#=GENOME_DIFF	1.0
#=CREATED	14:32:49 10 Oct 2025
#=PROGRAM	breseq 0.39.0 
#=COMMAND	breseq -j 8 -o /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_run15_rmdup_trimmng-adaptors-polyG/ME8488_S13_R1R2_RMDUP -r /ld1/E.coli_MG1655_ref/MG1655/ncbi_dataset/data/GCF_000005845.2/genomic.gbff /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME8488_S13_R1_RMDUP_RM-R2-DUP.cutadapt.fastq.gz /ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME8488_S13_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=REFSEQ	/ld1/E.coli_MG1655_ref/MG1655/ncbi_dataset/data/GCF_000005845.2/genomic.gbff
#=READSEQ	/ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME8488_S13_R1_RMDUP_RM-R2-DUP.cutadapt.fastq.gz
#=READSEQ	/ld1/breseq_work/20250912_VH01894_36_AAGTVTVM5_QC/RUN15_RMDUP/results/p05_trimmed_fastq_by_cutadapt_-m30/ME8488_S13_R2_RMDUP_RM-R1-DUP.cutadapt.fastq.gz
#=CONVERTED-BASES	431133766
#=CONVERTED-READS	1457791
#=INPUT-BASES	431224148
#=INPUT-READS	1458100
#=MAPPED-BASES	418646546
#=MAPPED-READS	1416436
SNP	1	164	NC_000913	3645	A
SNP	2	166	NC_000913	71170	C
SNP	3	167	NC_000913	81102	A
SNP	4	170	NC_000913	154182	T
SNP	5	171	NC_000913	156068	G
INS	6	172	NC_000913	160864	C	repeat_length=1	repeat_new_copies=7	repeat_ref_copies=6	repeat_seq=C
DEL	7	173	NC_000913	210002	1
DEL	8	366,381	NC_000913	255892	18063	mediated=IS5
SNP	9	174	NC_000913	284535	G
SNP	10	175	NC_000913	292019	T
SNP	11	176	NC_000913	309381	T
SNP	12	177	NC_000913	309985	A
SNP	13	179	NC_000913	321260	T
SNP	14	180	NC_000913	410666	T
SNP	15	181	NC_000913	421027	T
SNP	16	182	NC_000913	431912	T
SNP	17	184	NC_000913	465005	A
SNP	18	185	NC_000913	472849	G
SNP	19	186	NC_000913	495622	T
SNP	20	187	NC_000913	495988	G
SNP	21	188	NC_000913	534742	A
DEL	22	368,384	NC_000913	575786	3398	mediated=IS5
SNP	23	189	NC_000913	582597	T
SNP	24	190	NC_000913	694941	A
SNP	25	191	NC_000913	696470	T
SNP	26	192	NC_000913	708774	A
SNP	27	193	NC_000913	721604	A
SNP	28	195	NC_000913	780624	T
SNP	29	197	NC_000913	789580	A
MOB	30	383,385	NC_000913	820914	IS5	1	4
SNP	31	198	NC_000913	822527	T
INS	32	202	NC_000913	848112	A	repeat_length=1	repeat_new_copies=6	repeat_ref_copies=5	repeat_seq=A
SNP	33	203	NC_000913	883396	T
SNP	34	204	NC_000913	908169	T
SUB	35	205,206	NC_000913	1038477	2	AA
MOB	36	386,387	NC_000913	1105699	IS1	1	9
SUB	37	208,209	NC_000913	1123823	2	AG
SNP	38	210	NC_000913	1147792	A
SNP	39	211	NC_000913	1169836	G
SNP	40	212	NC_000913	1189980	G
SNP	41	213	NC_000913	1194922	A
SNP	42	214	NC_000913	1201548	C
SNP	43	215	NC_000913	1201550	A
SNP	44	216	NC_000913	1253002	T
MOB	45	394,395	NC_000913	1290542	IS1	1	9
DEL	46	369,396	NC_000913	1299499	1199
SNP	47	218	NC_000913	1301992	T
SNP	48	219	NC_000913	1306736	G
SNP	49	220	NC_000913	1308684	C
SUB	50	221,222	NC_000913	1331059	2	AT
SNP	51	224	NC_000913	1337394	G
SNP	52	226	NC_000913	1358859	C
SNP	53	227	NC_000913	1395367	A
SNP	54	228	NC_000913	1405758	A
DEL	55	370,397	NC_000913	1411925	23060
SNP	56	229	NC_000913	1460045	G
SUB	57	233,234,235,236	NC_000913	1497385	4	CAA
SUB	58	239,240	NC_000913	1517587	2	TT
SNP	59	241	NC_000913	1522583	T
SNP	60	242	NC_000913	1541037	G
SNP	61	243	NC_000913	1541058	A
SNP	62	244	NC_000913	1591711	A
SNP	63	245	NC_000913	1629247	T
SNP	64	246	NC_000913	1643679	T
SNP	65	247	NC_000913	1648428	C
SNP	66	248	NC_000913	1652331	C
SNP	67	249	NC_000913	1660102	T
SNP	68	250	NC_000913	1664866	T
SNP	69	251	NC_000913	1667460	A
INS	70	252	NC_000913	1685542	C	repeat_length=1	repeat_new_copies=7	repeat_ref_copies=6	repeat_seq=C
SNP	71	253	NC_000913	1712661	T
DEL	72	254	NC_000913	1714326	1	repeat_length=1	repeat_new_copies=8	repeat_ref_copies=9	repeat_seq=T
SNP	73	255	NC_000913	1748841	T
SNP	74	257	NC_000913	1808014	A
SNP	75	259	NC_000913	1836397	A
SUB	76	260,261	NC_000913	1848300	2	TT
SNP	77	262	NC_000913	1878937	A
SNP	78	263	NC_000913	1894675	T
SNP	79	264	NC_000913	1894839	C
SNP	80	265	NC_000913	2023559	G
SNP	81	266	NC_000913	2027332	A
SNP	82	267	NC_000913	2040433	A
SNP	83	268	NC_000913	2041278	A
SNP	84	269	NC_000913	2052885	A
SNP	85	271	NC_000913	2090780	T
SNP	86	272	NC_000913	2104024	T
DEL	87	273	NC_000913	2111259	1
SNP	88	274	NC_000913	2120969	A
INS	89	275	NC_000913	2139387	G	repeat_length=1	repeat_new_copies=6	repeat_ref_copies=5	repeat_seq=G
SNP	90	276	NC_000913	2142598	A
DEL	91	277,278	NC_000913	2173363	2
SNP	92	279	NC_000913	2173448	T
SNP	93	280	NC_000913	2233609	T
MOB	94	401,402	NC_000913	2239316	IS5	-1	4
SNP	95	281	NC_000913	2242247	T
SNP	96	282	NC_000913	2247134	C
SNP	97	284	NC_000913	2361210	G
SNP	98	285	NC_000913	2404402	A
INS	99	287	NC_000913	2420990	C	repeat_length=1	repeat_new_copies=7	repeat_ref_copies=6	repeat_seq=C
SNP	100	291	NC_000913	2481608	G
SNP	101	292	NC_000913	2498392	C
SNP	102	293	NC_000913	2546804	A
DEL	103	372,407	NC_000913	2558699	6790
SNP	104	294	NC_000913	2577937	C
SNP	105	295	NC_000913	2587112	T
SNP	106	296	NC_000913	2676087	G
SNP	107	297	NC_000913	2745600	G
SNP	108	301	NC_000913	2774947	A
SNP	109	302	NC_000913	2867455	A
SNP	110	303	NC_000913	2880635	C
SNP	111	304	NC_000913	2926772	A
DEL	112	305	NC_000913	3025601	1	repeat_length=1	repeat_new_copies=4	repeat_ref_copies=5	repeat_seq=T
SNP	113	307	NC_000913	3070858	G
DEL	114	373,403	NC_000913	3131341	128	mediated=IS5
DEL	115	308	NC_000913	3207549	1
SNP	116	309	NC_000913	3256301	A
SNP	117	310	NC_000913	3279276	G
SNP	118	311	NC_000913	3296481	A
SNP	119	312	NC_000913	3329743	T
SNP	120	313	NC_000913	3388041	G
SNP	121	314	NC_000913	3411689	T
SNP	122	315	NC_000913	3433900	T
SNP	123	316	NC_000913	3441425	A
SNP	124	317	NC_000913	3457209	T
SNP	125	319	NC_000913	3474425	G
SNP	126	320	NC_000913	3486175	A
SNP	127	321	NC_000913	3486502	T
SNP	128	322	NC_000913	3507249	T
SNP	129	323	NC_000913	3511466	T
SUB	130	324,325	NC_000913	3555047	2	TG
SNP	131	326	NC_000913	3560362	A
INS	132	327	NC_000913	3560455	G
SNP	133	329	NC_000913	3646970	T
SNP	134	330	NC_000913	3647428	T
SNP	135	332	NC_000913	3679581	A
SNP	136	333	NC_000913	3707947	A
SNP	137	334	NC_000913	3719429	A
SNP	138	335	NC_000913	3725176	G
SUB	139	336,337	NC_000913	3729440	2	TT
SNP	140	338	NC_000913	3730560	T
SNP	141	339	NC_000913	3770539	T
DEL	142	340	NC_000913	3773173	1
SNP	143	341	NC_000913	3773176	T
INS	144	342	NC_000913	3815883	C
SNP	145	343	NC_000913	3817167	T
MOB	146	399,414	NC_000913	3890715	IS1	-1	9
SNP	147	345	NC_000913	3926991	A
SNP	148	346	NC_000913	3931779	C
SNP	149	348	NC_000913	4153836	A
DEL	150	374,419	NC_000913	4180661	6
SNP	151	349	NC_000913	4193996	G
SNP	152	350	NC_000913	4215670	T
SNP	153	351	NC_000913	4223638	C
INS	154	354,355	NC_000913	4296381	GC
SNP	155	356	NC_000913	4325644	T
SNP	156	357	NC_000913	4331890	T
SNP	157	359	NC_000913	4437890	T
SNP	158	360	NC_000913	4473900	T
SNP	159	361	NC_000913	4475493	C
SNP	160	362	NC_000913	4476605	A
SNP	161	363	NC_000913	4489016	T
SNP	162	364	NC_000913	4510238	G
MOB	163	413,415	NC_000913	4542042	IS1	1	8
RA	164	.	NC_000913	3645	0	G	A	consensus_score=250.1	frequency=1	major_base=A	major_cov=49/25	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/25	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/25
RA	165	.	NC_000913	58065	0	C	A	bias_e_value=0.050266	bias_p_value=1.08293e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=136.4	fisher_strand_p_value=4.82324e-10	frequency=3.737e-01	ks_quality_p_value=1	major_base=C	major_cov=27/35	major_frequency=6.263e-01	minor_base=A	minor_cov=37/0	new_cov=37/0	polymorphism_frequency=3.737e-01	polymorphism_score=22.2	prediction=polymorphism	ref_cov=27/35	total_cov=64/35
RA	166	.	NC_000913	71170	0	T	C	consensus_score=327.3	frequency=1	major_base=C	major_cov=44/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/43
RA	167	.	NC_000913	81102	0	G	A	consensus_score=294.8	frequency=1	major_base=A	major_cov=40/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/43
RA	168	.	NC_000913	85651	0	G	T	bias_e_value=7.19221	bias_p_value=1.54949e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=185.0	fisher_strand_p_value=8.99619e-08	frequency=3.231e-01	ks_quality_p_value=1	major_base=G	major_cov=35/53	major_frequency=6.769e-01	minor_base=T	minor_cov=0/42	new_cov=0/42	polymorphism_frequency=3.231e-01	polymorphism_score=13.5	prediction=polymorphism	ref_cov=35/53	total_cov=35/95
RA	169	.	NC_000913	141849	0	C	A	bias_e_value=0.00531073	bias_p_value=1.14415e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=215.6	fisher_strand_p_value=4.6136e-11	frequency=2.906e-01	ks_quality_p_value=1	major_base=C	major_cov=33/50	major_frequency=7.094e-01	minor_base=A	minor_cov=34/0	new_cov=34/0	polymorphism_frequency=2.906e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=33/50	total_cov=67/50
RA	170	.	NC_000913	154182	0	C	T	bias_e_value=3743320	bias_p_value=0.806462	consensus_score=390.0	fisher_strand_p_value=0.446429	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=49/62	major_frequency=9.911e-01	minor_base=C	minor_cov=1/0	new_cov=49/62	polymorphism_frequency=9.911e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=50/62
RA	171	.	NC_000913	156068	0	A	G	consensus_score=436.0	frequency=1	major_base=G	major_cov=67/49	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=67/49	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=67/49
RA	172	.	NC_000913	160864	1	.	C	bias_e_value=79834.9	bias_p_value=0.0171997	consensus_score=368.9	fisher_strand_p_value=0.00245351	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=39/56	major_frequency=8.962e-01	minor_base=.	minor_cov=10/1	new_cov=39/56	polymorphism_frequency=8.962e-01	polymorphism_score=31.5	prediction=consensus	ref_cov=10/1	total_cov=49/57
RA	173	.	NC_000913	210002	0	G	.	bias_e_value=4641650	bias_p_value=1	consensus_score=473.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=.	major_cov=44/56	major_frequency=9.804e-01	minor_base=G	minor_cov=1/1	new_cov=44/56	polymorphism_frequency=9.804e-01	polymorphism_score=0.1	prediction=consensus	ref_cov=1/1	total_cov=45/57
RA	174	.	NC_000913	284535	0	T	G	bias_e_value=3735870	bias_p_value=0.804858	consensus_score=131.5	fisher_strand_p_value=0.444444	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=20/15	major_frequency=9.722e-01	minor_base=T	minor_cov=0/1	new_cov=20/15	polymorphism_frequency=9.722e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=20/16
RA	175	.	NC_000913	292019	0	C	T	consensus_score=304.1	frequency=1	major_base=T	major_cov=49/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/41
RA	176	.	NC_000913	309381	0	C	T	consensus_score=280.1	frequency=1	major_base=T	major_cov=39/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/40
RA	177	.	NC_000913	309985	0	T	A	consensus_score=297.3	frequency=1	major_base=A	major_cov=40/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/50
RA	178	.	NC_000913	320845	0	C	A	bias_e_value=6558.77	bias_p_value=0.00141303	consensus_reject=FREQUENCY_CUTOFF	consensus_score=86.9	fisher_strand_p_value=0.000143463	frequency=3.671e-01	ks_quality_p_value=1	major_base=C	major_cov=33/17	major_frequency=6.329e-01	minor_base=A	minor_cov=29/0	new_cov=29/0	polymorphism_frequency=3.671e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=33/17	total_cov=62/17
RA	179	.	NC_000913	321260	0	A	T	consensus_score=500.7	frequency=1	major_base=T	major_cov=63/77	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=63/77	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=63/77
RA	180	.	NC_000913	410666	0	C	T	consensus_score=304.9	frequency=1	major_base=T	major_cov=48/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=48/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=48/41
RA	181	.	NC_000913	421027	0	C	T	consensus_score=276.1	frequency=1	major_base=T	major_cov=47/34	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=47/34	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/34
RA	182	.	NC_000913	431912	0	C	T	consensus_score=336.4	frequency=1	major_base=T	major_cov=56/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=56/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=56/43
RA	183	.	NC_000913	442025	0	C	A	bias_e_value=0.343544	bias_p_value=7.40133e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=159.4	fisher_strand_p_value=3.62165e-09	frequency=3.000e-01	ks_quality_p_value=1	major_base=C	major_cov=24/39	major_frequency=7.000e-01	minor_base=A	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=3.000e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=24/39	total_cov=51/39
RA	184	.	NC_000913	465005	0	G	A	bias_e_value=3819180	bias_p_value=0.822806	consensus_score=376.3	fisher_strand_p_value=0.46729	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=49/57	major_frequency=9.907e-01	minor_base=G	minor_cov=1/0	new_cov=49/57	polymorphism_frequency=9.907e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=50/57
RA	185	.	NC_000913	472849	0	A	G	consensus_score=380.9	frequency=1	major_base=G	major_cov=46/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=46/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/54
RA	186	.	NC_000913	495622	0	C	T	consensus_score=376.3	frequency=1	major_base=T	major_cov=61/48	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=61/48	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=61/48
RA	187	.	NC_000913	495988	0	A	G	consensus_score=269.8	frequency=1	major_base=G	major_cov=31/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=31/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=31/41
RA	188	.	NC_000913	534742	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=239.4	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=43/28	major_frequency=9.861e-01	minor_base=C	minor_cov=1/0	new_cov=43/28	polymorphism_frequency=9.861e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/28
