#=GENOME_DIFF	1.0
#=CREATED	17:01:36 16 Mar 2023
#=PROGRAM	breseq 0.35.4 revision f352f80f4bc9
#=COMMAND	/usr/bin/breseq-0.35.4-Linux-x86_64/bin/breseq -j 2 --consensus-frequency-cutoff=0.75 --require-match-fraction=0.95 -o breseq_processes/0 -r /var/data/NZ_CP009273_1.gb /var/alemutpipe-outputs/good/SRR9723009_R1.good.fq /var/alemutpipe-outputs/good/SRR9723009_R2.good.fq
#=REFSEQ	/var/data/NZ_CP009273_1.gb
#=READSEQ	/var/alemutpipe-outputs/good/SRR9723009_R1.good.fq
#=READSEQ	/var/alemutpipe-outputs/good/SRR9723009_R2.good.fq
#=CONVERTED-BASES	263313489
#=CONVERTED-READS	1062718
#=INPUT-BASES	263313489
#=INPUT-READS	1062718
#=MAPPED-BASES	255758308
#=MAPPED-READS	1032679
SNP	1	16	NZ_CP009273	57069	T
SNP	2	43	NZ_CP009273	874860	A
SNP	3	58	NZ_CP009273	1431900	A
SNP	4	73	NZ_CP009273	1913385	G
INS	5	139	NZ_CP009273	3300211	CGCACGACC	repeat_length=9	repeat_new_copies=2	repeat_ref_copies=1	repeat_seq=CGCACGACC
DEL	6	111	NZ_CP009273	3961365	1	repeat_length=1	repeat_new_copies=6	repeat_ref_copies=7	repeat_seq=A
SNP	7	123	NZ_CP009273	4323527	T
RA	8	.	NZ_CP009273	5093	0	G	A	bias_e_value=2972.04	bias_p_value=0.000641706	consensus_reject=FREQUENCY_CUTOFF	consensus_score=123.7	fisher_strand_p_value=5.98392e-05	frequency=2.292e-01	ks_quality_p_value=1	major_base=G	major_cov=25/12	major_frequency=7.708e-01	minor_base=A	minor_cov=0/11	new_cov=0/11	polymorphism_frequency=2.292e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=25/12	total_cov=25/23
RA	9	.	NZ_CP009273	5106	0	G	A	bias_e_value=221.942	bias_p_value=4.79205e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=102.9	fisher_strand_p_value=3.53591e-06	frequency=2.766e-01	ks_quality_p_value=1	major_base=G	major_cov=25/9	major_frequency=7.234e-01	minor_base=A	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.766e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=25/9	total_cov=25/22
RA	10	.	NZ_CP009273	5159	0	G	A	bias_e_value=0.0876007	bias_p_value=1.89142e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=106.4	fisher_strand_p_value=8.64912e-10	frequency=2.885e-01	ks_quality_p_value=1	major_base=G	major_cov=33/4	major_frequency=7.115e-01	minor_base=A	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.885e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=33/4	total_cov=33/19
RA	11	.	NZ_CP009273	5162	0	T	A	bias_e_value=0.915077	bias_p_value=1.97578e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=124.6	fisher_strand_p_value=1.01831e-08	frequency=2.453e-01	ks_quality_p_value=1	major_base=T	major_cov=35/5	major_frequency=7.547e-01	minor_base=A	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.453e-01	polymorphism_score=16.4	prediction=polymorphism	ref_cov=35/5	total_cov=35/18
RA	12	.	NZ_CP009273	29447	0	C	T	bias_e_value=20.7663	bias_p_value=4.48374e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=75.2	fisher_strand_p_value=2.78606e-07	frequency=3.542e-01	ks_quality_p_value=1	major_base=C	major_cov=23/8	major_frequency=6.458e-01	minor_base=T	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=3.542e-01	polymorphism_score=25.7	prediction=polymorphism	ref_cov=23/8	total_cov=23/26
RA	13	.	NZ_CP009273	29468	0	T	A	bias_e_value=4.37739	bias_p_value=9.45141e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=92.1	fisher_strand_p_value=5.32527e-08	frequency=3.600e-01	ks_quality_p_value=1	major_base=T	major_cov=25/7	major_frequency=6.400e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=3.600e-01	polymorphism_score=18.9	prediction=polymorphism	ref_cov=25/7	total_cov=25/25
RA	14	.	NZ_CP009273	29486	0	C	A	bias_e_value=0.218352	bias_p_value=4.71454e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=90.1	fisher_strand_p_value=2.25465e-09	frequency=4.000e-01	ks_quality_p_value=1	major_base=C	major_cov=25/5	major_frequency=6.000e-01	minor_base=A	minor_cov=0/20	new_cov=0/20	polymorphism_frequency=4.000e-01	polymorphism_score=17.4	prediction=polymorphism	ref_cov=25/5	total_cov=25/25
RA	15	.	NZ_CP009273	29496	0	T	A	bias_e_value=1.03955	bias_p_value=2.24454e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=79.6	fisher_strand_p_value=1.1649e-08	frequency=3.878e-01	ks_quality_p_value=1	major_base=T	major_cov=24/6	major_frequency=6.122e-01	minor_base=A	minor_cov=0/19	new_cov=0/19	polymorphism_frequency=3.878e-01	polymorphism_score=19.9	prediction=polymorphism	ref_cov=24/6	total_cov=24/25
RA	16	.	NZ_CP009273	57069	0	G	T	consensus_score=214.3	frequency=1	major_base=T	major_cov=30/24	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=30/24	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=30/24
RA	17	.	NZ_CP009273	71566	0	C	T	bias_e_value=209.302	bias_p_value=4.51913e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=62.0	fisher_strand_p_value=3.31902e-06	frequency=3.529e-01	ks_quality_p_value=1	major_base=C	major_cov=4/18	major_frequency=6.471e-01	minor_base=T	minor_cov=12/0	new_cov=12/0	polymorphism_frequency=3.529e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=4/18	total_cov=16/18
RA	18	.	NZ_CP009273	115883	0	C	T	bias_e_value=25.0532	bias_p_value=5.40935e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=81.5	fisher_strand_p_value=3.40355e-07	frequency=2.979e-01	ks_quality_p_value=1	major_base=C	major_cov=7/26	major_frequency=7.021e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=2.979e-01	polymorphism_score=12.9	prediction=polymorphism	ref_cov=7/26	total_cov=21/26
RA	19	.	NZ_CP009273	117994	0	A	T	bias_e_value=0.44742	bias_p_value=9.66043e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=81.2	fisher_strand_p_value=4.7928e-09	frequency=4.000e-01	ks_quality_p_value=1	major_base=A	major_cov=8/25	major_frequency=6.000e-01	minor_base=T	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=4.000e-01	polymorphism_score=24.8	prediction=polymorphism	ref_cov=8/25	total_cov=30/25
RA	20	.	NZ_CP009273	228181	0	C	T	bias_e_value=0.00252561	bias_p_value=5.45316e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.1	fisher_strand_p_value=2.13255e-11	frequency=3.137e-01	ks_quality_p_value=1	major_base=C	major_cov=2/33	major_frequency=6.863e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.137e-01	polymorphism_score=16.6	prediction=polymorphism	ref_cov=2/33	total_cov=18/33
RA	21	.	NZ_CP009273	294671	0	A	C	bias_e_value=0.041927	bias_p_value=9.05263e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=114.3	fisher_strand_p_value=3.99853e-10	frequency=2.653e-01	ks_quality_p_value=1	major_base=A	major_cov=34/2	major_frequency=7.347e-01	minor_base=C	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.653e-01	polymorphism_score=14.0	prediction=polymorphism	ref_cov=34/2	total_cov=34/15
RA	22	.	NZ_CP009273	341015	0	G	A	bias_e_value=12.1284	bias_p_value=2.6187e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=72.5	fisher_strand_p_value=1.57126e-07	frequency=3.571e-01	ks_quality_p_value=1	major_base=G	major_cov=22/5	major_frequency=6.429e-01	minor_base=A	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=3.571e-01	polymorphism_score=15.6	prediction=polymorphism	ref_cov=22/5	total_cov=22/20
