1____251__251__1__0	max_left=159	max_left_minus=159	max_left_plus=93	max_min_left=93	max_min_left_minus=32	max_min_left_plus=93	max_min_right=115	max_min_right_minus=115	max_min_right_plus=0	max_pos_hash_score=488	max_right=236	max_right_minus=236	max_right_plus=198	neg_log10_pos_hash_p_value=3.1	new_junction_coverage=0.16	new_junction_read_count=6	polymorphism_frequency=2.000e-01	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	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=0.64	side_2_overlap=0	side_2_possible_overlap_registers=244	side_2_read_count=24	side_2_redundant=0	total_non_overlap_reads=6
JC	337	.	NC_000913	4508679	-1	NC_000913	4640419	-1	0	alignment_overlap=2	coverage_minus=2	coverage_plus=4	flanking_left=251	flanking_right=251	frequency=2.143e-01	junction_possible_overlap_registers=243	key=NC_000913__4508679__-1__NC_000913__4640421__-1__2____251__251__1__0	max_left=144	max_left_minus=12	max_left_plus=144	max_min_left=71	max_min_left_minus=12	max_min_left_plus=71	max_min_right=105	max_min_right_minus=0	max_min_right_plus=105	max_pos_hash_score=486	max_right=240	max_right_minus=240	max_right_plus=234	neg_log10_pos_hash_p_value=3.0	new_junction_coverage=0.16	new_junction_read_count=6	polymorphism_frequency=2.143e-01	pos_hash_score=6	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=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.59	side_2_overlap=0	side_2_possible_overlap_registers=243	side_2_read_count=22	side_2_redundant=0	total_non_overlap_reads=6
JC	338	.	NC_000913	4542682	1	NC_000913	4542996	1	0	alignment_overlap=9	coverage_minus=10	coverage_plus=3	flanking_left=251	flanking_right=251	frequency=5.954e-01	junction_possible_overlap_registers=236	key=NC_000913__4542682__1__NC_000913__4542987__1__9____251__251__0__0	max_left=172	max_left_minus=172	max_left_plus=153	max_min_left=119	max_min_left_minus=119	max_min_left_plus=0	max_min_right=117	max_min_right_minus=83	max_min_right_plus=117	max_pos_hash_score=472	max_right=225	max_right_minus=225	max_right_plus=117	neg_log10_pos_hash_p_value=1.6	new_junction_coverage=0.36	new_junction_read_count=13	polymorphism_frequency=5.954e-01	pos_hash_score=13	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.24	side_1_overlap=9	side_1_possible_overlap_registers=245	side_1_read_count=9	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.25	side_2_overlap=0	side_2_possible_overlap_registers=236	side_2_read_count=9	side_2_redundant=0	total_non_overlap_reads=13
JC	339	.	NC_000913	4542690	-1	NC_000913	4542986	-1	0	alignment_overlap=9	coverage_minus=4	coverage_plus=3	flanking_left=251	flanking_right=251	frequency=4.559e-01	junction_possible_overlap_registers=236	key=NC_000913__4542690__-1__NC_000913__4542995__-1__9____251__251__0__0	max_left=183	max_left_minus=73	max_left_plus=183	max_min_left=73	max_min_left_minus=73	max_min_left_plus=52	max_min_right=58	max_min_right_minus=0	max_min_right_plus=58	max_pos_hash_score=472	max_right=214	max_right_minus=214	max_right_plus=204	neg_log10_pos_hash_p_value=2.7	new_junction_coverage=0.19	new_junction_read_count=7	polymorphism_frequency=4.559e-01	pos_hash_score=7	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.21	side_1_overlap=9	side_1_possible_overlap_registers=245	side_1_read_count=8	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.25	side_2_overlap=0	side_2_possible_overlap_registers=236	side_2_read_count=9	side_2_redundant=0	total_non_overlap_reads=7
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UN	570	.	NC_000913	4507662	4507662
UN	571	.	NC_000913	4507664	4507672
UN	572	.	NC_000913	4507674	4508473