RA	189	.	NC_000913	582597	0	C	T	bias_e_value=3807510	bias_p_value=0.820292	consensus_score=418.9	fisher_strand_p_value=0.464	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=67/57	major_frequency=9.920e-01	minor_base=C	minor_cov=0/1	new_cov=67/57	polymorphism_frequency=9.920e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=67/58
RA	190	.	NC_000913	694941	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=310.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=39/49	major_frequency=9.888e-01	minor_base=G	minor_cov=0/1	new_cov=39/49	polymorphism_frequency=9.888e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=39/50
RA	191	.	NC_000913	696470	0	C	T	bias_e_value=4580890	bias_p_value=0.986908	consensus_score=280.4	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.842613	major_base=T	major_cov=41/45	major_frequency=9.773e-01	minor_base=C	minor_cov=1/1	new_cov=41/45	polymorphism_frequency=9.773e-01	polymorphism_score=-2.1	prediction=consensus	ref_cov=1/1	total_cov=42/47
RA	192	.	NC_000913	708774	0	G	A	consensus_score=279.5	frequency=1	major_base=A	major_cov=50/33	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=50/33	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=50/33
RA	193	.	NC_000913	721604	0	G	A	consensus_score=199.1	frequency=1	major_base=A	major_cov=24/33	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=24/33	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=24/33
RA	194	.	NC_000913	776306	0	A	G	bias_e_value=4556690	bias_p_value=0.981696	consensus_reject=FREQUENCY_CUTOFF	consensus_score=244.3	fisher_strand_p_value=0.814873	frequency=2.091e-01	ks_quality_p_value=1	major_base=A	major_cov=38/49	major_frequency=7.909e-01	minor_base=G	minor_cov=11/12	new_cov=11/12	polymorphism_frequency=2.091e-01	polymorphism_score=58.0	prediction=polymorphism	ref_cov=38/49	total_cov=49/61
RA	195	.	NC_000913	780624	0	C	T	bias_e_value=1696480	bias_p_value=0.36549	consensus_score=258.1	fisher_strand_p_value=0.115818	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=36/38	major_frequency=9.487e-01	minor_base=C	minor_cov=4/0	new_cov=36/38	polymorphism_frequency=9.487e-01	polymorphism_score=-7.0	prediction=consensus	ref_cov=4/0	total_cov=40/40
RA	196	.	NC_000913	782194	0	T	G	bias_e_value=0.00413125	bias_p_value=8.90038e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=234.4	fisher_strand_p_value=3.55148e-11	frequency=2.683e-01	ks_quality_p_value=1	major_base=T	major_cov=55/35	major_frequency=7.317e-01	minor_base=G	minor_cov=0/33	new_cov=0/33	polymorphism_frequency=2.683e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=55/35	total_cov=55/68
RA	197	.	NC_000913	789580	0	C	A	bias_e_value=3659320	bias_p_value=0.788365	consensus_score=268.7	fisher_strand_p_value=0.424658	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=30/42	major_frequency=9.863e-01	minor_base=C	minor_cov=1/0	new_cov=30/42	polymorphism_frequency=9.863e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=31/42
RA	198	.	NC_000913	822527	0	C	T	bias_e_value=3764220	bias_p_value=0.810965	consensus_score=237.6	fisher_strand_p_value=0.452055	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=40/32	major_frequency=9.863e-01	minor_base=G	minor_cov=0/1	new_cov=40/32	polymorphism_frequency=9.863e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/33
RA	199	.	NC_000913	832448	0	G	A	bias_e_value=41008.4	bias_p_value=0.00883487	consensus_reject=FREQUENCY_CUTOFF	consensus_score=160.1	fisher_strand_p_value=0.00113549	frequency=2.353e-01	ks_quality_p_value=1	major_base=G	major_cov=28/37	major_frequency=7.647e-01	minor_base=A	minor_cov=1/19	new_cov=1/19	polymorphism_frequency=2.353e-01	polymorphism_score=17.2	prediction=polymorphism	ref_cov=28/37	total_cov=31/56
RA	200	.	NC_000913	847955	0	G	A	bias_e_value=0.0121463	bias_p_value=2.6168e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=189.8	fisher_strand_p_value=1.09322e-10	frequency=2.734e-01	ks_quality_p_value=1	major_base=G	major_cov=53/40	major_frequency=7.266e-01	minor_base=A	minor_cov=0/35	new_cov=0/35	polymorphism_frequency=2.734e-01	polymorphism_score=40.5	prediction=polymorphism	ref_cov=53/40	total_cov=53/75
RA	201	.	NC_000913	848028	0	G	T	bias_e_value=0.374872	bias_p_value=8.07627e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=217.7	fisher_strand_p_value=3.96974e-09	frequency=2.778e-01	ks_quality_p_value=1	major_base=G	major_cov=46/45	major_frequency=7.222e-01	minor_base=T	minor_cov=0/35	new_cov=0/35	polymorphism_frequency=2.778e-01	polymorphism_score=21.9	prediction=polymorphism	ref_cov=46/45	total_cov=46/80
RA	202	.	NC_000913	848112	1	.	A	bias_e_value=4641640	bias_p_value=0.999997	consensus_score=412.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.997373	major_base=A	major_cov=43/73	major_frequency=9.831e-01	minor_base=.	minor_cov=1/1	new_cov=43/73	polymorphism_frequency=9.831e-01	polymorphism_score=0.3	prediction=consensus	ref_cov=1/1	total_cov=44/74
RA	203	.	NC_000913	883396	0	C	T	consensus_score=453.0	frequency=1	major_base=T	major_cov=60/72	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=60/72	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=60/72
RA	204	.	NC_000913	908169	0	C	T	consensus_score=175.0	frequency=1	major_base=T	major_cov=27/28	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=27/28	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=27/28
RA	205	.	NC_000913	1038477	0	G	A	consensus_score=201.5	frequency=1	major_base=A	major_cov=39/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/21
RA	206	.	NC_000913	1038478	0	C	A	consensus_score=210.5	frequency=1	major_base=A	major_cov=39/21	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/21	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/21
RA	207	.	NC_000913	1109632	0	G	A	bias_e_value=0.00867123	bias_p_value=1.86813e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=214.3	fisher_strand_p_value=7.69149e-11	frequency=2.233e-01	ks_quality_p_value=1	major_base=G	major_cov=58/22	major_frequency=7.767e-01	minor_base=A	minor_cov=0/23	new_cov=0/23	polymorphism_frequency=2.233e-01	polymorphism_score=21.2	prediction=polymorphism	ref_cov=58/22	total_cov=58/45
RA	208	.	NC_000913	1123823	0	G	A	consensus_score=315.4	frequency=1	major_base=A	major_cov=49/38	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/38	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/38
RA	209	.	NC_000913	1123824	0	T	G	consensus_score=324.3	frequency=1	major_base=G	major_cov=49/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/37
RA	210	.	NC_000913	1147792	0	T	A	consensus_score=233.9	frequency=1	major_base=A	major_cov=35/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=35/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=35/37
RA	211	.	NC_000913	1169836	0	A	G	consensus_score=247.2	frequency=1	major_base=G	major_cov=32/35	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=32/35	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=32/35
RA	212	.	NC_000913	1189980	0	A	G	bias_e_value=3921530	bias_p_value=0.844856	consensus_score=298.9	fisher_strand_p_value=0.497531	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=42/37	major_frequency=9.753e-01	minor_base=A	minor_cov=2/0	new_cov=42/37	polymorphism_frequency=9.753e-01	polymorphism_score=NA	prediction=consensus	ref_cov=2/0	total_cov=44/37
RA	213	.	NC_000913	1194922	0	G	A	bias_e_value=4641600	bias_p_value=0.99999	consensus_score=349.9	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.995432	major_base=A	major_cov=54/50	major_frequency=9.905e-01	minor_base=C	minor_cov=1/0	new_cov=54/50	polymorphism_frequency=9.905e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=55/50
RA	214	.	NC_000913	1201548	0	A	C	bias_e_value=4641650	bias_p_value=1	consensus_score=516.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=85/49	major_frequency=9.926e-01	minor_base=.	minor_cov=1/0	new_cov=85/49	polymorphism_frequency=9.926e-01	polymorphism_score=-4.0	prediction=consensus	ref_cov=0/0	total_cov=86/49
RA	215	.	NC_000913	1201550	0	C	A	bias_e_value=4641650	bias_p_value=1	consensus_score=479.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999889	major_base=A	major_cov=85/49	major_frequency=9.926e-01	minor_base=C	minor_cov=1/0	new_cov=85/49	polymorphism_frequency=9.926e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=86/49
RA	216	.	NC_000913	1253002	0	C	T	bias_e_value=3886360	bias_p_value=0.837279	consensus_score=267.8	fisher_strand_p_value=0.486842	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=39/36	major_frequency=9.868e-01	minor_base=G	minor_cov=0/1	new_cov=39/36	polymorphism_frequency=9.868e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/37
RA	217	.	NC_000913	1272420	0	C	A	bias_e_value=28.1581	bias_p_value=6.0664e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=157.5	fisher_strand_p_value=3.84658e-07	frequency=3.107e-01	ks_quality_p_value=1	major_base=C	major_cov=38/33	major_frequency=6.893e-01	minor_base=A	minor_cov=32/0	new_cov=32/0	polymorphism_frequency=3.107e-01	polymorphism_score=16.4	prediction=polymorphism	ref_cov=38/33	total_cov=70/33
RA	218	.	NC_000913	1301992	0	A	T	consensus_score=399.6	frequency=1	major_base=T	major_cov=46/74	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=46/74	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/74
RA	219	.	NC_000913	1306736	0	T	G	consensus_score=418.8	frequency=1	major_base=G	major_cov=68/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=68/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=68/42
RA	220	.	NC_000913	1308684	0	T	C	consensus_score=415.3	frequency=1	major_base=C	major_cov=48/61	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=48/61	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=48/61
RA	221	.	NC_000913	1331059	0	T	A	consensus_score=344.1	frequency=1	major_base=A	major_cov=47/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=47/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/50
RA	222	.	NC_000913	1331060	0	C	T	consensus_score=347.5	frequency=1	major_base=T	major_cov=47/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=47/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/50
RA	223	.	NC_000913	1334966	0	A	C	bias_e_value=0.16842	bias_p_value=3.62844e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=233.5	fisher_strand_p_value=1.71273e-09	frequency=2.555e-01	ks_quality_p_value=1	major_base=A	major_cov=49/53	major_frequency=7.445e-01	minor_base=C	minor_cov=35/0	new_cov=35/0	polymorphism_frequency=2.555e-01	polymorphism_score=22.6	prediction=polymorphism	ref_cov=49/53	total_cov=84/54
RA	224	.	NC_000913	1337394	0	A	G	consensus_score=265.6	frequency=1	major_base=G	major_cov=42/32	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=42/32	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=42/32
RA	225	.	NC_000913	1351463	0	C	A	bias_e_value=6451.18	bias_p_value=0.00138984	consensus_reject=FREQUENCY_CUTOFF	consensus_score=80.9	fisher_strand_p_value=0.000140846	frequency=3.506e-01	ks_quality_p_value=1	major_base=C	major_cov=32/18	major_frequency=6.494e-01	minor_base=A	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=3.506e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=32/18	total_cov=59/18
RA	226	.	NC_000913	1358859	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_score=280.0	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=42/32	major_frequency=9.867e-01	minor_base=A	minor_cov=1/0	new_cov=42/32	polymorphism_frequency=9.867e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/32
RA	227	.	NC_000913	1395367	0	G	A	consensus_score=334.3	frequency=1	major_base=A	major_cov=51/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/46
RA	228	.	NC_000913	1405758	0	G	A	consensus_score=409.4	frequency=1	major_base=A	major_cov=63/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=63/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=63/50
RA	229	.	NC_000913	1460045	0	A	G	consensus_score=288.8	frequency=1	major_base=G	major_cov=39/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/39
RA	230	.	NC_000913	1466432	0	A	G	bias_e_value=2341510	bias_p_value=0.504456	consensus_reject=FREQUENCY_CUTOFF	consensus_score=144.2	fisher_strand_p_value=0.189349	frequency=2.432e-01	ks_quality_p_value=1	major_base=A	major_cov=27/29	major_frequency=7.568e-01	minor_base=G	minor_cov=12/6	new_cov=12/6	polymorphism_frequency=2.432e-01	polymorphism_score=22.0	prediction=polymorphism	ref_cov=27/29	total_cov=40/35
RA	231	.	NC_000913	1466438	0	T	G	bias_e_value=4512040	bias_p_value=0.972076	consensus_reject=FREQUENCY_CUTOFF	consensus_score=153.1	fisher_strand_p_value=0.773182	frequency=2.000e-01	ks_quality_p_value=1	major_base=T	major_cov=31/29	major_frequency=8.000e-01	minor_base=G	minor_cov=9/6	new_cov=9/6	polymorphism_frequency=2.000e-01	polymorphism_score=21.8	prediction=polymorphism	ref_cov=31/29	total_cov=40/35
RA	232	.	NC_000913	1466585	0	T	C	bias_e_value=3509850	bias_p_value=0.756164	consensus_reject=FREQUENCY_CUTOFF	consensus_score=145.3	fisher_strand_p_value=0.388873	frequency=2.000e-01	ks_quality_p_value=1	major_base=T	major_cov=31/29	major_frequency=8.000e-01	minor_base=C	minor_cov=10/5	new_cov=10/5	polymorphism_frequency=2.000e-01	polymorphism_score=14.3	prediction=polymorphism	ref_cov=31/29	total_cov=41/34
RA	233	.	NC_000913	1497385	0	T	C	consensus_score=279.9	frequency=1	major_base=C	major_cov=34/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=34/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=34/40
RA	234	.	NC_000913	1497386	0	T	.	consensus_score=351.1	frequency=1	major_base=.	major_cov=34/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=34/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=34/40