RA	23	.	NZ_CP009273	341039	0	C	A	bias_e_value=18.3662	bias_p_value=3.96553e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=64.9	fisher_strand_p_value=2.44418e-07	frequency=3.810e-01	ks_quality_p_value=1	major_base=C	major_cov=21/5	major_frequency=6.190e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.810e-01	polymorphism_score=16.2	prediction=polymorphism	ref_cov=21/5	total_cov=21/21
RA	24	.	NZ_CP009273	417674	0	C	T	bias_e_value=1.90448	bias_p_value=4.11205e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.4	fisher_strand_p_value=2.20735e-08	frequency=3.214e-01	ks_quality_p_value=1	major_base=C	major_cov=9/29	major_frequency=6.786e-01	minor_base=T	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.214e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=9/29	total_cov=27/29
RA	25	.	NZ_CP009273	536014	0	T	G	bias_e_value=0.156448	bias_p_value=3.37794e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=121.1	fisher_strand_p_value=1.58885e-09	frequency=3.220e-01	ks_quality_p_value=1	major_base=T	major_cov=8/32	major_frequency=6.780e-01	minor_base=G	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.220e-01	polymorphism_score=15.0	prediction=polymorphism	ref_cov=8/32	total_cov=27/32
RA	26	.	NZ_CP009273	595032	0	T	G	bias_e_value=0.000178067	bias_p_value=3.84473e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=19.7	fisher_strand_p_value=1.28935e-08	frequency=5.172e-01	ks_quality_p_value=0.000105273	major_base=G	major_cov=15/0	major_frequency=5.172e-01	minor_base=T	minor_cov=0/14	new_cov=15/0	polymorphism_frequency=5.172e-01	polymorphism_score=43.7	prediction=polymorphism	ref_cov=0/14	total_cov=15/14
RA	27	.	NZ_CP009273	646723	0	A	T	bias_e_value=204.804	bias_p_value=4.422e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=48.0	fisher_strand_p_value=3.24211e-06	frequency=3.889e-01	ks_quality_p_value=1	major_base=A	major_cov=5/17	major_frequency=6.111e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=3.889e-01	polymorphism_score=11.6	prediction=polymorphism	ref_cov=5/17	total_cov=19/17
RA	28	.	NZ_CP009273	748510	0	C	T	bias_e_value=3122.54	bias_p_value=0.0006742	consensus_reject=FREQUENCY_CUTOFF	consensus_score=123.1	fisher_strand_p_value=6.31903e-05	frequency=2.642e-01	ks_quality_p_value=1	major_base=C	major_cov=24/15	major_frequency=7.358e-01	minor_base=T	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.642e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=24/15	total_cov=24/29
RA	29	.	NZ_CP009273	748515	0	C	T	bias_e_value=426.406	bias_p_value=9.20672e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=118.0	fisher_strand_p_value=7.16698e-06	frequency=2.727e-01	ks_quality_p_value=1	major_base=C	major_cov=26/14	major_frequency=7.273e-01	minor_base=T	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.727e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=26/14	total_cov=26/29
RA	30	.	NZ_CP009273	748581	0	T	A	bias_e_value=0.00177047	bias_p_value=3.8227e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=69.1	fisher_strand_p_value=1.47363e-11	frequency=4.314e-01	ks_quality_p_value=1	major_base=T	major_cov=26/3	major_frequency=5.686e-01	minor_base=A	minor_cov=0/22	new_cov=0/22	polymorphism_frequency=4.314e-01	polymorphism_score=23.6	prediction=polymorphism	ref_cov=26/3	total_cov=26/25
RA	31	.	NZ_CP009273	752723	0	A	T	bias_e_value=1813.32	bias_p_value=0.000391522	consensus_reject=FREQUENCY_CUTOFF	consensus_score=99.7	fisher_strand_p_value=3.47483e-05	frequency=2.444e-01	ks_quality_p_value=1	major_base=A	major_cov=10/24	major_frequency=7.556e-01	minor_base=T	minor_cov=11/0	new_cov=11/0	polymorphism_frequency=2.444e-01	polymorphism_score=19.7	prediction=polymorphism	ref_cov=10/24	total_cov=21/24
RA	32	.	NZ_CP009273	752744	0	A	T	bias_e_value=43822.3	bias_p_value=0.00946187	consensus_reject=FREQUENCY_CUTOFF	consensus_score=94.1	fisher_strand_p_value=0.0012285	frequency=2.250e-01	ks_quality_p_value=1	major_base=A	major_cov=11/20	major_frequency=7.750e-01	minor_base=T	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.250e-01	polymorphism_score=15.7	prediction=polymorphism	ref_cov=11/20	total_cov=20/20
RA	33	.	NZ_CP009273	752745	0	A	C	bias_e_value=39107.7	bias_p_value=0.00844391	consensus_reject=FREQUENCY_CUTOFF	consensus_score=89.7	fisher_strand_p_value=0.0012285	frequency=2.250e-01	ks_quality_p_value=0.877529	major_base=A	major_cov=11/20	major_frequency=7.750e-01	minor_base=C	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.250e-01	polymorphism_score=12.6	prediction=polymorphism	ref_cov=11/20	total_cov=20/20
RA	34	.	NZ_CP009273	752746	0	G	A	bias_e_value=18959.3	bias_p_value=0.00409359	consensus_reject=FREQUENCY_CUTOFF	consensus_score=91.6	fisher_strand_p_value=0.000479415	frequency=2.195e-01	ks_quality_p_value=0.986374	major_base=G	major_cov=11/21	major_frequency=7.805e-01	minor_base=A	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.195e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=11/21	total_cov=20/21
RA	35	.	NZ_CP009273	752747	0	C	T	bias_e_value=18635.4	bias_p_value=0.00402365	consensus_reject=FREQUENCY_CUTOFF	consensus_score=90.3	fisher_strand_p_value=0.000479415	frequency=2.195e-01	ks_quality_p_value=0.967347	major_base=C	major_cov=11/21	major_frequency=7.805e-01	minor_base=T	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.195e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=11/21	total_cov=20/21
RA	36	.	NZ_CP009273	752748	0	G	T	bias_e_value=17203.9	bias_p_value=0.00371458	consensus_reject=FREQUENCY_CUTOFF	consensus_score=106.3	fisher_strand_p_value=0.000479415	frequency=2.195e-01	ks_quality_p_value=0.883843	major_base=G	major_cov=11/21	major_frequency=7.805e-01	minor_base=T	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.195e-01	polymorphism_score=13.6	prediction=polymorphism	ref_cov=11/21	total_cov=20/21
RA	37	.	NZ_CP009273	752750	0	T	A	bias_e_value=14800.6	bias_p_value=0.00319567	consensus_reject=FREQUENCY_CUTOFF	consensus_score=108.1	fisher_strand_p_value=0.000376683	frequency=2.143e-01	ks_quality_p_value=0.949378	major_base=T	major_cov=11/22	major_frequency=7.857e-01	minor_base=A	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.143e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=11/22	total_cov=20/22
RA	38	.	NZ_CP009273	753987	0	C	A	bias_e_value=1859.39	bias_p_value=0.000401469	consensus_reject=FREQUENCY_CUTOFF	consensus_score=138.3	fisher_strand_p_value=3.57184e-05	frequency=2.456e-01	ks_quality_p_value=1	major_base=C	major_cov=26/17	major_frequency=7.544e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.456e-01	polymorphism_score=15.4	prediction=polymorphism	ref_cov=26/17	total_cov=26/31
RA	39	.	NZ_CP009273	754008	0	T	A	bias_e_value=9714.27	bias_p_value=0.00209745	consensus_reject=FREQUENCY_CUTOFF	consensus_score=141.6	fisher_strand_p_value=0.000222927	frequency=2.203e-01	ks_quality_p_value=1	major_base=T	major_cov=26/20	major_frequency=7.797e-01	minor_base=A	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.203e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=26/20	total_cov=26/33
RA	40	.	NZ_CP009273	792856	0	G	T	bias_e_value=425.677	bias_p_value=9.19097e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=57.5	fisher_strand_p_value=7.15368e-06	frequency=4.062e-01	ks_quality_p_value=1	major_base=G	major_cov=15/4	major_frequency=5.938e-01	minor_base=T	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=4.062e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=15/4	total_cov=15/17
RA	41	.	NZ_CP009273	799325	0	G	T	bias_e_value=2.00194	bias_p_value=4.32247e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=86.8	fisher_strand_p_value=2.32689e-08	frequency=3.077e-01	ks_quality_p_value=1	major_base=G	major_cov=2/25	major_frequency=6.923e-01	minor_base=T	minor_cov=12/0	new_cov=12/0	polymorphism_frequency=3.077e-01	polymorphism_score=10.0	prediction=polymorphism	ref_cov=2/25	total_cov=14/25
RA	42	.	NZ_CP009273	858015	0	G	T	bias_e_value=0.0701418	bias_p_value=1.51446e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=89.5	fisher_strand_p_value=6.85238e-10	frequency=3.922e-01	ks_quality_p_value=1	major_base=G	major_cov=5/26	major_frequency=6.078e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.922e-01	polymorphism_score=17.3	prediction=polymorphism	ref_cov=5/26	total_cov=25/26
RA	43	.	NZ_CP009273	874860	0	G	A	consensus_score=285.9	frequency=1	major_base=A	major_cov=42/30	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=42/30	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=42/30
RA	44	.	NZ_CP009273	896142	0	G	A	bias_e_value=479.095	bias_p_value=0.000103443	consensus_reject=FREQUENCY_CUTOFF	consensus_score=97.8	fisher_strand_p_value=8.13258e-06	frequency=2.979e-01	ks_quality_p_value=1	major_base=G	major_cov=23/10	major_frequency=7.021e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.979e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=23/10	total_cov=23/24
RA	45	.	NZ_CP009273	1009484	0	A	G	bias_e_value=0.161792	bias_p_value=3.49332e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=85.3	fisher_strand_p_value=1.64585e-09	frequency=2.927e-01	ks_quality_p_value=1	major_base=A	major_cov=1/28	major_frequency=7.073e-01	minor_base=G	minor_cov=12/0	new_cov=12/0	polymorphism_frequency=2.927e-01	polymorphism_score=12.6	prediction=polymorphism	ref_cov=1/28	total_cov=13/28
RA	46	.	NZ_CP009273	1075349	0	G	T	bias_e_value=406.966	bias_p_value=8.78697e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=82.0	fisher_strand_p_value=6.81339e-06	frequency=3.111e-01	ks_quality_p_value=1	major_base=G	major_cov=9/22	major_frequency=6.889e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=3.111e-01	polymorphism_score=14.1	prediction=polymorphism	ref_cov=9/22	total_cov=23/22
RA	47	.	NZ_CP009273	1218052	0	G	A	bias_e_value=2.83444	bias_p_value=6.11997e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=63.6	fisher_strand_p_value=3.36107e-08	frequency=3.158e-01	ks_quality_p_value=1	major_base=G	major_cov=24/2	major_frequency=6.842e-01	minor_base=A	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=3.158e-01	polymorphism_score=15.7	prediction=polymorphism	ref_cov=24/2	total_cov=24/14
RA	48	.	NZ_CP009273	1256344	0	C	A	bias_e_value=3358.77	bias_p_value=0.000725207	consensus_reject=FREQUENCY_CUTOFF	consensus_score=93.5	fisher_strand_p_value=6.84877e-05	frequency=2.593e-01	ks_quality_p_value=1	major_base=C	major_cov=24/16	major_frequency=7.407e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.593e-01	polymorphism_score=13.6	prediction=polymorphism	ref_cov=24/16	total_cov=24/30
RA	49	.	NZ_CP009273	1257298	0	T	G	bias_e_value=2.25013	bias_p_value=4.85835e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=82.7	fisher_strand_p_value=2.63288e-08	frequency=4.400e-01	ks_quality_p_value=1	major_base=T	major_cov=7/21	major_frequency=5.600e-01	minor_base=G	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=4.400e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=7/21	total_cov=29/21
RA	50	.	NZ_CP009273	1267283	0	A	T	bias_e_value=0.0609528	bias_p_value=1.31606e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=72.3	fisher_strand_p_value=5.91532e-10	frequency=3.409e-01	ks_quality_p_value=1	major_base=A	major_cov=2/27	major_frequency=6.591e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.409e-01	polymorphism_score=18.9	prediction=polymorphism	ref_cov=2/27	total_cov=17/27
RA	51	.	NZ_CP009273	1287914	0	T	A	bias_e_value=0.128134	bias_p_value=2.76659e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=126.6	fisher_strand_p_value=1.2886e-09	frequency=2.807e-01	ks_quality_p_value=1	major_base=T	major_cov=35/6	major_frequency=7.193e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.807e-01	polymorphism_score=12.5	prediction=polymorphism	ref_cov=35/6	total_cov=35/22
RA	52	.	NZ_CP009273	1322722	0	T	G	bias_e_value=1.38906	bias_p_value=2.99918e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=127.6	fisher_strand_p_value=1.58166e-08	frequency=2.931e-01	ks_quality_p_value=1	major_base=T	major_cov=9/32	major_frequency=7.069e-01	minor_base=G	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.931e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=9/32	total_cov=27/32
RA	53	.	NZ_CP009273	1377967	0	C	A	bias_e_value=224.589	bias_p_value=4.84919e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=140.2	fisher_strand_p_value=3.58145e-06	frequency=2.540e-01	ks_quality_p_value=1	major_base=C	major_cov=30/17	major_frequency=7.460e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.540e-01	polymorphism_score=11.3	prediction=polymorphism	ref_cov=30/17	total_cov=30/34
RA	54	.	NZ_CP009273	1377979	0	G	A	bias_e_value=0.0467191	bias_p_value=1.00873e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=82.2	fisher_strand_p_value=4.47794e-10	frequency=4.167e-01	ks_quality_p_value=1	major_base=G	major_cov=27/8	major_frequency=5.833e-01	minor_base=A	minor_cov=0/25	new_cov=0/25	polymorphism_frequency=4.167e-01	polymorphism_score=29.3	prediction=polymorphism	ref_cov=27/8	total_cov=27/33
RA	55	.	NZ_CP009273	1407992	0	A	T	bias_e_value=0.15337	bias_p_value=3.31147e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=119.5	fisher_strand_p_value=1.57808e-09	frequency=2.600e-01	ks_quality_p_value=0.986044	major_base=A	major_cov=3/34	major_frequency=7.400e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.600e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=3/34	total_cov=16/34
RA	56	.	NZ_CP009273	1408018	0	C	T	bias_e_value=0.0876007	bias_p_value=1.89142e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=118.2	fisher_strand_p_value=8.64912e-10	frequency=2.885e-01	ks_quality_p_value=1	major_base=C	major_cov=4/33	major_frequency=7.115e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=2.885e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=4/33	total_cov=19/33
RA	57	.	NZ_CP009273	1429984	0	G	A	bias_e_value=0.0370408	bias_p_value=7.99764e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=99.2	fisher_strand_p_value=3.51243e-10	frequency=2.979e-01	ks_quality_p_value=1	major_base=G	major_cov=31/2	major_frequency=7.021e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.979e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=31/2	total_cov=31/16