RA	235	.	NC_000913	1497387	0	C	A	consensus_score=267.1	frequency=1	major_base=A	major_cov=34/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=34/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=34/40
RA	236	.	NC_000913	1497388	0	T	A	consensus_score=265.3	frequency=1	major_base=A	major_cov=34/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=34/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=34/40
RA	237	.	NC_000913	1502770	0	T	C	bias_e_value=0.00147378	bias_p_value=3.17511e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=165.4	fisher_strand_p_value=1.21495e-11	frequency=2.991e-01	ks_quality_p_value=1	major_base=T	major_cov=49/26	major_frequency=7.009e-01	minor_base=C	minor_cov=0/32	new_cov=0/32	polymorphism_frequency=2.991e-01	polymorphism_score=36.9	prediction=polymorphism	ref_cov=49/26	total_cov=49/58
RA	238	.	NC_000913	1502772	0	G	A	bias_e_value=0.0282694	bias_p_value=6.09036e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=170.6	fisher_strand_p_value=2.64173e-10	frequency=2.710e-01	ks_quality_p_value=1	major_base=G	major_cov=49/29	major_frequency=7.290e-01	minor_base=A	minor_cov=0/29	new_cov=0/29	polymorphism_frequency=2.710e-01	polymorphism_score=25.7	prediction=polymorphism	ref_cov=49/29	total_cov=49/58
RA	239	.	NC_000913	1517587	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=238.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=26/50	major_frequency=9.870e-01	minor_base=G	minor_cov=0/1	new_cov=26/50	polymorphism_frequency=9.870e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/51
RA	240	.	NC_000913	1517588	0	C	T	bias_e_value=4641580	bias_p_value=0.999985	consensus_score=236.7	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.994547	major_base=T	major_cov=26/50	major_frequency=9.870e-01	minor_base=G	minor_cov=0/1	new_cov=26/50	polymorphism_frequency=9.870e-01	polymorphism_score=-6.1	prediction=consensus	ref_cov=0/0	total_cov=26/51
RA	241	.	NC_000913	1522583	0	C	T	consensus_score=261.2	frequency=1	major_base=T	major_cov=26/49	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=26/49	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/49
RA	242	.	NC_000913	1541037	0	A	G	consensus_score=213.4	frequency=1	major_base=G	major_cov=23/35	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/35	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/35
RA	243	.	NC_000913	1541058	0	G	A	bias_e_value=3478620	bias_p_value=0.749437	consensus_score=189.3	fisher_strand_p_value=0.381818	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=20/34	major_frequency=9.818e-01	minor_base=C	minor_cov=1/0	new_cov=20/34	polymorphism_frequency=9.818e-01	polymorphism_score=-6.2	prediction=consensus	ref_cov=0/0	total_cov=21/34
RA	244	.	NC_000913	1591711	0	C	A	consensus_score=267.4	frequency=1	major_base=A	major_cov=52/29	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/29	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/29
RA	245	.	NC_000913	1629247	0	C	T	consensus_score=307.8	frequency=1	major_base=T	major_cov=38/49	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/49	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/49
RA	246	.	NC_000913	1643679	0	A	T	consensus_score=234.3	frequency=1	major_base=T	major_cov=30/38	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/38	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/38
RA	247	.	NC_000913	1648428	0	T	C	consensus_score=382.0	frequency=1	major_base=C	major_cov=59/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=59/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=59/42
RA	248	.	NC_000913	1652331	0	T	C	consensus_score=310.7	frequency=1	major_base=C	major_cov=47/35	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=47/35	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/35
RA	249	.	NC_000913	1660102	0	C	T	consensus_score=261.9	frequency=1	major_base=T	major_cov=26/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=26/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=26/50
RA	250	.	NC_000913	1664866	0	C	T	consensus_score=319.1	frequency=1	major_base=T	major_cov=53/35	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=53/35	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=53/35
RA	251	.	NC_000913	1667460	0	G	A	consensus_score=443.2	frequency=1	major_base=A	major_cov=50/75	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=50/75	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=50/75
RA	252	.	NC_000913	1685542	1	.	C	bias_e_value=4641650	bias_p_value=1	consensus_score=211.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=23/35	major_frequency=8.657e-01	minor_base=.	minor_cov=4/5	new_cov=23/35	polymorphism_frequency=8.657e-01	polymorphism_score=26.8	prediction=consensus	ref_cov=4/5	total_cov=27/40
RA	253	.	NC_000913	1712661	0	A	T	consensus_score=362.7	frequency=1	major_base=T	major_cov=52/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/54
RA	254	.	NC_000913	1714326	0	T	.	bias_e_value=3910410	bias_p_value=0.842462	consensus_score=394.7	fisher_strand_p_value=0.494118	frequency=1	ks_quality_p_value=1	major_base=.	major_cov=41/43	major_frequency=9.767e-01	minor_base=T	minor_cov=2/0	new_cov=41/43	polymorphism_frequency=9.767e-01	polymorphism_score=1.5	prediction=consensus	ref_cov=2/0	total_cov=43/43
RA	255	.	NC_000913	1748841	0	C	T	consensus_score=315.4	frequency=1	major_base=T	major_cov=41/48	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/48	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/48
RA	256	.	NC_000913	1790975	0	T	C	bias_e_value=778790	bias_p_value=0.167783	consensus_reject=FREQUENCY_CUTOFF	consensus_score=161.9	fisher_strand_p_value=0.801536	frequency=2.283e-01	ks_quality_p_value=0.0495279	major_base=T	major_cov=25/46	major_frequency=7.717e-01	minor_base=C	minor_cov=8/13	new_cov=8/13	polymorphism_frequency=2.283e-01	polymorphism_score=54.8	prediction=polymorphism	ref_cov=25/46	total_cov=33/59
RA	257	.	NC_000913	1808014	0	G	A	bias_e_value=3921180	bias_p_value=0.844781	consensus_score=322.8	fisher_strand_p_value=0.497423	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=51/46	major_frequency=9.798e-01	minor_base=C	minor_cov=2/0	new_cov=51/46	polymorphism_frequency=9.798e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=53/46
RA	258	.	NC_000913	1812509	0	G	T	bias_e_value=0.120429	bias_p_value=2.59453e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=252.6	fisher_strand_p_value=1.20468e-09	frequency=2.185e-01	ks_quality_p_value=1	major_base=G	major_cov=58/35	major_frequency=7.815e-01	minor_base=T	minor_cov=0/26	new_cov=0/26	polymorphism_frequency=2.185e-01	polymorphism_score=14.3	prediction=polymorphism	ref_cov=58/35	total_cov=58/61
RA	259	.	NC_000913	1836397	0	G	A	consensus_score=214.4	frequency=1	major_base=A	major_cov=23/38	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/38	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/38
RA	260	.	NC_000913	1848300	0	C	T	consensus_score=303.5	frequency=1	major_base=T	major_cov=33/58	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=33/58	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=33/58
RA	261	.	NC_000913	1848301	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=306.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=33/57	major_frequency=9.890e-01	minor_base=C	minor_cov=0/1	new_cov=33/57	polymorphism_frequency=9.890e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=33/58
RA	262	.	NC_000913	1878937	0	G	A	consensus_score=301.8	frequency=1	major_base=A	major_cov=37/46	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=37/46	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=37/46
RA	263	.	NC_000913	1894675	0	C	T	consensus_score=350.1	frequency=1	major_base=T	major_cov=51/52	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/52	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/52
RA	264	.	NC_000913	1894839	0	T	C	consensus_score=326.2	frequency=1	major_base=C	major_cov=50/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=50/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=50/39
RA	265	.	NC_000913	2023559	0	A	G	consensus_score=541.8	frequency=1	major_base=G	major_cov=85/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=85/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=85/57
RA	266	.	NC_000913	2027332	0	T	A	bias_e_value=3940410	bias_p_value=0.848924	consensus_score=240.3	fisher_strand_p_value=0.503408	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=43/34	major_frequency=9.747e-01	minor_base=C	minor_cov=2/0	new_cov=43/34	polymorphism_frequency=9.747e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/34
RA	267	.	NC_000913	2040433	0	C	A	consensus_score=269.8	frequency=1	major_base=A	major_cov=47/32	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=47/32	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=47/32
RA	268	.	NC_000913	2041278	0	G	A	bias_e_value=3883480	bias_p_value=0.836658	consensus_score=366.6	fisher_strand_p_value=0.485981	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=51/55	major_frequency=9.907e-01	minor_base=C	minor_cov=1/0	new_cov=51/55	polymorphism_frequency=9.907e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/55
RA	269	.	NC_000913	2052885	0	G	A	consensus_score=362.2	frequency=1	major_base=A	major_cov=54/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=54/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=54/50
RA	270	.	NC_000913	2073613	0	G	T	bias_e_value=0.355691	bias_p_value=7.66302e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=118.2	fisher_strand_p_value=3.75642e-09	frequency=3.590e-01	ks_quality_p_value=1	major_base=G	major_cov=32/18	major_frequency=6.410e-01	minor_base=T	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=3.590e-01	polymorphism_score=10.9	prediction=polymorphism	ref_cov=32/18	total_cov=32/46
RA	271	.	NC_000913	2090780	0	C	T	consensus_score=308.3	frequency=1	major_base=T	major_cov=39/45	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/45	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/45
RA	272	.	NC_000913	2104024	0	G	T	consensus_score=409.8	frequency=1	major_base=T	major_cov=62/55	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=62/55	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=62/55
RA	273	.	NC_000913	2111259	0	G	.	consensus_score=556.1	frequency=1	major_base=.	major_cov=38/77	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/77	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/77
RA	274	.	NC_000913	2120969	0	G	A	consensus_score=238.5	frequency=1	major_base=A	major_cov=35/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=35/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=35/37
RA	275	.	NC_000913	2139387	1	.	G	bias_e_value=2801610	bias_p_value=0.603581	consensus_score=300.2	fisher_strand_p_value=0.255951	frequency=1	ks_quality_p_value=0.996643	major_base=G	major_cov=37/46	major_frequency=9.651e-01	minor_base=.	minor_cov=0/3	new_cov=37/46	polymorphism_frequency=9.651e-01	polymorphism_score=3.7	prediction=consensus	ref_cov=0/3	total_cov=37/49
RA	276	.	NC_000913	2142598	0	G	A	consensus_score=344.4	frequency=1	major_base=A	major_cov=39/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/57
RA	277	.	NC_000913	2173363	0	C	.	consensus_score=381.4	frequency=1	major_base=.	major_cov=44/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/37
RA	278	.	NC_000913	2173364	0	C	.	consensus_score=381.4	frequency=1	major_base=.	major_cov=44/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/37
RA	279	.	NC_000913	2173448	0	C	T	consensus_score=275.7	frequency=1	major_base=T	major_cov=38/45	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/45	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/45
RA	280	.	NC_000913	2233609	0	C	T	consensus_score=482.3	frequency=1	major_base=T	major_cov=83/50	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=83/50	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=83/50
RA	281	.	NC_000913	2242247	0	C	T	consensus_score=242.1	frequency=1	major_base=T	major_cov=30/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/43
RA	282	.	NC_000913	2247134	0	A	C	bias_e_value=3611360	bias_p_value=0.778034	consensus_score=469.0	fisher_strand_p_value=0.414063	frequency=1	ks_quality_p_value=0.996929	major_base=C	major_cov=52/75	major_frequency=9.922e-01	minor_base=T	minor_cov=1/0	new_cov=52/75	polymorphism_frequency=9.922e-01	polymorphism_score=-5.8	prediction=consensus	ref_cov=0/0	total_cov=53/75
RA	283	.	NC_000913	2288418	0	G	T	bias_e_value=8.40462e-05	bias_p_value=1.8107e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=187.7	fisher_strand_p_value=6.22111e-13	frequency=3.390e-01	ks_quality_p_value=1	major_base=G	major_cov=49/29	major_frequency=6.610e-01	minor_base=T	minor_cov=0/40	new_cov=0/40	polymorphism_frequency=3.390e-01	polymorphism_score=16.7	prediction=polymorphism	ref_cov=49/29	total_cov=49/69
RA	284	.	NC_000913	2361210	0	C	G	consensus_score=388.1	frequency=1	major_base=G	major_cov=45/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/57
RA	285	.	NC_000913	2404402	0	G	A	consensus_score=356.8	frequency=1	major_base=A	major_cov=62/38	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=62/38	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=62/38
RA	286	.	NC_000913	2412396	0	C	A	bias_e_value=0.223165	bias_p_value=4.80787e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=211.3	fisher_strand_p_value=2.30155e-09	frequency=2.768e-01	ks_quality_p_value=1	major_base=C	major_cov=35/46	major_frequency=7.232e-01	minor_base=A	minor_cov=31/0	new_cov=31/0	polymorphism_frequency=2.768e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=35/46	total_cov=66/46