RA	58	.	NZ_CP009273	1431900	0	G	A	consensus_score=253.3	frequency=1	major_base=A	major_cov=32/31	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=32/31	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=32/31
RA	59	.	NZ_CP009273	1472631	0	C	T	bias_e_value=92.7908	bias_p_value=2.00348e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=96.0	fisher_strand_p_value=1.38251e-06	frequency=2.683e-01	ks_quality_p_value=1	major_base=C	major_cov=5/25	major_frequency=7.317e-01	minor_base=T	minor_cov=11/0	new_cov=11/0	polymorphism_frequency=2.683e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=5/25	total_cov=16/25
RA	60	.	NZ_CP009273	1568308	0	G	T	bias_e_value=2.66347	bias_p_value=5.75081e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=83.0	fisher_strand_p_value=3.14695e-08	frequency=3.556e-01	ks_quality_p_value=1	major_base=G	major_cov=5/24	major_frequency=6.444e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.556e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=5/24	total_cov=21/24
RA	61	.	NZ_CP009273	1568336	0	C	A	bias_e_value=1.32525	bias_p_value=2.8614e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=93.9	fisher_strand_p_value=1.50506e-08	frequency=3.696e-01	ks_quality_p_value=1	major_base=C	major_cov=5/24	major_frequency=6.304e-01	minor_base=A	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=3.696e-01	polymorphism_score=21.7	prediction=polymorphism	ref_cov=5/24	total_cov=22/24
RA	62	.	NZ_CP009273	1750119	0	C	A	bias_e_value=0.116239	bias_p_value=2.50977e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=90.1	fisher_strand_p_value=1.16345e-09	frequency=3.250e-01	ks_quality_p_value=1	major_base=C	major_cov=26/1	major_frequency=6.750e-01	minor_base=A	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=3.250e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=26/1	total_cov=26/14
RA	63	.	NZ_CP009273	1750128	0	T	A	bias_e_value=0.116239	bias_p_value=2.50977e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=74.3	fisher_strand_p_value=1.16345e-09	frequency=3.250e-01	ks_quality_p_value=1	major_base=T	major_cov=26/1	major_frequency=6.750e-01	minor_base=A	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=3.250e-01	polymorphism_score=15.6	prediction=polymorphism	ref_cov=26/1	total_cov=26/14
RA	64	.	NZ_CP009273	1759028	0	T	A	bias_e_value=112.12	bias_p_value=2.42084e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=94.4	fisher_strand_p_value=1.69429e-06	frequency=2.917e-01	ks_quality_p_value=1	major_base=T	major_cov=25/9	major_frequency=7.083e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.917e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=25/9	total_cov=25/23
RA	65	.	NZ_CP009273	1759042	0	T	A	bias_e_value=479.095	bias_p_value=0.000103443	consensus_reject=FREQUENCY_CUTOFF	consensus_score=95.3	fisher_strand_p_value=8.13258e-06	frequency=2.917e-01	ks_quality_p_value=1	major_base=T	major_cov=24/10	major_frequency=7.083e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.917e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=24/10	total_cov=24/24
RA	66	.	NZ_CP009273	1816454	0	A	C	bias_e_value=1.44708	bias_p_value=3.12446e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=116.4	fisher_strand_p_value=1.65149e-08	frequency=3.019e-01	ks_quality_p_value=1	major_base=A	major_cov=30/7	major_frequency=6.981e-01	minor_base=C	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.019e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=30/7	total_cov=30/23
RA	67	.	NZ_CP009273	1817685	0	C	G	bias_e_value=0.0527693	bias_p_value=1.13936e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=109.8	fisher_strand_p_value=5.17904e-10	frequency=3.061e-01	ks_quality_p_value=0.982154	major_base=C	major_cov=31/3	major_frequency=6.939e-01	minor_base=G	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=3.061e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=31/3	total_cov=31/18
RA	68	.	NZ_CP009273	1817694	0	C	T	bias_e_value=0.0137167	bias_p_value=2.96162e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=91.5	fisher_strand_p_value=1.24399e-10	frequency=3.125e-01	ks_quality_p_value=1	major_base=C	major_cov=31/2	major_frequency=6.875e-01	minor_base=T	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=3.125e-01	polymorphism_score=17.5	prediction=polymorphism	ref_cov=31/2	total_cov=31/17
RA	69	.	NZ_CP009273	1819288	0	C	T	bias_e_value=0.615381	bias_p_value=1.3287e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=147.1	fisher_strand_p_value=6.7036e-09	frequency=2.203e-01	ks_quality_p_value=1	major_base=C	major_cov=40/6	major_frequency=7.797e-01	minor_base=T	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.203e-01	polymorphism_score=17.0	prediction=polymorphism	ref_cov=40/6	total_cov=40/20
RA	70	.	NZ_CP009273	1819313	0	G	A	bias_e_value=0.000627888	bias_p_value=1.3557e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=106.3	fisher_strand_p_value=5.01776e-12	frequency=2.941e-01	ks_quality_p_value=1	major_base=G	major_cov=35/1	major_frequency=7.059e-01	minor_base=A	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.941e-01	polymorphism_score=17.3	prediction=polymorphism	ref_cov=35/1	total_cov=35/16
RA	71	.	NZ_CP009273	1819318	0	G	A	bias_e_value=0.000627888	bias_p_value=1.3557e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=114.3	fisher_strand_p_value=5.01776e-12	frequency=2.941e-01	ks_quality_p_value=1	major_base=G	major_cov=35/1	major_frequency=7.059e-01	minor_base=A	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.941e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=35/1	total_cov=35/16
RA	72	.	NZ_CP009273	1870691	0	G	T	bias_e_value=1593.8	bias_p_value=0.000344123	consensus_reject=FREQUENCY_CUTOFF	consensus_score=106.0	fisher_strand_p_value=4.18886e-05	frequency=2.759e-01	ks_quality_p_value=0.72007	major_base=G	major_cov=18/24	major_frequency=7.241e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.759e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=18/24	total_cov=34/24
RA	73	.	NZ_CP009273	1913385	0	T	G	consensus_score=199.4	frequency=1	major_base=G	major_cov=24/26	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=24/26	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=24/26
RA	74	.	NZ_CP009273	1995360	0	G	T	bias_e_value=105.03	bias_p_value=2.26774e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=108.5	fisher_strand_p_value=1.57937e-06	frequency=3.333e-01	ks_quality_p_value=1	major_base=G	major_cov=24/14	major_frequency=6.667e-01	minor_base=T	minor_cov=0/19	new_cov=0/19	polymorphism_frequency=3.333e-01	polymorphism_score=11.6	prediction=polymorphism	ref_cov=24/14	total_cov=24/33
RA	75	.	NZ_CP009273	1995363	0	A	T	bias_e_value=362.834	bias_p_value=7.83411e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=95.7	fisher_strand_p_value=6.01652e-06	frequency=3.036e-01	ks_quality_p_value=1	major_base=A	major_cov=24/15	major_frequency=6.964e-01	minor_base=T	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=3.036e-01	polymorphism_score=18.4	prediction=polymorphism	ref_cov=24/15	total_cov=24/32