RA	287	.	NC_000913	2420990	1	.	C	bias_e_value=618345	bias_p_value=0.133217	consensus_score=338.6	fisher_strand_p_value=0.0294368	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=35/53	major_frequency=9.565e-01	minor_base=.	minor_cov=4/0	new_cov=35/53	polymorphism_frequency=9.565e-01	polymorphism_score=4.8	prediction=consensus	ref_cov=4/0	total_cov=39/53
RA	288	.	NC_000913	2427716	0	C	A	bias_e_value=1.46001e-06	bias_p_value=3.14546e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=222.0	fisher_strand_p_value=9.44783e-15	frequency=3.113e-01	ks_quality_p_value=1	major_base=C	major_cov=18/55	major_frequency=6.887e-01	minor_base=A	minor_cov=33/0	new_cov=33/0	polymorphism_frequency=3.113e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=18/55	total_cov=51/55
RA	289	.	NC_000913	2465016	0	C	A	bias_e_value=1.56844	bias_p_value=3.37906e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=218.2	fisher_strand_p_value=1.79391e-08	frequency=2.768e-01	ks_quality_p_value=1	major_base=C	major_cov=33/48	major_frequency=7.232e-01	minor_base=A	minor_cov=30/1	new_cov=30/1	polymorphism_frequency=2.768e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=33/48	total_cov=63/49
RA	290	.	NC_000913	2477265	0	A	C	bias_e_value=0.000205304	bias_p_value=4.42309e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=173.1	fisher_strand_p_value=1.56957e-12	frequency=2.564e-01	ks_quality_p_value=1	major_base=A	major_cov=8/50	major_frequency=7.436e-01	minor_base=C	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=2.564e-01	polymorphism_score=16.1	prediction=polymorphism	ref_cov=8/50	total_cov=28/50
RA	291	.	NC_000913	2481608	0	A	G	consensus_score=553.2	frequency=1	major_base=G	major_cov=70/74	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=70/74	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=70/74
RA	292	.	NC_000913	2498392	0	A	C	bias_e_value=799363	bias_p_value=0.172215	consensus_score=426.2	fisher_strand_p_value=0.0410795	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=72/55	major_frequency=9.478e-01	minor_base=A	minor_cov=7/0	new_cov=72/55	polymorphism_frequency=9.478e-01	polymorphism_score=NA	prediction=consensus	ref_cov=7/0	total_cov=79/56
RA	293	.	NC_000913	2546804	0	T	A	bias_e_value=3441600	bias_p_value=0.741461	consensus_score=297.9	fisher_strand_p_value=0.373626	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=57/33	major_frequency=9.890e-01	minor_base=G	minor_cov=0/1	new_cov=57/33	polymorphism_frequency=9.890e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=57/34
RA	294	.	NC_000913	2577937	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_score=431.1	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=60/52	major_frequency=9.912e-01	minor_base=A	minor_cov=1/0	new_cov=60/52	polymorphism_frequency=9.912e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=61/52
RA	295	.	NC_000913	2587112	0	C	T	consensus_score=226.5	frequency=1	major_base=T	major_cov=36/27	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=36/27	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=36/27
RA	296	.	NC_000913	2676087	0	A	G	bias_e_value=3356960	bias_p_value=0.723226	consensus_score=156.7	fisher_strand_p_value=0.355556	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=15/29	major_frequency=9.778e-01	minor_base=T	minor_cov=1/0	new_cov=15/29	polymorphism_frequency=9.778e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=16/29
RA	297	.	NC_000913	2745600	0	A	G	consensus_score=363.0	frequency=1	major_base=G	major_cov=33/62	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=33/62	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=33/62
RA	298	.	NC_000913	2767444	0	C	A	bias_e_value=1.42226e-14	bias_p_value=3.06413e-21	consensus_reject=FREQUENCY_CUTOFF	consensus_score=284.6	fisher_strand_p_value=5.87117e-23	frequency=2.969e-01	ks_quality_p_value=1	major_base=C	major_cov=11/79	major_frequency=7.031e-01	minor_base=A	minor_cov=38/0	new_cov=38/0	polymorphism_frequency=2.969e-01	polymorphism_score=21.1	prediction=polymorphism	ref_cov=11/79	total_cov=49/79
RA	299	.	NC_000913	2767445	0	C	A	bias_e_value=4.49946e-12	bias_p_value=9.69366e-19	consensus_reject=FREQUENCY_CUTOFF	consensus_score=296.9	fisher_strand_p_value=2.09307e-20	frequency=2.734e-01	ks_quality_p_value=1	major_base=C	major_cov=14/79	major_frequency=7.266e-01	minor_base=A	minor_cov=35/0	new_cov=35/0	polymorphism_frequency=2.734e-01	polymorphism_score=22.0	prediction=polymorphism	ref_cov=14/79	total_cov=49/79
RA	300	.	NC_000913	2767447	0	C	A	bias_e_value=5.83501e-15	bias_p_value=1.2571e-21	consensus_reject=FREQUENCY_CUTOFF	consensus_score=313.1	fisher_strand_p_value=2.36752e-23	frequency=2.932e-01	ks_quality_p_value=1	major_base=C	major_cov=12/82	major_frequency=7.068e-01	minor_base=A	minor_cov=39/0	new_cov=39/0	polymorphism_frequency=2.932e-01	polymorphism_score=15.8	prediction=polymorphism	ref_cov=12/82	total_cov=51/82
RA	301	.	NC_000913	2774947	0	G	A	consensus_score=507.8	frequency=1	major_base=A	major_cov=72/71	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=72/71	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=72/71
RA	302	.	NC_000913	2867455	0	G	A	bias_e_value=3484690	bias_p_value=0.750743	consensus_score=362.5	fisher_strand_p_value=0.383178	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=66/40	major_frequency=9.907e-01	minor_base=G	minor_cov=0/1	new_cov=66/40	polymorphism_frequency=9.907e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=66/41
RA	303	.	NC_000913	2880635	0	T	C	bias_e_value=3779190	bias_p_value=0.81419	consensus_score=411.2	fisher_strand_p_value=0.45614	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=62/51	major_frequency=9.912e-01	minor_base=T	minor_cov=0/1	new_cov=62/51	polymorphism_frequency=9.912e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=63/52
RA	304	.	NC_000913	2926772	0	C	A	consensus_score=274.9	frequency=1	major_base=A	major_cov=38/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/41
RA	305	.	NC_000913	3025601	0	T	.	consensus_score=689.5	frequency=1	major_base=.	major_cov=66/80	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=66/80	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=66/80
RA	306	.	NC_000913	3054894	0	G	T	bias_e_value=58.8333	bias_p_value=1.26751e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=134.1	fisher_strand_p_value=8.45976e-07	frequency=2.297e-01	ks_quality_p_value=1	major_base=G	major_cov=12/45	major_frequency=7.703e-01	minor_base=T	minor_cov=15/2	new_cov=15/2	polymorphism_frequency=2.297e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=12/45	total_cov=28/47
RA	307	.	NC_000913	3070858	0	T	G	consensus_score=360.6	frequency=1	major_base=G	major_cov=52/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=52/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=52/43
RA	308	.	NC_000913	3207549	0	G	.	consensus_score=481.2	frequency=1	major_base=.	major_cov=46/57	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=46/57	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/57
RA	309	.	NC_000913	3256301	0	G	A	consensus_score=282.9	frequency=1	major_base=A	major_cov=51/31	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/31	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/31
RA	310	.	NC_000913	3279276	0	C	G	consensus_score=288.2	frequency=1	major_base=G	major_cov=43/34	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=43/34	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=43/34
RA	311	.	NC_000913	3296481	0	G	A	consensus_score=300.0	frequency=1	major_base=A	major_cov=40/48	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/48	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/48
RA	312	.	NC_000913	3329743	0	G	T	consensus_score=262.8	frequency=1	major_base=T	major_cov=45/32	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/32	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/32
RA	313	.	NC_000913	3388041	0	T	G	consensus_score=317.8	frequency=1	major_base=G	major_cov=48/36	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=48/36	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=48/36
RA	314	.	NC_000913	3411689	0	G	T	bias_e_value=3482150	bias_p_value=0.750197	consensus_score=409.5	fisher_strand_p_value=0.382609	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=71/43	major_frequency=9.913e-01	minor_base=G	minor_cov=0/1	new_cov=71/43	polymorphism_frequency=9.913e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=71/44
RA	315	.	NC_000913	3433900	0	C	T	consensus_score=319.5	frequency=1	major_base=T	major_cov=41/52	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/52	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/52
RA	316	.	NC_000913	3441425	0	C	A	consensus_score=346.8	frequency=1	major_base=A	major_cov=38/60	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=38/60	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=38/60
RA	317	.	NC_000913	3457209	0	C	T	bias_e_value=3630300	bias_p_value=0.782114	consensus_score=439.0	fisher_strand_p_value=0.424	frequency=1	ks_quality_p_value=0.984508	major_base=T	major_cov=52/72	major_frequency=9.920e-01	minor_base=C	minor_cov=1/0	new_cov=52/72	polymorphism_frequency=9.920e-01	polymorphism_score=-4.3	prediction=consensus	ref_cov=1/0	total_cov=53/72
RA	318	.	NC_000913	3468702	0	G	T	bias_e_value=6.87365	bias_p_value=1.48086e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=242.7	fisher_strand_p_value=8.57379e-08	frequency=2.110e-01	ks_quality_p_value=1	major_base=G	major_cov=50/36	major_frequency=7.890e-01	minor_base=T	minor_cov=0/23	new_cov=0/23	polymorphism_frequency=2.110e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=50/36	total_cov=50/59
RA	319	.	NC_000913	3474425	0	T	G	bias_e_value=3699010	bias_p_value=0.796917	consensus_score=245.3	fisher_strand_p_value=0.434783	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=39/29	major_frequency=9.855e-01	minor_base=T	minor_cov=0/1	new_cov=39/29	polymorphism_frequency=9.855e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=39/30
RA	320	.	NC_000913	3486175	0	G	A	consensus_score=254.6	frequency=1	major_base=A	major_cov=42/35	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=42/35	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=42/35
RA	321	.	NC_000913	3486502	0	C	T	consensus_score=335.4	frequency=1	major_base=T	major_cov=45/52	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=45/52	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=45/52
RA	322	.	NC_000913	3507249	0	C	T	consensus_score=323.6	frequency=1	major_base=T	major_cov=53/44	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=53/44	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=53/44
RA	323	.	NC_000913	3511466	0	C	T	bias_e_value=3556530	bias_p_value=0.76622	consensus_score=359.9	fisher_strand_p_value=0.4	frequency=1	ks_quality_p_value=0.999192	major_base=T	major_cov=60/39	major_frequency=9.900e-01	minor_base=G	minor_cov=0/1	new_cov=60/39	polymorphism_frequency=9.900e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=60/40
RA	324	.	NC_000913	3555047	0	G	T	consensus_score=299.8	frequency=1	major_base=T	major_cov=44/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/42
RA	325	.	NC_000913	3555048	0	T	G	consensus_score=315.6	frequency=1	major_base=G	major_cov=44/41	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=44/41	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=44/41
RA	326	.	NC_000913	3560362	0	G	A	consensus_score=274.0	frequency=1	major_base=A	major_cov=40/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=40/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=40/39
RA	327	.	NC_000913	3560455	1	.	G	consensus_score=295.3	frequency=1	major_base=G	major_cov=39/39	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=39/39	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=39/39
RA	328	.	NC_000913	3623537	0	G	A	bias_e_value=39.1627	bias_p_value=8.43723e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=220.1	fisher_strand_p_value=5.47218e-07	frequency=2.018e-01	ks_quality_p_value=1	major_base=G	major_cov=48/43	major_frequency=7.982e-01	minor_base=A	minor_cov=0/23	new_cov=0/23	polymorphism_frequency=2.018e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=48/43	total_cov=48/67
RA	329	.	NC_000913	3646970	0	G	T	consensus_score=282.8	frequency=1	major_base=T	major_cov=51/29	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=51/29	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=51/29
RA	330	.	NC_000913	3647428	0	C	T	bias_e_value=3821300	bias_p_value=0.823263	consensus_score=381.0	fisher_strand_p_value=0.46789	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=58/50	major_frequency=9.908e-01	minor_base=G	minor_cov=0/1	new_cov=58/50	polymorphism_frequency=9.908e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=58/51
RA	331	.	NC_000913	3669715	0	G	T	bias_e_value=1.08443	bias_p_value=2.33631e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=153.2	fisher_strand_p_value=1.2152e-08	frequency=3.514e-01	ks_quality_p_value=1	major_base=G	major_cov=34/38	major_frequency=6.486e-01	minor_base=T	minor_cov=0/39	new_cov=0/39	polymorphism_frequency=3.514e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=34/38	total_cov=34/77
RA	332	.	NC_000913	3679581	0	G	A	consensus_score=344.1	frequency=1	major_base=A	major_cov=49/49	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=49/49	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=49/49
RA	333	.	NC_000913	3707947	0	C	A	bias_e_value=3439150	bias_p_value=0.740933	consensus_score=489.0	fisher_strand_p_value=0.373239	frequency=1	ks_quality_p_value=0.999601	major_base=A	major_cov=89/52	major_frequency=9.930e-01	minor_base=G	minor_cov=0/1	new_cov=89/52	polymorphism_frequency=9.930e-01	polymorphism_score=-6.3	prediction=consensus	ref_cov=0/0	total_cov=89/53
RA	334	.	NC_000913	3719429	0	G	A	consensus_score=287.1	frequency=1	major_base=A	major_cov=35/48	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=35/48	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=35/48
RA	335	.	NC_000913	3725176	0	T	G	consensus_score=296.1	frequency=1	major_base=G	major_cov=41/43	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/43	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/43
RA	336	.	NC_000913	3729440	0	C	T	consensus_score=337.5	frequency=1	major_base=T	major_cov=58/36	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=58/36	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=58/36
RA	337	.	NC_000913	3729441	0	C	T	consensus_score=345.3	frequency=1	major_base=T	major_cov=58/36	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=58/36	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=58/36
RA	338	.	NC_000913	3730560	0	C	T	consensus_score=197.2	frequency=1	major_base=T	major_cov=29/33	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=29/33	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=29/33
RA	339	.	NC_000913	3770539	0	C	T	bias_e_value=3822940	bias_p_value=0.823615	consensus_score=270.9	fisher_strand_p_value=0.468354	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=36/42	major_frequency=9.873e-01	minor_base=C	minor_cov=1/0	new_cov=36/42	polymorphism_frequency=9.873e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=37/42
RA	340	.	NC_000913	3773173	0	G	.	bias_e_value=4074930	bias_p_value=0.877904	consensus_score=430.8	fisher_strand_p_value=0.548488	frequency=1	ks_quality_p_value=1	major_base=.	major_cov=61/32	major_frequency=9.789e-01	minor_base=G	minor_cov=2/0	new_cov=61/32	polymorphism_frequency=9.789e-01	polymorphism_score=-0.1	prediction=consensus	ref_cov=2/0	total_cov=63/32
RA	341	.	NC_000913	3773176	0	C	T	bias_e_value=3275480	bias_p_value=0.705671	consensus_score=329.8	fisher_strand_p_value=0.34375	frequency=1	ks_quality_p_value=0.986063	major_base=T	major_cov=63/32	major_frequency=9.896e-01	minor_base=.	minor_cov=0/1	new_cov=63/32	polymorphism_frequency=9.896e-01	polymorphism_score=-2.8	prediction=consensus	ref_cov=0/0	total_cov=63/33
RA	342	.	NC_000913	3815883	1	.	C	bias_e_value=3627200	bias_p_value=0.781445	consensus_score=319.0	fisher_strand_p_value=0.416667	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=34/49	major_frequency=9.881e-01	minor_base=A	minor_cov=1/0	new_cov=34/49	polymorphism_frequency=9.881e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=36/49
RA	343	.	NC_000913	3817167	0	C	T	consensus_score=302.9	frequency=1	major_base=T	major_cov=41/45	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/45	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/45
RA	344	.	NC_000913	3911533	0	C	A	bias_e_value=0.00225943	bias_p_value=4.86773e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=171.7	fisher_strand_p_value=1.89485e-11	frequency=3.333e-01	ks_quality_p_value=1	major_base=C	major_cov=31/45	major_frequency=6.667e-01	minor_base=A	minor_cov=38/0	new_cov=38/0	polymorphism_frequency=3.333e-01	polymorphism_score=15.4	prediction=polymorphism	ref_cov=31/45	total_cov=69/45
RA	345	.	NC_000913	3926991	0	G	A	consensus_score=440.7	frequency=1	major_base=A	major_cov=85/47	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=85/47	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=85/47
RA	346	.	NC_000913	3931779	0	T	C	consensus_score=365.2	frequency=1	major_base=C	major_cov=41/56	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=41/56	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=41/56
RA	347	.	NC_000913	4037496	0	A	T	bias_e_value=4624680	bias_p_value=0.996344	consensus_reject=FREQUENCY_CUTOFF	consensus_score=51.2	fisher_strand_p_value=1	frequency=4.863e-01	ks_quality_p_value=0.91572	major_base=A	major_cov=35/40	major_frequency=5.137e-01	minor_base=T	minor_cov=34/37	new_cov=34/37	polymorphism_frequency=4.863e-01	polymorphism_score=294.0	prediction=polymorphism	ref_cov=35/40	total_cov=70/77
RA	348	.	NC_000913	4153836	0	G	A	bias_e_value=4641650	bias_p_value=1	consensus_score=305.2	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=A	major_cov=60/37	major_frequency=9.898e-01	minor_base=C	minor_cov=1/0	new_cov=60/37	polymorphism_frequency=9.898e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=61/37
RA	349	.	NC_000913	4193996	0	T	G	bias_e_value=4641650	bias_p_value=1	consensus_score=296.3	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=37/40	major_frequency=9.872e-01	minor_base=T	minor_cov=0/1	new_cov=37/40	polymorphism_frequency=9.872e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/1	total_cov=37/41
RA	350	.	NC_000913	4215670	0	G	T	consensus_score=409.8	frequency=1	major_base=T	major_cov=58/54	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=58/54	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=58/54
RA	351	.	NC_000913	4223638	0	T	C	bias_e_value=2315380	bias_p_value=0.498826	consensus_score=373.6	fisher_strand_p_value=0.185984	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=44/60	major_frequency=9.811e-01	minor_base=A	minor_cov=2/0	new_cov=44/60	polymorphism_frequency=9.811e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=46/60
RA	352	.	NC_000913	4296191	0	A	C	bias_e_value=94667.9	bias_p_value=0.0203953	consensus_reject=FREQUENCY_CUTOFF	consensus_score=31.5	fisher_strand_p_value=0.00311893	frequency=2.353e-01	ks_quality_p_value=0.960094	major_base=A	major_cov=10/16	major_frequency=7.647e-01	minor_base=C	minor_cov=8/0	new_cov=8/0	polymorphism_frequency=2.353e-01	polymorphism_score=14.0	prediction=polymorphism	ref_cov=10/16	total_cov=18/16
RA	353	.	NC_000913	4296268	0	T	C	bias_e_value=4641650	bias_p_value=1	consensus_reject=FREQUENCY_CUTOFF	consensus_score=57.4	fisher_strand_p_value=1	frequency=2.414e-01	ks_quality_p_value=1	major_base=T	major_cov=14/8	major_frequency=7.586e-01	minor_base=C	minor_cov=5/2	new_cov=5/2	polymorphism_frequency=2.414e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=14/8	total_cov=19/10
RA	354	.	NC_000913	4296380	1	.	C	bias_e_value=3541770	bias_p_value=0.763041	consensus_score=190.7	fisher_strand_p_value=0.396226	frequency=1	ks_quality_p_value=1	major_base=C	major_cov=32/20	major_frequency=9.811e-01	minor_base=T	minor_cov=0/1	new_cov=32/20	polymorphism_frequency=9.811e-01	polymorphism_score=NA	prediction=consensus	ref_cov=1/0	total_cov=33/21
RA	355	.	NC_000913	4296380	2	.	G	bias_e_value=4640210	bias_p_value=0.999689	consensus_score=189.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.975157	major_base=G	major_cov=32/21	major_frequency=9.815e-01	minor_base=.	minor_cov=1/0	new_cov=32/21	polymorphism_frequency=9.815e-01	polymorphism_score=-3.5	prediction=consensus	ref_cov=1/0	total_cov=33/21
RA	356	.	NC_000913	4325644	0	C	T	consensus_score=251.1	frequency=1	major_base=T	major_cov=23/53	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=23/53	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=23/53
RA	357	.	NC_000913	4331890	0	C	T	consensus_score=283.6	frequency=1	major_base=T	major_cov=42/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=42/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=42/37
RA	358	.	NC_000913	4360965	0	C	A	bias_e_value=4.71872e-05	bias_p_value=1.0166e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=361.2	fisher_strand_p_value=3.42253e-13	frequency=2.339e-01	ks_quality_p_value=1	major_base=C	major_cov=47/84	major_frequency=7.661e-01	minor_base=A	minor_cov=39/1	new_cov=39/1	polymorphism_frequency=2.339e-01	polymorphism_score=18.9	prediction=polymorphism	ref_cov=47/84	total_cov=86/85
RA	359	.	NC_000913	4437890	0	C	T	bias_e_value=4641650	bias_p_value=1	consensus_score=466.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=1	major_base=T	major_cov=58/84	major_frequency=9.930e-01	minor_base=G	minor_cov=0/1	new_cov=58/84	polymorphism_frequency=9.930e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=58/85
RA	360	.	NC_000913	4473900	0	C	T	consensus_score=243.4	frequency=1	major_base=T	major_cov=28/42	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=28/42	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=28/42
RA	361	.	NC_000913	4475493	0	T	C	consensus_score=547.8	frequency=1	major_base=C	major_cov=72/73	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=72/73	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=72/73
RA	362	.	NC_000913	4476605	0	G	A	consensus_score=449.0	frequency=1	major_base=A	major_cov=66/58	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=66/58	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=66/58
RA	363	.	NC_000913	4489016	0	C	T	consensus_score=399.6	frequency=1	major_base=T	major_cov=69/40	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=69/40	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=69/40
RA	364	.	NC_000913	4510238	0	T	G	bias_e_value=137223	bias_p_value=0.0295634	consensus_score=436.2	fisher_strand_p_value=0.0046386	frequency=1	ks_quality_p_value=1	major_base=G	major_cov=76/49	major_frequency=9.542e-01	minor_base=T	minor_cov=0/6	new_cov=76/49	polymorphism_frequency=9.542e-01	polymorphism_score=NA	prediction=consensus	ref_cov=0/6	total_cov=77/55
RA	365	.	NC_000913	4540411	0	C	A	bias_e_value=1.31434e-05	bias_p_value=2.83161e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=306.0	fisher_strand_p_value=9.12688e-14	frequency=2.840e-01	ks_quality_p_value=1	major_base=C	major_cov=54/67	major_frequency=7.160e-01	minor_base=A	minor_cov=48/0	new_cov=48/0	polymorphism_frequency=2.840e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=54/67	total_cov=102/67
MC	366	.	NC_000913	255892	274944	0	987	left_inside_cov=0	left_outside_cov=110	right_inside_cov=29	right_outside_cov=34
MC	367	.	NC_000913	361657	362203	0	0	left_inside_cov=1	left_outside_cov=94	right_inside_cov=0	right_outside_cov=90
MC	368	.	NC_000913	574823	579183	967	0	left_inside_cov=29	left_outside_cov=30	right_inside_cov=0	right_outside_cov=126
MC	369	.	NC_000913	1299499	1300697	1198	0	left_inside_cov=0	left_outside_cov=127	right_inside_cov=0	right_outside_cov=128
MC	370	.	NC_000913	1411925	1434984	0	0	left_inside_cov=0	left_outside_cov=91	right_inside_cov=12	right_outside_cov=103
MC	371	.	NC_000913	1978484	1979270	0	0	left_inside_cov=0	left_outside_cov=110	right_inside_cov=0	right_outside_cov=113
MC	372	.	NC_000913	2558699	2565488	0	0	left_inside_cov=0	left_outside_cov=86	right_inside_cov=0	right_outside_cov=88
MC	373	.	NC_000913	3130313	3131468	1032	0	left_inside_cov=29	left_outside_cov=33	right_inside_cov=0	right_outside_cov=94
MC	374	.	NC_000913	4180661	4180666	0	0	left_inside_cov=0	left_outside_cov=118	right_inside_cov=0	right_outside_cov=120
JC	375	.	NC_000913	1	1	NC_000913	4641652	-1	0	alignment_overlap=0	coverage_minus=58	coverage_plus=49	flanking_left=300	flanking_right=300	frequency=1	ignore=CIRCULAR_CHROMOSOME	junction_possible_overlap_registers=294	key=NC_000913__1__1__NC_000913__4641652__-1__0____300__300__0__0	max_left=280	max_left_minus=280	max_left_plus=230	max_min_left=148	max_min_left_minus=148	max_min_left_plus=140	max_min_right=144	max_min_right_minus=143	max_min_right_plus=144	max_pos_hash_score=590	max_right=289	max_right_minus=278	max_right_plus=289	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.20	new_junction_read_count=110	polymorphism_frequency=1.000e+00	pos_hash_score=65	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=107
JC	376	.	NC_000913	19796	1	NC_000913	361656	-1	0	alignment_overlap=1	coverage_minus=54	coverage_plus=38	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__19796__1__NC_000913__361657__-1__1____300__300__1__0	max_left=291	max_left_minus=285	max_left_plus=291	max_min_left=148	max_min_left_minus=148	max_min_left_plus=148	max_min_right=148	max_min_right_minus=123	max_min_right_plus=148	max_pos_hash_score=588	max_right=291	max_right_minus=291	max_right_plus=284	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.02	new_junction_read_count=93	polymorphism_frequency=1.000e+00	pos_hash_score=64	prediction=consensus	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=293	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=92
JC	377	.	NC_000913	78489	-1	NC_000913	78952	1	0	alignment_overlap=11	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.619e-02	junction_possible_overlap_registers=283	key=NC_000913__78489__-1__NC_000913__78941__1__11____300__300__0__0	max_left=29	max_left_minus=29	max_left_plus=29	max_min_left=29	max_min_left_minus=29	max_min_left_plus=29	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=568	max_right=54	max_right_minus=54	max_right_plus=54	neg_log10_pos_hash_p_value=8.0	new_junction_coverage=0.05	new_junction_read_count=4	polymorphism_frequency=4.619e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.12	side_1_overlap=11	side_1_possible_overlap_registers=294	side_1_read_count=102	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.76	side_2_overlap=0	side_2_possible_overlap_registers=283	side_2_read_count=67	side_2_redundant=0	total_non_overlap_reads=4