RA	76	.	NZ_CP009273	1995392	0	G	A	bias_e_value=0.120795	bias_p_value=2.60813e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=38.0	fisher_strand_p_value=1.2113e-09	frequency=4.727e-01	ks_quality_p_value=1	major_base=G	major_cov=22/7	major_frequency=5.273e-01	minor_base=A	minor_cov=0/26	new_cov=0/26	polymorphism_frequency=4.727e-01	polymorphism_score=37.4	prediction=polymorphism	ref_cov=22/7	total_cov=22/33
RA	77	.	NZ_CP009273	1995399	0	A	C	bias_e_value=5.23254e-11	bias_p_value=1.12978e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=64.8	fisher_strand_p_value=3.76788e-11	frequency=5.179e-01	ks_quality_p_value=6.84552e-09	major_base=C	major_cov=0/29	major_frequency=5.179e-01	minor_base=A	minor_cov=22/5	new_cov=0/29	polymorphism_frequency=5.179e-01	polymorphism_score=90.6	prediction=polymorphism	ref_cov=22/5	total_cov=22/34
RA	78	.	NZ_CP009273	2319929	0	T	G	bias_e_value=1.28122	bias_p_value=2.76634e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=50.8	fisher_strand_p_value=1.45234e-08	frequency=4.054e-01	ks_quality_p_value=1	major_base=T	major_cov=2/20	major_frequency=5.946e-01	minor_base=G	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=4.054e-01	polymorphism_score=17.8	prediction=polymorphism	ref_cov=2/20	total_cov=17/20
RA	79	.	NZ_CP009273	2354816	0	A	C	bias_e_value=23554.1	bias_p_value=0.00508567	consensus_reject=FREQUENCY_CUTOFF	consensus_score=10.0	fisher_strand_p_value=0.110767	frequency=5.789e-01	ks_quality_p_value=0.0054588	major_base=C	major_cov=1/10	major_frequency=5.789e-01	minor_base=A	minor_cov=4/4	new_cov=1/10	polymorphism_frequency=5.789e-01	polymorphism_score=17.7	prediction=polymorphism	ref_cov=4/4	total_cov=5/14
RA	80	.	NZ_CP009273	2380341	0	G	A	bias_e_value=14.4611	bias_p_value=3.12237e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=80.4	fisher_strand_p_value=1.89475e-07	frequency=2.703e-01	ks_quality_p_value=1	major_base=G	major_cov=2/25	major_frequency=7.297e-01	minor_base=A	minor_cov=10/0	new_cov=10/0	polymorphism_frequency=2.703e-01	polymorphism_score=11.5	prediction=polymorphism	ref_cov=2/25	total_cov=12/25
RA	81	.	NZ_CP009273	2428361	0	T	G	bias_e_value=0.490912	bias_p_value=1.05995e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=65.7	fisher_strand_p_value=5.28428e-09	frequency=4.468e-01	ks_quality_p_value=1	major_base=T	major_cov=5/21	major_frequency=5.532e-01	minor_base=G	minor_cov=21/0	new_cov=21/0	polymorphism_frequency=4.468e-01	polymorphism_score=17.0	prediction=polymorphism	ref_cov=5/21	total_cov=26/21
RA	82	.	NZ_CP009273	2475237	0	C	T	bias_e_value=74.5018	bias_p_value=1.6086e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=122.9	fisher_strand_p_value=1.09226e-06	frequency=2.245e-01	ks_quality_p_value=1	major_base=C	major_cov=31/7	major_frequency=7.755e-01	minor_base=T	minor_cov=0/11	new_cov=0/11	polymorphism_frequency=2.245e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=31/7	total_cov=31/18
RA	83	.	NZ_CP009273	2544652	0	T	A	bias_e_value=628.433	bias_p_value=0.000135688	consensus_reject=FREQUENCY_CUTOFF	consensus_score=84.2	fisher_strand_p_value=1.09207e-05	frequency=3.256e-01	ks_quality_p_value=1	major_base=T	major_cov=20/9	major_frequency=6.744e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=3.256e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=20/9	total_cov=20/23
RA	84	.	NZ_CP009273	2617911	0	A	T	bias_e_value=1218.66	bias_p_value=0.000263126	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.7	fisher_strand_p_value=2.24842e-05	frequency=2.826e-01	ks_quality_p_value=1	major_base=A	major_cov=10/23	major_frequency=7.174e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.826e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=10/23	total_cov=23/23
RA	85	.	NZ_CP009273	2840064	0	G	C	bias_e_value=553.301	bias_p_value=0.000119466	consensus_reject=FREQUENCY_CUTOFF	consensus_score=95.3	fisher_strand_p_value=9.50913e-06	frequency=3.043e-01	ks_quality_p_value=1	major_base=G	major_cov=10/22	major_frequency=6.957e-01	minor_base=C	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=3.043e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=10/22	total_cov=24/22
RA	86	.	NZ_CP009273	2885554	0	A	T	bias_e_value=168.992	bias_p_value=3.64877e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=95.2	fisher_strand_p_value=2.67594e-06	frequency=3.226e-01	ks_quality_p_value=0.984756	major_base=A	major_cov=17/25	major_frequency=6.774e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.226e-01	polymorphism_score=18.1	prediction=polymorphism	ref_cov=17/25	total_cov=37/25
RA	87	.	NZ_CP009273	2885594	0	A	T	bias_e_value=1094.38	bias_p_value=0.000236292	consensus_reject=FREQUENCY_CUTOFF	consensus_score=116.2	fisher_strand_p_value=1.99904e-05	frequency=2.787e-01	ks_quality_p_value=1	major_base=A	major_cov=19/25	major_frequency=7.213e-01	minor_base=T	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.787e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=19/25	total_cov=36/25
RA	88	.	NZ_CP009273	2885602	0	C	T	bias_e_value=39.7088	bias_p_value=8.57369e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=99.1	fisher_strand_p_value=5.96774e-07	frequency=3.390e-01	ks_quality_p_value=0.932827	major_base=C	major_cov=14/25	major_frequency=6.610e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.390e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=14/25	total_cov=36/25
RA	89	.	NZ_CP009273	2897045	0	G	T	bias_e_value=0.106378	bias_p_value=2.29686e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=137.9	fisher_strand_p_value=1.06018e-09	frequency=3.077e-01	ks_quality_p_value=1	major_base=G	major_cov=10/35	major_frequency=6.923e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.077e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=10/35	total_cov=30/35
RA	90	.	NZ_CP009273	2897051	0	C	A	bias_e_value=1.60227e-10	bias_p_value=3.45952e-17	consensus_reject=FREQUENCY_CUTOFF	consensus_score=91.4	fisher_strand_p_value=8.93839e-19	frequency=4.375e-01	ks_quality_p_value=0.907354	major_base=C	major_cov=0/36	major_frequency=5.625e-01	minor_base=A	minor_cov=28/0	new_cov=28/0	polymorphism_frequency=4.375e-01	polymorphism_score=53.6	prediction=polymorphism	ref_cov=0/36	total_cov=28/36
RA	91	.	NZ_CP009273	2897061	0	G	A	bias_e_value=0.000233349	bias_p_value=5.03833e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=109.2	fisher_strand_p_value=2.05399e-12	frequency=3.051e-01	ks_quality_p_value=0.874643	major_base=G	major_cov=3/38	major_frequency=6.949e-01	minor_base=A	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.051e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=3/38	total_cov=27/38
RA	92	.	NZ_CP009273	2897074	0	G	A	bias_e_value=0.000243143	bias_p_value=5.24981e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=120.9	fisher_strand_p_value=1.87476e-12	frequency=3.077e-01	ks_quality_p_value=1	major_base=G	major_cov=5/40	major_frequency=6.923e-01	minor_base=A	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.077e-01	polymorphism_score=39.6	prediction=polymorphism	ref_cov=5/40	total_cov=25/40