JC	378	.	NC_000913	126288	-1	NC_000913	126829	1	0	alignment_overlap=18	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.996e-02	junction_possible_overlap_registers=276	key=NC_000913__126288__-1__NC_000913__126811__1__18____300__300__0__0	max_left=76	max_left_minus=76	max_left_plus=76	max_min_left=76	max_min_left_minus=76	max_min_left_plus=76	max_min_right=28	max_min_right_minus=0	max_min_right_plus=28	max_pos_hash_score=554	max_right=79	max_right_minus=79	max_right_plus=79	neg_log10_pos_hash_p_value=8.5	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.996e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.86	side_1_overlap=18	side_1_possible_overlap_registers=294	side_1_read_count=79	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.82	side_2_overlap=0	side_2_possible_overlap_registers=276	side_2_read_count=70	side_2_redundant=0	total_non_overlap_reads=3
JC	379	.	NC_000913	252773	1	NC_000913	2102943	-1	0	alignment_overlap=3	coverage_minus=0	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=2.682e-02	junction_possible_overlap_registers=291	key=NC_000913__252773__1__NC_000913__2102946__-1__3____300__300__0__1	max_left=238	max_left_minus=0	max_left_plus=238	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=121	max_min_right_minus=0	max_min_right_plus=121	max_pos_hash_score=584	max_right=121	max_right_minus=0	max_right_plus=121	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.682e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.20	side_1_overlap=3	side_1_possible_overlap_registers=294	side_1_read_count=110	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	380	.	NC_000913	252776	-1	NC_000913	273955	1	0	alignment_overlap=0	coverage_minus=4	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=6.481e-02	junction_possible_overlap_registers=294	key=NC_000913__252776__-1__NC_000913__273955__1__0____300__300__0__1	max_left=211	max_left_minus=211	max_left_plus=135	max_min_left=135	max_min_left_minus=66	max_min_left_plus=135	max_min_right=137	max_min_right_minus=137	max_min_right_plus=0	max_pos_hash_score=590	max_right=234	max_right_minus=234	max_right_plus=215	neg_log10_pos_hash_p_value=7.2	new_junction_coverage=0.08	new_junction_read_count=7	polymorphism_frequency=6.481e-02	pos_hash_score=6	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.11	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=101	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=7
JC	381	.	NC_000913	255891	-1	NC_000913	273955	1	0	alignment_overlap=0	coverage_minus=59	coverage_plus=48	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__255891__-1__NC_000913__273955__1__0____300__300__0__1	max_left=298	max_left_minus=287	max_left_plus=298	max_min_left=148	max_min_left_minus=148	max_min_left_plus=144	max_min_right=144	max_min_right_minus=132	max_min_right_plus=144	max_pos_hash_score=590	max_right=283	max_right_minus=279	max_right_plus=283	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.20	new_junction_read_count=110	polymorphism_frequency=1.000e+00	pos_hash_score=73	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=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=107
JC	382	.	NC_000913	258675	-1	NC_000913	362204	1	0	alignment_overlap=0	coverage_minus=61	coverage_plus=27	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__258675__-1__NC_000913__362204__1__0____300__300__1__0	max_left=289	max_left_minus=289	max_left_plus=286	max_min_left=148	max_min_left_minus=148	max_min_left_plus=110	max_min_right=148	max_min_right_minus=148	max_min_right_plus=137	max_pos_hash_score=590	max_right=297	max_right_minus=297	max_right_plus=296	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=0.99	new_junction_read_count=90	polymorphism_frequency=1.000e+00	pos_hash_score=61	prediction=consensus	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=88
JC	383	.	NC_000913	273955	1	NC_000913	820914	1	0	alignment_overlap=0	coverage_minus=58	coverage_plus=60	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__273955__1__NC_000913__820914__1__0____300__300__1__0	max_left=294	max_left_minus=275	max_left_plus=294	max_min_left=133	max_min_left_minus=133	max_min_left_plus=108	max_min_right=149	max_min_right_minus=148	max_min_right_plus=149	max_pos_hash_score=590	max_right=298	max_right_minus=298	max_right_plus=277	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.29	new_junction_read_count=118	polymorphism_frequency=1.000e+00	pos_hash_score=71	prediction=consensus	read_count_offset=4	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=118
JC	384	.	NC_000913	275149	-1	NC_000913	579184	1	0	alignment_overlap=0	coverage_minus=72	coverage_plus=52	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__275149__-1__NC_000913__579184__1__0____300__300__1__0	max_left=293	max_left_minus=288	max_left_plus=293	max_min_left=147	max_min_left_minus=143	max_min_left_plus=147	max_min_right=149	max_min_right_minus=149	max_min_right_plus=147	max_pos_hash_score=590	max_right=296	max_right_minus=296	max_right_plus=294	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.37	new_junction_read_count=125	polymorphism_frequency=1.000e+00	pos_hash_score=72	prediction=consensus	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=124
JC	385	.	NC_000913	275149	-1	NC_000913	820917	-1	0	alignment_overlap=1	coverage_minus=55	coverage_plus=24	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__275149__-1__NC_000913__820918__-1__1____300__300__1__0	max_left=287	max_left_minus=287	max_left_plus=284	max_min_left=145	max_min_left_minus=145	max_min_left_plus=136	max_min_right=149	max_min_right_minus=149	max_min_right_plus=122	max_pos_hash_score=588	max_right=298	max_right_minus=298	max_right_plus=276	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.88	new_junction_read_count=80	polymorphism_frequency=1.000e+00	pos_hash_score=48	prediction=consensus	read_count_offset=4	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=289	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=79
JC	386	.	NC_000913	290634	1	NC_000913	1105699	1	0	alignment_overlap=0	coverage_minus=56	coverage_plus=37	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__290634__1__NC_000913__1105699__1__0____300__300__1__0	max_left=286	max_left_minus=286	max_left_plus=281	max_min_left=149	max_min_left_minus=149	max_min_left_plus=149	max_min_right=143	max_min_right_minus=139	max_min_right_plus=143	max_pos_hash_score=590	max_right=294	max_right_minus=267	max_right_plus=294	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.04	new_junction_read_count=95	polymorphism_frequency=1.000e+00	pos_hash_score=63	prediction=consensus	read_count_offset=9	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=93
JC	387	.	NC_000913	291401	-1	NC_000913	1105707	-1	0	alignment_overlap=0	coverage_minus=48	coverage_plus=45	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__291401__-1__NC_000913__1105707__-1__0____300__300__1__0	max_left=290	max_left_minus=278	max_left_plus=290	max_min_left=148	max_min_left_minus=148	max_min_left_plus=146	max_min_right=148	max_min_right_minus=148	max_min_right_plus=147	max_pos_hash_score=590	max_right=297	max_right_minus=297	max_right_plus=272	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.03	new_junction_read_count=94	polymorphism_frequency=1.000e+00	pos_hash_score=59	prediction=consensus	read_count_offset=9	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=93
JC	388	.	NC_000913	696506	-1	NC_000913	696619	1	0	alignment_overlap=77	coverage_minus=1	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=5.485e-02	junction_possible_overlap_registers=217	key=NC_000913__696506__-1__NC_000913__696542__1__77____300__300__0__0	max_left=133	max_left_minus=133	max_left_plus=67	max_min_left=67	max_min_left_minus=0	max_min_left_plus=67	max_min_right=89	max_min_right_minus=89	max_min_right_plus=0	max_pos_hash_score=436	max_right=161	max_right_minus=89	max_right_plus=161	neg_log10_pos_hash_p_value=6.6	new_junction_coverage=0.06	new_junction_read_count=4	polymorphism_frequency=5.485e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.05	side_1_overlap=77	side_1_possible_overlap_registers=294	side_1_read_count=96	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.99	side_2_overlap=0	side_2_possible_overlap_registers=217	side_2_read_count=67	side_2_redundant=0	total_non_overlap_reads=4
JC	389	.	NC_000913	781451	-1	NC_000913	781660	1	0	alignment_overlap=4	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=6.891e-02	junction_possible_overlap_registers=290	key=NC_000913__781451__-1__NC_000913__781656__1__4____300__300__0__0	max_left=233	max_left_minus=233	max_left_plus=145	max_min_left=138	max_min_left_minus=0	max_min_left_plus=138	max_min_right=63	max_min_right_minus=63	max_min_right_plus=51	max_pos_hash_score=582	max_right=247	max_right_minus=63	max_right_plus=247	neg_log10_pos_hash_p_value=7.6	new_junction_coverage=0.06	new_junction_read_count=5	polymorphism_frequency=6.891e-02	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.71	side_1_overlap=4	side_1_possible_overlap_registers=294	side_1_read_count=65	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.79	side_2_overlap=0	side_2_possible_overlap_registers=290	side_2_read_count=71	side_2_redundant=0	total_non_overlap_reads=5
JC	390	.	NC_000913	1207790	1	NC_000913	1209619	1	0	alignment_overlap=16	coverage_minus=36	coverage_plus=23	flanking_left=300	flanking_right=300	frequency=5.931e-01	junction_possible_overlap_registers=278	key=NC_000913__1207790__1__NC_000913__1209603__1__16____300__300__0__0	max_left=281	max_left_minus=255	max_left_plus=281	max_min_left=139	max_min_left_minus=137	max_min_left_plus=139	max_min_right=135	max_min_right_minus=128	max_min_right_plus=135	max_pos_hash_score=558	max_right=280	max_right_minus=275	max_right_plus=280	neg_log10_pos_hash_p_value=0.7	new_junction_coverage=0.71	new_junction_read_count=61	polymorphism_frequency=5.931e-01	pos_hash_score=43	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.46	side_1_overlap=16	side_1_possible_overlap_registers=294	side_1_read_count=42	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.51	side_2_overlap=0	side_2_possible_overlap_registers=278	side_2_read_count=44	side_2_redundant=0	total_non_overlap_reads=59
JC	391	.	NC_000913	1207805	-1	NC_000913	1209602	-1	0	alignment_overlap=16	coverage_minus=25	coverage_plus=25	flanking_left=300	flanking_right=300	frequency=5.549e-01	junction_possible_overlap_registers=278	key=NC_000913__1207805__-1__NC_000913__1209618__-1__16____300__300__0__0	max_left=278	max_left_minus=275	max_left_plus=278	max_min_left=126	max_min_left_minus=126	max_min_left_plus=121	max_min_right=142	max_min_right_minus=142	max_min_right_plus=138	max_pos_hash_score=558	max_right=274	max_right_minus=262	max_right_plus=274	neg_log10_pos_hash_p_value=0.8	new_junction_coverage=0.59	new_junction_read_count=51	polymorphism_frequency=5.549e-01	pos_hash_score=40	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.44	side_1_overlap=16	side_1_possible_overlap_registers=294	side_1_read_count=40	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.51	side_2_overlap=0	side_2_possible_overlap_registers=278	side_2_read_count=44	side_2_redundant=0	total_non_overlap_reads=50
JC	392	.	NC_000913	1286906	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=6	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=1.683e-01	junction_possible_overlap_registers=274	key=NC_000913__1286906__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=275	max_left_minus=270	max_left_plus=275	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=60	max_min_right_minus=60	max_min_right_plus=5	max_pos_hash_score=550	max_right=60	max_right_minus=60	max_right_plus=5	neg_log10_pos_hash_p_value=6.4	new_junction_coverage=0.11	new_junction_read_count=9	polymorphism_frequency=1.683e-01	pos_hash_score=7	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.49	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=45	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.55	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=47	side_2_redundant=0	total_non_overlap_reads=7
JC	393	.	NC_000913	1287084	-1	NC_000913	1287557	1	0	alignment_overlap=20	coverage_minus=2	coverage_plus=3	flanking_left=300	flanking_right=300	frequency=1.313e-01	junction_possible_overlap_registers=274	key=NC_000913__1287084__-1__NC_000913__1287537__1__20____300__300__0__0	max_left=246	max_left_minus=163	max_left_plus=246	max_min_left=21	max_min_left_minus=21	max_min_left_plus=21	max_min_right=121	max_min_right_minus=117	max_min_right_plus=121	max_pos_hash_score=550	max_right=231	max_right_minus=231	max_right_plus=231	neg_log10_pos_hash_p_value=7.3	new_junction_coverage=0.08	new_junction_read_count=7	polymorphism_frequency=1.313e-01	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.54	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=49	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.55	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=47	side_2_redundant=0	total_non_overlap_reads=5
JC	394	.	NC_000913	1290542	1	NC_000913	1978503	1	0	alignment_overlap=0	coverage_minus=27	coverage_plus=47	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1290542__1__NC_000913__1978503__1__0____300__300__0__1	max_left=291	max_left_minus=269	max_left_plus=291	max_min_left=147	max_min_left_minus=147	max_min_left_plus=137	max_min_right=145	max_min_right_minus=145	max_min_right_plus=139	max_pos_hash_score=590	max_right=291	max_right_minus=291	max_right_plus=286	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.82	new_junction_read_count=75	polymorphism_frequency=9.479e-01	pos_hash_score=48	prediction=consensus	read_count_offset=9	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.05	side_1_overlap=0	side_1_possible_overlap_registers=285	side_1_read_count=4	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=74
JC	395	.	NC_000913	1290550	-1	NC_000913	1979270	-1	0	alignment_overlap=1	coverage_minus=35	coverage_plus=31	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__1290551__-1__NC_000913__1979270__-1__1____300__300__0__1	max_left=298	max_left_minus=283	max_left_plus=298	max_min_left=148	max_min_left_minus=148	max_min_left_plus=148	max_min_right=146	max_min_right_minus=141	max_min_right_plus=146	max_pos_hash_score=588	max_right=284	max_right_minus=284	max_right_plus=283	neg_log10_pos_hash_p_value=0.5	new_junction_coverage=0.75	new_junction_read_count=68	polymorphism_frequency=9.428e-01	pos_hash_score=49	prediction=consensus	read_count_offset=9	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.05	side_1_overlap=0	side_1_possible_overlap_registers=284	side_1_read_count=4	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=66
JC	396	.	NC_000913	1299498	-1	NC_000913	1300698	1	0	alignment_overlap=4	coverage_minus=69	coverage_plus=56	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=290	key=NC_000913__1299498__-1__NC_000913__1300694__1__4____300__300__0__0	max_left=274	max_left_minus=274	max_left_plus=274	max_min_left=146	max_min_left_minus=127	max_min_left_plus=146	max_min_right=144	max_min_right_minus=139	max_min_right_plus=144	max_pos_hash_score=582	max_right=292	max_right_minus=292	max_right_plus=287	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.41	new_junction_read_count=127	polymorphism_frequency=1.000e+00	pos_hash_score=75	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=4	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=290	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=125
JC	397	.	NC_000913	1411924	-1	NC_000913	1434985	1	0	alignment_overlap=26	coverage_minus=47	coverage_plus=44	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=268	key=NC_000913__1411924__-1__NC_000913__1434959__1__26____300__300__0__0	max_left=255	max_left_minus=255	max_left_plus=227	max_min_left=135	max_min_left_minus=121	max_min_left_plus=135	max_min_right=137	max_min_right_minus=120	max_min_right_plus=137	max_pos_hash_score=538	max_right=259	max_right_minus=248	max_right_plus=259	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=1.09	new_junction_read_count=91	polymorphism_frequency=1.000e+00	pos_hash_score=48	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=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=268	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=91
JC	398	.	NC_000913	1978483	-1	NC_000913	2070271	-1	0	alignment_overlap=0	coverage_minus=40	coverage_plus=63	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1978483__-1__NC_000913__2070271__-1__0____300__300__0__1	max_left=295	max_left_minus=295	max_left_plus=266	max_min_left=140	max_min_left_minus=140	max_min_left_plus=137	max_min_right=137	max_min_right_minus=136	max_min_right_plus=137	max_pos_hash_score=590	max_right=296	max_right_minus=296	max_right_plus=296	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.20	new_junction_read_count=110	polymorphism_frequency=1.000e+00	pos_hash_score=63	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=103
JC	399	.	NC_000913	1979270	-1	NC_000913	3890715	1	0	alignment_overlap=0	coverage_minus=57	coverage_plus=48	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__1979270__-1__NC_000913__3890715__1__0____300__300__1__0	max_left=294	max_left_minus=289	max_left_plus=294	max_min_left=149	max_min_left_minus=137	max_min_left_plus=149	max_min_right=148	max_min_right_minus=148	max_min_right_plus=144	max_pos_hash_score=590	max_right=297	max_right_minus=297	max_right_plus=278	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.23	new_junction_read_count=112	polymorphism_frequency=1.000e+00	pos_hash_score=74	prediction=consensus	read_count_offset=9	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=105
JC	400	.	NC_000913	1979271	1	NC_000913	2996360	1	-15	alignment_overlap=-15	coverage_minus=50	coverage_plus=56	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=279	key=NC_000913__1979271__1__NC_000913__2996360__1__-15__TTAAGTAATTGAGTG__300__300__0__1	max_left=283	max_left_minus=283	max_left_plus=272	max_min_left=138	max_min_left_minus=138	max_min_left_plus=124	max_min_right=140	max_min_right_minus=140	max_min_right_plus=131	max_pos_hash_score=560	max_right=280	max_right_minus=277	max_right_plus=280	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.23	new_junction_read_count=107	polymorphism_frequency=1.000e+00	pos_hash_score=66	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=repeat	side_2_continuation=0	side_2_coverage=NA	side_2_overlap=0	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=106	unique_read_sequence=TTAAGTAATTGAGTG
JC	401	.	NC_000913	2239316	1	NC_000913	2290113	-1	0	alignment_overlap=0	coverage_minus=41	coverage_plus=53	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__2239316__1__NC_000913__2290113__-1__0____300__300__0__1	max_left=296	max_left_minus=295	max_left_plus=296	max_min_left=144	max_min_left_minus=135	max_min_left_plus=144	max_min_right=146	max_min_right_minus=117	max_min_right_plus=146	max_pos_hash_score=590	max_right=292	max_right_minus=287	max_right_plus=292	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=1.07	new_junction_read_count=98	polymorphism_frequency=9.898e-01	pos_hash_score=58	prediction=consensus	read_count_offset=4	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.01	side_1_overlap=0	side_1_possible_overlap_registers=290	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=94
JC	402	.	NC_000913	2239319	-1	NC_000913	2288919	1	0	alignment_overlap=2	coverage_minus=44	coverage_plus=53	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=292	key=NC_000913__2239321__-1__NC_000913__2288919__1__2____300__300__0__1	max_left=280	max_left_minus=280	max_left_plus=265	max_min_left=135	max_min_left_minus=123	max_min_left_plus=135	max_min_right=149	max_min_right_minus=149	max_min_right_plus=149	max_pos_hash_score=586	max_right=291	max_right_minus=291	max_right_plus=283	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.10	new_junction_read_count=100	polymorphism_frequency=1.000e+00	pos_hash_score=60	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=288	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=2	side_2_possible_overlap_registers=NA	side_2_read_count=NA	side_2_redundant=1	total_non_overlap_reads=97
JC	403	.	NC_000913	2288919	1	NC_000913	3131469	1	0	alignment_overlap=1	coverage_minus=39	coverage_plus=55	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__2288919__1__NC_000913__3131468__1__1____300__300__1__0	max_left=291	max_left_minus=274	max_left_plus=291	max_min_left=141	max_min_left_minus=111	max_min_left_plus=141	max_min_right=146	max_min_right_minus=143	max_min_right_plus=146	max_pos_hash_score=588	max_right=298	max_right_minus=298	max_right_plus=293	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=1.03	new_junction_read_count=94	polymorphism_frequency=1.000e+00	pos_hash_score=56	prediction=consensus	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=293	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=94
JC	404	.	NC_000913	2343656	-1	NC_000913	2343756	1	0	alignment_overlap=11	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=2.388e-02	junction_possible_overlap_registers=283	key=NC_000913__2343656__-1__NC_000913__2343745__1__11____300__300__0__0	max_left=211	max_left_minus=211	max_left_plus=147	max_min_left=141	max_min_left_minus=141	max_min_left_plus=0	max_min_right=141	max_min_right_minus=78	max_min_right_plus=141	max_pos_hash_score=568	max_right=148	max_right_minus=148	max_right_plus=141	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.388e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.40	side_1_overlap=11	side_1_possible_overlap_registers=294	side_1_read_count=128	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.39	side_2_overlap=0	side_2_possible_overlap_registers=283	side_2_read_count=122	side_2_redundant=0	total_non_overlap_reads=3
JC	405	.	NC_000913	2357730	-1	NC_000913	2357926	1	0	alignment_overlap=40	coverage_minus=3	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=9.445e-02	junction_possible_overlap_registers=254	key=NC_000913__2357730__-1__NC_000913__2357886__1__40____300__300__0__0	max_left=209	max_left_minus=209	max_left_plus=178	max_min_left=62	max_min_left_minus=0	max_min_left_plus=62	max_min_right=118	max_min_right_minus=118	max_min_right_plus=94	max_pos_hash_score=510	max_right=232	max_right_minus=118	max_right_plus=232	neg_log10_pos_hash_p_value=5.2	new_junction_coverage=0.13	new_junction_read_count=10	polymorphism_frequency=9.445e-02	pos_hash_score=9	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.23	side_1_overlap=40	side_1_possible_overlap_registers=294	side_1_read_count=112	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.20	side_2_overlap=0	side_2_possible_overlap_registers=254	side_2_read_count=95	side_2_redundant=0	total_non_overlap_reads=9
JC	406	.	NC_000913	2357736	-1	NC_000913	2357933	1	-1	alignment_overlap=-1	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=2.749e-02	junction_possible_overlap_registers=293	key=NC_000913__2357736__-1__NC_000913__2357933__1__-1__G__300__300__0__0	max_left=225	max_left_minus=225	max_left_plus=121	max_min_left=121	max_min_left_minus=0	max_min_left_plus=121	max_min_right=74	max_min_right_minus=74	max_min_right_plus=0	max_pos_hash_score=588	max_right=193	max_right_minus=74	max_right_plus=193	neg_log10_pos_hash_p_value=8.8	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=2.749e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.24	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=113	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.09	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=100	side_2_redundant=0	total_non_overlap_reads=3	unique_read_sequence=G
JC	407	.	NC_000913	2558698	-1	NC_000913	2565489	1	0	alignment_overlap=8	coverage_minus=45	coverage_plus=39	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=286	key=NC_000913__2558698__-1__NC_000913__2565481__1__8____300__300__0__0	max_left=285	max_left_minus=266	max_left_plus=285	max_min_left=141	max_min_left_minus=141	max_min_left_plus=141	max_min_right=144	max_min_right_minus=144	max_min_right_plus=127	max_pos_hash_score=574	max_right=269	max_right_minus=266	max_right_plus=269	neg_log10_pos_hash_p_value=0.3	new_junction_coverage=0.97	new_junction_read_count=86	polymorphism_frequency=1.000e+00	pos_hash_score=53	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=8	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=286	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=84
JC	408	.	NC_000913	2653419	-1	NC_000913	2653746	1	0	alignment_overlap=25	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=6.072e-02	junction_possible_overlap_registers=269	key=NC_000913__2653419__-1__NC_000913__2653721__1__25____300__300__0__0	max_left=186	max_left_minus=186	max_left_plus=121	max_min_left=39	max_min_left_minus=0	max_min_left_plus=39	max_min_right=87	max_min_right_minus=87	max_min_right_plus=85	max_pos_hash_score=540	max_right=95	max_right_minus=87	max_right_plus=95	neg_log10_pos_hash_p_value=7.2	new_junction_coverage=0.06	new_junction_read_count=5	polymorphism_frequency=6.072e-02	pos_hash_score=5	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.94	side_1_overlap=25	side_1_possible_overlap_registers=294	side_1_read_count=86	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.91	side_2_overlap=0	side_2_possible_overlap_registers=269	side_2_read_count=76	side_2_redundant=0	total_non_overlap_reads=5
JC	409	.	NC_000913	3230095	-1	NC_000913	3230392	1	0	alignment_overlap=9	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.974e-02	junction_possible_overlap_registers=285	key=NC_000913__3230095__-1__NC_000913__3230383__1__9____300__300__0__0	max_left=107	max_left_minus=107	max_left_plus=100	max_min_left=107	max_min_left_minus=107	max_min_left_plus=100	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=572	max_right=191	max_right_minus=184	max_right_plus=191	neg_log10_pos_hash_p_value=8.7	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.974e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.72	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=66	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.91	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=81	side_2_redundant=0	total_non_overlap_reads=3
JC	410	.	NC_000913	3269899	-1	NC_000913	3270239	1	0	alignment_overlap=18	coverage_minus=7	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=8.656e-02	junction_possible_overlap_registers=276	key=NC_000913__3269899__-1__NC_000913__3270221__1__18____300__300__0__0	max_left=153	max_left_minus=153	max_left_plus=102	max_min_left=102	max_min_left_minus=101	max_min_left_plus=102	max_min_right=138	max_min_right_minus=138	max_min_right_plus=0	max_pos_hash_score=554	max_right=167	max_right_minus=167	max_right_plus=167	neg_log10_pos_hash_p_value=6.0	new_junction_coverage=0.10	new_junction_read_count=9	polymorphism_frequency=8.656e-02	pos_hash_score=8	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.08	side_1_overlap=18	side_1_possible_overlap_registers=294	side_1_read_count=99	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.13	side_2_overlap=0	side_2_possible_overlap_registers=276	side_2_read_count=97	side_2_redundant=0	total_non_overlap_reads=9