RA	93	.	NZ_CP009273	3020273	0	C	A	bias_e_value=34.7827	bias_p_value=7.51008e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=80.8	fisher_strand_p_value=4.9452e-07	frequency=3.478e-01	ks_quality_p_value=0.977078	major_base=C	major_cov=23/7	major_frequency=6.522e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.478e-01	polymorphism_score=14.7	prediction=polymorphism	ref_cov=23/7	total_cov=23/23
RA	94	.	NZ_CP009273	3129140	0	G	T	bias_e_value=12.5373	bias_p_value=2.70699e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=111.1	fisher_strand_p_value=1.62768e-07	frequency=2.549e-01	ks_quality_p_value=1	major_base=G	major_cov=7/31	major_frequency=7.451e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.549e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=7/31	total_cov=20/31
RA	95	.	NZ_CP009273	3152252	0	T	C	bias_e_value=0.232902	bias_p_value=5.02868e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=129.7	fisher_strand_p_value=2.4127e-09	frequency=3.051e-01	ks_quality_p_value=1	major_base=T	major_cov=33/8	major_frequency=6.949e-01	minor_base=C	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=3.051e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=33/8	total_cov=33/26
RA	96	.	NZ_CP009273	3171107	0	C	A	bias_e_value=2.98512	bias_p_value=6.44531e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=126.6	fisher_strand_p_value=3.55043e-08	frequency=2.667e-01	ks_quality_p_value=1	major_base=C	major_cov=34/10	major_frequency=7.333e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.667e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=34/10	total_cov=34/26
RA	97	.	NZ_CP009273	3199794	0	C	T	bias_e_value=1.48053	bias_p_value=3.19667e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=83.0	fisher_strand_p_value=1.69182e-08	frequency=2.766e-01	ks_quality_p_value=1	major_base=C	major_cov=4/30	major_frequency=7.234e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.766e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=4/30	total_cov=17/31
RA	98	.	NZ_CP009273	3199805	0	C	A	bias_e_value=1573270	bias_p_value=0.339691	consensus_reject=FREQUENCY_CUTOFF	consensus_score=72.1	fisher_strand_p_value=0.104133	frequency=3.061e-01	ks_quality_p_value=1	major_base=C	major_cov=9/25	major_frequency=6.939e-01	minor_base=A	minor_cov=8/7	new_cov=8/7	polymorphism_frequency=3.061e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=9/25	total_cov=18/32
RA	99	.	NZ_CP009273	3273765	0	C	A	bias_e_value=441.693	bias_p_value=9.53679e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.1	fisher_strand_p_value=7.44607e-06	frequency=2.444e-01	ks_quality_p_value=1	major_base=C	major_cov=26/8	major_frequency=7.556e-01	minor_base=A	minor_cov=0/11	new_cov=0/11	polymorphism_frequency=2.444e-01	polymorphism_score=11.5	prediction=polymorphism	ref_cov=26/8	total_cov=26/20
RA	100	.	NZ_CP009273	3301814	0	T	A	bias_e_value=37.6177	bias_p_value=8.1222e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=121.9	fisher_strand_p_value=5.25399e-07	frequency=2.807e-01	ks_quality_p_value=1	major_base=T	major_cov=29/12	major_frequency=7.193e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.807e-01	polymorphism_score=11.3	prediction=polymorphism	ref_cov=29/12	total_cov=29/28
RA	101	.	NZ_CP009273	3381045	0	G	A	bias_e_value=0.129038	bias_p_value=2.78612e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=128.8	fisher_strand_p_value=1.30129e-09	frequency=2.812e-01	ks_quality_p_value=0.997587	major_base=G	major_cov=37/9	major_frequency=7.188e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=2.812e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=37/9	total_cov=37/27
RA	102	.	NZ_CP009273	3406257	0	C	T	bias_e_value=19.9266	bias_p_value=4.30243e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=87.7	fisher_strand_p_value=2.66611e-07	frequency=2.826e-01	ks_quality_p_value=1	major_base=C	major_cov=27/6	major_frequency=7.174e-01	minor_base=T	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.826e-01	polymorphism_score=19.9	prediction=polymorphism	ref_cov=27/6	total_cov=27/19
RA	103	.	NZ_CP009273	3406265	0	T	A	bias_e_value=0.104818	bias_p_value=2.26316e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=86.8	fisher_strand_p_value=1.04388e-09	frequency=3.182e-01	ks_quality_p_value=1	major_base=T	major_cov=28/2	major_frequency=6.818e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=3.182e-01	polymorphism_score=17.4	prediction=polymorphism	ref_cov=28/2	total_cov=28/16
RA	104	.	NZ_CP009273	3562103	0	G	T	bias_e_value=57.6595	bias_p_value=1.24495e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=110.7	fisher_strand_p_value=8.29855e-07	frequency=3.061e-01	ks_quality_p_value=1	major_base=G	major_cov=25/9	major_frequency=6.939e-01	minor_base=T	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=3.061e-01	polymorphism_score=14.7	prediction=polymorphism	ref_cov=25/9	total_cov=25/24
RA	105	.	NZ_CP009273	3588670	0	G	A	bias_e_value=134110	bias_p_value=0.0289563	consensus_reject=FREQUENCY_CUTOFF	consensus_score=43.1	fisher_strand_p_value=0.00452587	frequency=3.438e-01	ks_quality_p_value=1	major_base=G	major_cov=11/10	major_frequency=6.562e-01	minor_base=A	minor_cov=0/11	new_cov=0/11	polymorphism_frequency=3.438e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=11/10	total_cov=11/21
RA	106	.	NZ_CP009273	3659058	0	T	C	bias_e_value=5.39252	bias_p_value=1.16432e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=123.3	fisher_strand_p_value=6.64298e-08	frequency=2.759e-01	ks_quality_p_value=1	major_base=T	major_cov=32/10	major_frequency=7.241e-01	minor_base=C	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.759e-01	polymorphism_score=13.8	prediction=polymorphism	ref_cov=32/10	total_cov=32/29
RA	107	.	NZ_CP009273	3659062	0	C	A	bias_e_value=3.1356	bias_p_value=6.77022e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=110.1	fisher_strand_p_value=3.74013e-08	frequency=3.000e-01	ks_quality_p_value=1	major_base=C	major_cov=31/11	major_frequency=7.000e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=3.000e-01	polymorphism_score=14.0	prediction=polymorphism	ref_cov=31/11	total_cov=31/29
RA	108	.	NZ_CP009273	3725073	0	G	A	bias_e_value=0.345756	bias_p_value=7.46535e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=70.8	fisher_strand_p_value=3.6546e-09	frequency=3.846e-01	ks_quality_p_value=1	major_base=G	major_cov=26/6	major_frequency=6.154e-01	minor_base=A	minor_cov=0/20	new_cov=0/20	polymorphism_frequency=3.846e-01	polymorphism_score=20.2	prediction=polymorphism	ref_cov=26/6	total_cov=26/26
RA	109	.	NZ_CP009273	3725084	0	G	A	bias_e_value=0.00376576	bias_p_value=8.13081e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=84.7	fisher_strand_p_value=3.23225e-11	frequency=4.151e-01	ks_quality_p_value=1	major_base=G	major_cov=27/4	major_frequency=5.849e-01	minor_base=A	minor_cov=0/22	new_cov=0/22	polymorphism_frequency=4.151e-01	polymorphism_score=14.9	prediction=polymorphism	ref_cov=27/4	total_cov=27/26
RA	110	.	NZ_CP009273	3823685	0	G	A	bias_e_value=52.6874	bias_p_value=1.1376e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=50.2	fisher_strand_p_value=7.53444e-07	frequency=4.091e-01	ks_quality_p_value=1	major_base=G	major_cov=19/7	major_frequency=5.909e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=4.091e-01	polymorphism_score=18.6	prediction=polymorphism	ref_cov=19/7	total_cov=19/25
RA	111	.	NZ_CP009273	3961359	0	A	.	consensus_score=234.6	frequency=1	major_base=.	major_cov=20/29	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=20/29	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=20/29
RA	112	.	NZ_CP009273	4034122	0	C	G	bias_e_value=382.983	bias_p_value=8.26915e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=80.7	fisher_strand_p_value=6.37931e-06	frequency=2.927e-01	ks_quality_p_value=1	major_base=C	major_cov=22/7	major_frequency=7.073e-01	minor_base=G	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.927e-01	polymorphism_score=12.9	prediction=polymorphism	ref_cov=22/7	total_cov=22/19
RA	113	.	NZ_CP009273	4034125	0	A	G	bias_e_value=6.94105	bias_p_value=1.49867e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=63.3	fisher_strand_p_value=8.68328e-08	frequency=3.415e-01	ks_quality_p_value=1	major_base=A	major_cov=23/4	major_frequency=6.585e-01	minor_base=G	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=3.415e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=23/4	total_cov=23/19
RA	114	.	NZ_CP009273	4049475	0	A	C	bias_e_value=1.59956	bias_p_value=3.45367e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=93.9	fisher_strand_p_value=1.83577e-08	frequency=4.032e-01	ks_quality_p_value=1	major_base=A	major_cov=25/12	major_frequency=5.968e-01	minor_base=C	minor_cov=0/25	new_cov=0/25	polymorphism_frequency=4.032e-01	polymorphism_score=14.1	prediction=polymorphism	ref_cov=25/12	total_cov=25/37
RA	115	.	NZ_CP009273	4081817	0	G	T	bias_e_value=3.09002	bias_p_value=6.67179e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=88.3	fisher_strand_p_value=3.6826e-08	frequency=3.830e-01	ks_quality_p_value=1	major_base=G	major_cov=6/23	major_frequency=6.170e-01	minor_base=T	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.830e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=6/23	total_cov=24/23
RA	116	.	NZ_CP009273	4091442	0	G	T	bias_e_value=3.18744	bias_p_value=6.88215e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=106.8	fisher_strand_p_value=3.80561e-08	frequency=2.885e-01	ks_quality_p_value=1	major_base=G	major_cov=7/30	major_frequency=7.115e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=2.885e-01	polymorphism_score=12.5	prediction=polymorphism	ref_cov=7/30	total_cov=22/30
RA	117	.	NZ_CP009273	4101675	0	G	T	bias_e_value=0.0283694	bias_p_value=6.12536e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=111.6	fisher_strand_p_value=2.65761e-10	frequency=3.261e-01	ks_quality_p_value=1	major_base=G	major_cov=29/2	major_frequency=6.739e-01	minor_base=T	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=3.261e-01	polymorphism_score=16.5	prediction=polymorphism	ref_cov=29/2	total_cov=29/17
RA	118	.	NZ_CP009273	4151070	0	C	A	bias_e_value=0.104132	bias_p_value=2.24835e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=160.8	fisher_strand_p_value=1.03672e-09	frequency=2.222e-01	ks_quality_p_value=1	major_base=C	major_cov=43/6	major_frequency=7.778e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.222e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=43/6	total_cov=43/20
RA	119	.	NZ_CP009273	4161810	0	C	G	bias_e_value=7.09064	bias_p_value=1.53097e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=116.6	fisher_strand_p_value=8.88206e-08	frequency=2.500e-01	ks_quality_p_value=1	major_base=C	major_cov=31/5	major_frequency=7.500e-01	minor_base=G	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.500e-01	polymorphism_score=17.6	prediction=polymorphism	ref_cov=31/5	total_cov=31/17
RA	120	.	NZ_CP009273	4265885	0	A	G	bias_e_value=74.9863	bias_p_value=1.61906e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=63.9	fisher_strand_p_value=1.09988e-06	frequency=3.415e-01	ks_quality_p_value=1	major_base=A	major_cov=6/21	major_frequency=6.585e-01	minor_base=G	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=3.415e-01	polymorphism_score=13.9	prediction=polymorphism	ref_cov=6/21	total_cov=20/21
RA	121	.	NZ_CP009273	4277638	0	G	A	bias_e_value=2.47327	bias_p_value=5.34013e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=45.7	fisher_strand_p_value=2.90974e-08	frequency=3.810e-01	ks_quality_p_value=1	major_base=G	major_cov=22/4	major_frequency=6.190e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.810e-01	polymorphism_score=23.5	prediction=polymorphism	ref_cov=22/4	total_cov=22/20
RA	122	.	NZ_CP009273	4277647	0	T	A	bias_e_value=1.25504	bias_p_value=2.70982e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=49.8	fisher_strand_p_value=1.42104e-08	frequency=4.186e-01	ks_quality_p_value=1	major_base=T	major_cov=21/4	major_frequency=5.814e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=4.186e-01	polymorphism_score=26.0	prediction=polymorphism	ref_cov=21/4	total_cov=21/22
RA	123	.	NZ_CP009273	4323527	0	G	T	bias_e_value=4631470	bias_p_value=1	consensus_score=199.5	fisher_strand_p_value=1	frequency=1	ks_quality_p_value=0.999216	major_base=T	major_cov=25/25	major_frequency=9.804e-01	minor_base=G	minor_cov=1/0	new_cov=25/25	polymorphism_frequency=9.804e-01	polymorphism_score=-5.9	prediction=consensus	ref_cov=1/0	total_cov=26/25
RA	124	.	NZ_CP009273	4326718	0	T	A	bias_e_value=0.353761	bias_p_value=7.6382e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.3	fisher_strand_p_value=4.86221e-09	frequency=2.941e-01	ks_quality_p_value=0.769944	major_base=T	major_cov=31/5	major_frequency=7.059e-01	minor_base=A	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.941e-01	polymorphism_score=12.7	prediction=polymorphism	ref_cov=31/5	total_cov=31/20
RA	125	.	NZ_CP009273	4511223	0	A	T	bias_e_value=5.87133	bias_p_value=1.2677e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=68.1	fisher_strand_p_value=7.27024e-08	frequency=3.333e-01	ks_quality_p_value=1	major_base=A	major_cov=2/22	major_frequency=6.667e-01	minor_base=T	minor_cov=12/0	new_cov=12/0	polymorphism_frequency=3.333e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=2/22	total_cov=14/22
RA	126	.	NZ_CP009273	4526014	0	A	T	bias_e_value=4.98558e-06	bias_p_value=1.07646e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=113.4	fisher_strand_p_value=3.36143e-14	frequency=2.909e-01	ks_quality_p_value=1	major_base=A	major_cov=0/39	major_frequency=7.091e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.909e-01	polymorphism_score=26.4	prediction=polymorphism	ref_cov=0/39	total_cov=16/39