JC	411	.	NC_000913	3469040	-1	NC_000913	3469344	1	0	alignment_overlap=20	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=2.981e-02	junction_possible_overlap_registers=274	key=NC_000913__3469040__-1__NC_000913__3469324__1__20____300__300__0__0	max_left=85	max_left_minus=85	max_left_plus=85	max_min_left=85	max_min_left_minus=85	max_min_left_plus=85	max_min_right=0	max_min_right_minus=0	max_min_right_plus=0	max_pos_hash_score=550	max_right=243	max_right_minus=243	max_right_plus=164	neg_log10_pos_hash_p_value=8.4	new_junction_coverage=0.04	new_junction_read_count=3	polymorphism_frequency=2.981e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.08	side_1_overlap=20	side_1_possible_overlap_registers=294	side_1_read_count=99	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.21	side_2_overlap=0	side_2_possible_overlap_registers=274	side_2_read_count=103	side_2_redundant=0	total_non_overlap_reads=3
JC	412	.	NC_000913	3469097	-1	NC_000913	3469401	1	0	alignment_overlap=13	coverage_minus=3	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.628e-02	junction_possible_overlap_registers=281	key=NC_000913__3469097__-1__NC_000913__3469388__1__13____300__300__0__0	max_left=264	max_left_minus=264	max_left_plus=187	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=100	max_min_right_minus=96	max_min_right_plus=100	max_pos_hash_score=564	max_right=100	max_right_minus=96	max_right_plus=100	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.06	new_junction_read_count=5	polymorphism_frequency=4.628e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.97	side_1_overlap=13	side_1_possible_overlap_registers=294	side_1_read_count=89	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.39	side_2_overlap=0	side_2_possible_overlap_registers=281	side_2_read_count=121	side_2_redundant=0	total_non_overlap_reads=5
JC	413	.	NC_000913	3583428	1	NC_000913	4542049	-1	0	alignment_overlap=1	coverage_minus=70	coverage_plus=38	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__3583428__1__NC_000913__4542050__-1__1____300__300__1__0	max_left=283	max_left_minus=283	max_left_plus=278	max_min_left=147	max_min_left_minus=147	max_min_left_plus=126	max_min_right=148	max_min_right_minus=148	max_min_right_plus=147	max_pos_hash_score=588	max_right=297	max_right_minus=297	max_right_plus=296	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.21	new_junction_read_count=110	polymorphism_frequency=9.907e-01	pos_hash_score=66	prediction=consensus	read_count_offset=8	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=1	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.01	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=108
JC	414	.	NC_000913	3584195	-1	NC_000913	3890723	-1	0	alignment_overlap=0	coverage_minus=71	coverage_plus=49	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__3584195__-1__NC_000913__3890723__-1__0____300__300__1__0	max_left=286	max_left_minus=286	max_left_plus=285	max_min_left=149	max_min_left_minus=149	max_min_left_plus=149	max_min_right=137	max_min_right_minus=137	max_min_right_plus=129	max_pos_hash_score=590	max_right=297	max_right_minus=297	max_right_plus=294	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.32	new_junction_read_count=121	polymorphism_frequency=1.000e+00	pos_hash_score=73	prediction=consensus	read_count_offset=9	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=120
JC	415	.	NC_000913	3584195	-1	NC_000913	4542042	1	0	alignment_overlap=0	coverage_minus=59	coverage_plus=41	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=294	key=NC_000913__3584195__-1__NC_000913__4542042__1__0____300__300__1__0	max_left=291	max_left_minus=291	max_left_plus=285	max_min_left=149	max_min_left_minus=149	max_min_left_plus=142	max_min_right=147	max_min_right_minus=140	max_min_right_plus=147	max_pos_hash_score=590	max_right=297	max_right_minus=283	max_right_plus=297	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.11	new_junction_read_count=101	polymorphism_frequency=9.899e-01	pos_hash_score=67	prediction=consensus	read_count_offset=8	side_1_annotate_key=repeat	side_1_continuation=0	side_1_coverage=NA	side_1_overlap=0	side_1_read_count=NA	side_1_redundant=1	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.01	side_2_overlap=0	side_2_possible_overlap_registers=286	side_2_read_count=1	side_2_redundant=0	total_non_overlap_reads=100
JC	416	.	NC_000913	3639168	-1	NC_000913	3639342	1	0	alignment_overlap=12	coverage_minus=1	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=3.024e-02	junction_possible_overlap_registers=282	key=NC_000913__3639168__-1__NC_000913__3639330__1__12____300__300__0__0	max_left=203	max_left_minus=203	max_left_plus=63	max_min_left=63	max_min_left_minus=0	max_min_left_plus=63	max_min_right=83	max_min_right_minus=83	max_min_right_plus=0	max_pos_hash_score=566	max_right=225	max_right_minus=83	max_right_plus=225	neg_log10_pos_hash_p_value=8.6	new_junction_coverage=0.03	new_junction_read_count=3	polymorphism_frequency=3.024e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.96	side_1_overlap=12	side_1_possible_overlap_registers=294	side_1_read_count=88	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.23	side_2_overlap=0	side_2_possible_overlap_registers=282	side_2_read_count=108	side_2_redundant=0	total_non_overlap_reads=3
JC	417	.	NC_000913	3648094	-1	NC_000913	3648327	1	-1	alignment_overlap=-1	coverage_minus=5	coverage_plus=6	flanking_left=300	flanking_right=300	frequency=9.595e-02	junction_possible_overlap_registers=293	key=NC_000913__3648094__-1__NC_000913__3648327__1__-1__T__300__300__0__0	max_left=190	max_left_minus=190	max_left_plus=188	max_min_left=120	max_min_left_minus=120	max_min_left_plus=115	max_min_right=128	max_min_right_minus=128	max_min_right_plus=120	max_pos_hash_score=588	max_right=275	max_right_minus=275	max_right_plus=226	neg_log10_pos_hash_p_value=5.3	new_junction_coverage=0.12	new_junction_read_count=11	polymorphism_frequency=9.595e-02	pos_hash_score=11	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.09	side_1_overlap=0	side_1_possible_overlap_registers=294	side_1_read_count=100	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.18	side_2_overlap=0	side_2_possible_overlap_registers=294	side_2_read_count=108	side_2_redundant=0	total_non_overlap_reads=11	unique_read_sequence=T
JC	418	.	NC_000913	4094350	-1	NC_000913	4094719	1	0	alignment_overlap=41	coverage_minus=2	coverage_plus=1	flanking_left=300	flanking_right=300	frequency=5.131e-02	junction_possible_overlap_registers=253	key=NC_000913__4094350__-1__NC_000913__4094678__1__41____300__300__0__0	max_left=63	max_left_minus=63	max_left_plus=53	max_min_left=53	max_min_left_minus=53	max_min_left_plus=53	max_min_right=18	max_min_right_minus=18	max_min_right_plus=0	max_pos_hash_score=508	max_right=164	max_right_minus=164	max_right_plus=164	neg_log10_pos_hash_p_value=8.0	new_junction_coverage=0.04	new_junction_read_count=3	polymorphism_frequency=5.131e-02	pos_hash_score=3	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.71	side_1_overlap=41	side_1_possible_overlap_registers=294	side_1_read_count=65	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.70	side_2_overlap=0	side_2_possible_overlap_registers=253	side_2_read_count=55	side_2_redundant=0	total_non_overlap_reads=3
JC	419	.	NC_000913	4180660	-1	NC_000913	4180667	1	0	alignment_overlap=1	coverage_minus=55	coverage_plus=61	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=293	key=NC_000913__4180660__-1__NC_000913__4180666__1__1____300__300__0__0	max_left=287	max_left_minus=283	max_left_plus=287	max_min_left=137	max_min_left_minus=136	max_min_left_plus=137	max_min_right=145	max_min_right_minus=145	max_min_right_plus=140	max_pos_hash_score=588	max_right=295	max_right_minus=271	max_right_plus=295	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.31	new_junction_read_count=119	polymorphism_frequency=1.000e+00	pos_hash_score=70	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=1	side_1_possible_overlap_registers=294	side_1_read_count=0	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.00	side_2_overlap=0	side_2_possible_overlap_registers=293	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=116
JC	420	.	NC_000913	4295870	-1	NC_000913	4296434	1	0	alignment_overlap=39	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=5.548e-02	junction_possible_overlap_registers=255	key=NC_000913__4295870__-1__NC_000913__4296395__1__39____300__300__0__0	max_left=255	max_left_minus=255	max_left_plus=255	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=58	max_min_right_minus=58	max_min_right_plus=58	max_pos_hash_score=512	max_right=58	max_right_minus=58	max_right_plus=58	neg_log10_pos_hash_p_value=7.5	new_junction_coverage=0.05	new_junction_read_count=4	polymorphism_frequency=5.548e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.97	side_1_overlap=39	side_1_possible_overlap_registers=294	side_1_read_count=89	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.74	side_2_overlap=0	side_2_possible_overlap_registers=255	side_2_read_count=59	side_2_redundant=0	total_non_overlap_reads=4
JC	421	.	NC_000913	4542682	1	NC_000913	4542996	1	0	alignment_overlap=9	coverage_minus=65	coverage_plus=71	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=285	key=NC_000913__4542682__1__NC_000913__4542987__1__9____300__300__0__0	max_left=289	max_left_minus=289	max_left_plus=289	max_min_left=141	max_min_left_minus=141	max_min_left_plus=132	max_min_right=143	max_min_right_minus=143	max_min_right_plus=86	max_pos_hash_score=572	max_right=288	max_right_minus=288	max_right_plus=276	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.56	new_junction_read_count=138	polymorphism_frequency=9.303e-01	pos_hash_score=75	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.12	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=11	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.11	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=10	side_2_redundant=0	total_non_overlap_reads=136
JC	422	.	NC_000913	4542690	-1	NC_000913	4542986	-1	0	alignment_overlap=9	coverage_minus=77	coverage_plus=51	flanking_left=300	flanking_right=300	frequency=1	junction_possible_overlap_registers=285	key=NC_000913__4542690__-1__NC_000913__4542995__-1__9____300__300__0__0	max_left=276	max_left_minus=275	max_left_plus=276	max_min_left=144	max_min_left_minus=144	max_min_left_plus=144	max_min_right=143	max_min_right_minus=143	max_min_right_plus=129	max_pos_hash_score=572	max_right=288	max_right_minus=288	max_right_plus=286	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.45	new_junction_read_count=128	polymorphism_frequency=8.970e-01	pos_hash_score=73	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.22	side_1_overlap=9	side_1_possible_overlap_registers=294	side_1_read_count=20	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.11	side_2_overlap=0	side_2_possible_overlap_registers=285	side_2_read_count=10	side_2_redundant=0	total_non_overlap_reads=128
JC	423	.	NC_000913	4610687	-1	NC_000913	4611025	1	0	alignment_overlap=10	coverage_minus=2	coverage_plus=2	flanking_left=300	flanking_right=300	frequency=4.800e-02	junction_possible_overlap_registers=284	key=NC_000913__4610687__-1__NC_000913__4611015__1__10____300__300__0__0	max_left=143	max_left_minus=143	max_left_plus=133	max_min_left=143	max_min_left_minus=143	max_min_left_plus=133	max_min_right=1	max_min_right_minus=1	max_min_right_plus=0	max_pos_hash_score=570	max_right=157	max_right_minus=145	max_right_plus=157	neg_log10_pos_hash_p_value=8.0	new_junction_coverage=0.05	new_junction_read_count=4	polymorphism_frequency=4.800e-02	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.76	side_1_overlap=10	side_1_possible_overlap_registers=294	side_1_read_count=69	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.04	side_2_overlap=0	side_2_possible_overlap_registers=284	side_2_read_count=92	side_2_redundant=0	total_non_overlap_reads=4
UN	424	.	NC_000913	15647	15648
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UN	459	.	NC_000913	1469546	1470228
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UN	468	.	NC_000913	1651122	1651270
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UN	477	.	NC_000913	2069214	2069214
UN	478	.	NC_000913	2069216	2070005
UN	479	.	NC_000913	2070010	2070010
UN	480	.	NC_000913	2102012	2102014
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UN	488	.	NC_000913	2514536	2515350
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UN	492	.	NC_000913	2728988	2728988
UN	493	.	NC_000913	2728990	2728990
UN	494	.	NC_000913	2728992	2728992
UN	495	.	NC_000913	2728998	2728998
UN	496	.	NC_000913	2729001	2729001
UN	497	.	NC_000913	2729825	2730700
UN	498	.	NC_000913	2730702	2730703
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UN	502	.	NC_000913	2730715	2730715
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UN	505	.	NC_000913	2996616	2997425
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UN	512	.	NC_000913	3426916	3426916
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UN	515	.	NC_000913	3583697	3583920
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UN	522	.	NC_000913	3622043	3622044
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UN	551	.	NC_000913	4167951	4167953
UN	552	.	NC_000913	4167956	4167957
UN	553	.	NC_000913	4167959	4167959
UN	554	.	NC_000913	4167964	4167966
UN	555	.	NC_000913	4167968	4167969
UN	556	.	NC_000913	4167971	4167971
UN	557	.	NC_000913	4167973	4167973
UN	558	.	NC_000913	4168830	4168830
UN	559	.	NC_000913	4168836	4168837
UN	560	.	NC_000913	4168839	4171399
UN	561	.	NC_000913	4171402	4171402
UN	562	.	NC_000913	4171405	4171405
UN	563	.	NC_000913	4171409	4171409
UN	564	.	NC_000913	4171415	4171415
UN	565	.	NC_000913	4180661	4180666
UN	566	.	NC_000913	4208395	4209461
UN	567	.	NC_000913	4209463	4209465
UN	568	.	NC_000913	4209473	4209473
UN	569	.	NC_000913	4210304	4212835
UN	570	.	NC_000913	4212838	4212838
UN	571	.	NC_000913	4498476	4499226
UN	572	.	NC_000913	4499228	4499228
UN	573	.	NC_000913	4507747	4508429