RA	127	.	NZ_CP009273	4526024	0	G	A	bias_e_value=239.649	bias_p_value=5.17437e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=102.5	fisher_strand_p_value=3.84151e-06	frequency=2.941e-01	ks_quality_p_value=1	major_base=G	major_cov=4/32	major_frequency=7.059e-01	minor_base=A	minor_cov=12/3	new_cov=12/3	polymorphism_frequency=2.941e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=4/32	total_cov=16/35
RA	128	.	NZ_CP009273	4526064	0	G	T	bias_e_value=3.42126	bias_p_value=7.387e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=127.9	fisher_strand_p_value=4.10178e-08	frequency=2.321e-01	ks_quality_p_value=1	major_base=G	major_cov=7/36	major_frequency=7.679e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.321e-01	polymorphism_score=11.5	prediction=polymorphism	ref_cov=7/36	total_cov=20/36
RA	129	.	NZ_CP009273	4570447	0	A	T	bias_e_value=2.48967	bias_p_value=5.37556e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=72.1	fisher_strand_p_value=2.93016e-08	frequency=3.500e-01	ks_quality_p_value=1	major_base=A	major_cov=3/23	major_frequency=6.500e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=3.500e-01	polymorphism_score=14.3	prediction=polymorphism	ref_cov=3/23	total_cov=17/23
RA	130	.	NZ_CP009273	4584321	0	T	C	bias_e_value=224.063	bias_p_value=4.83784e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=114.3	fisher_strand_p_value=3.5724e-06	frequency=2.881e-01	ks_quality_p_value=1	major_base=T	major_cov=27/15	major_frequency=7.119e-01	minor_base=C	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=2.881e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=27/15	total_cov=27/32
RA	131	.	NZ_CP009273	4594161	0	C	T	bias_e_value=5.73932	bias_p_value=1.2392e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=94.1	fisher_strand_p_value=7.09695e-08	frequency=3.077e-01	ks_quality_p_value=1	major_base=C	major_cov=8/28	major_frequency=6.923e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.077e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=8/28	total_cov=24/28
RA	132	.	NZ_CP009273	4594167	0	C	T	bias_e_value=1.38527	bias_p_value=2.99099e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=90.4	fisher_strand_p_value=1.5771e-08	frequency=3.269e-01	ks_quality_p_value=1	major_base=C	major_cov=7/28	major_frequency=6.731e-01	minor_base=T	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=3.269e-01	polymorphism_score=15.0	prediction=polymorphism	ref_cov=7/28	total_cov=24/28
RA	133	.	NZ_CP009273	4612067	0	A	G	bias_e_value=0.00400361	bias_p_value=8.64437e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=113.3	fisher_strand_p_value=3.44514e-11	frequency=3.214e-01	ks_quality_p_value=1	major_base=A	major_cov=4/34	major_frequency=6.786e-01	minor_base=G	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.214e-01	polymorphism_score=17.2	prediction=polymorphism	ref_cov=4/34	total_cov=22/34
MC	134	.	NZ_CP009273	3624595	3646446	0	1056	left_inside_cov=0	left_outside_cov=65	right_inside_cov=24	right_outside_cov=25
JC	135	.	NZ_CP009273	1	1	NZ_CP009273	4631469	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=30	coverage_plus=30	flanking_left=250	flanking_right=250	frequency=1	junction_possible_overlap_registers=246	key=NZ_CP009273__1__1__NZ_CP009273__4631469__-1__0____250__250__0__0	max_left=248	max_left_minus=248	max_left_plus=246	max_min_left=121	max_min_left_minus=111	max_min_left_plus=121	max_min_right=120	max_min_right_minus=120	max_min_right_plus=117	max_pos_hash_score=494	max_right=247	max_right_minus=242	max_right_plus=247	neg_log10_pos_hash_p_value=0.2	new_junction_coverage=1.09	new_junction_read_count=60	polymorphism_frequency=1.000e+00	pos_hash_score=54	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=246	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=246	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=60
JC	136	.	NZ_CP009273	360104	1	NZ_CP009273	360286	-1	0	alignment_overlap=0	coverage_minus=27	coverage_plus=5	flanking_left=250	flanking_right=250	frequency=5.000e-01	junction_possible_overlap_registers=246	key=NZ_CP009273__360104__1__NZ_CP009273__360286__-1__0____250__250__0__0	max_left=238	max_left_minus=238	max_left_plus=128	max_min_left=124	max_min_left_minus=124	max_min_left_plus=107	max_min_right=120	max_min_right_minus=116	max_min_right_plus=120	max_pos_hash_score=494	max_right=236	max_right_minus=236	max_right_plus=162	neg_log10_pos_hash_p_value=1.6	new_junction_coverage=0.60	new_junction_read_count=33	polymorphism_frequency=5.000e-01	pos_hash_score=31	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.52	side_1_overlap=0	side_1_possible_overlap_registers=246	side_1_read_count=29	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.67	side_2_overlap=0	side_2_possible_overlap_registers=246	side_2_read_count=37	side_2_redundant=0	total_non_overlap_reads=32
JC	137	.	NZ_CP009273	1203246	1	NZ_CP009273	1205075	1	0	alignment_overlap=16	coverage_minus=27	coverage_plus=14	flanking_left=250	flanking_right=250	frequency=1	junction_possible_overlap_registers=230	key=NZ_CP009273__1203246__1__NZ_CP009273__1205059__1__16____250__250__0__0	max_left=227	max_left_minus=227	max_left_plus=210	max_min_left=113	max_min_left_minus=107	max_min_left_plus=113	max_min_right=115	max_min_right_minus=115	max_min_right_plus=114	max_pos_hash_score=462	max_right=231	max_right_minus=217	max_right_plus=231	neg_log10_pos_hash_p_value=0.6	new_junction_coverage=0.79	new_junction_read_count=41	polymorphism_frequency=8.412e-01	pos_hash_score=40	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.14	side_1_overlap=16	side_1_possible_overlap_registers=246	side_1_read_count=8	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.15	side_2_overlap=0	side_2_possible_overlap_registers=230	side_2_read_count=8	side_2_redundant=0	total_non_overlap_reads=41
JC	138	.	NZ_CP009273	1203261	-1	NZ_CP009273	1205058	-1	0	alignment_overlap=16	coverage_minus=22	coverage_plus=21	flanking_left=250	flanking_right=250	frequency=1	junction_possible_overlap_registers=230	key=NZ_CP009273__1203261__-1__NZ_CP009273__1205074__-1__16____250__250__0__0	max_left=232	max_left_minus=224	max_left_plus=232	max_min_left=108	max_min_left_minus=101	max_min_left_plus=108	max_min_right=101	max_min_right_minus=89	max_min_right_plus=101	max_pos_hash_score=462	max_right=227	max_right_minus=217	max_right_plus=227	neg_log10_pos_hash_p_value=0.4	new_junction_coverage=0.83	new_junction_read_count=43	polymorphism_frequency=8.475e-01	pos_hash_score=43	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.14	side_1_overlap=16	side_1_possible_overlap_registers=246	side_1_read_count=8	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.15	side_2_overlap=0	side_2_possible_overlap_registers=230	side_2_read_count=8	side_2_redundant=0	total_non_overlap_reads=43
JC	139	.	NZ_CP009273	3300194	-1	NZ_CP009273	3300195	1	-9	alignment_overlap=-9	coverage_minus=35	coverage_plus=29	flanking_left=250	flanking_right=250	frequency=1	junction_possible_overlap_registers=237	key=NZ_CP009273__3300194__-1__NZ_CP009273__3300195__1__-9__GCACGACCC__250__250__0__0	max_left=229	max_left_minus=229	max_left_plus=213	max_min_left=100	max_min_left_minus=100	max_min_left_plus=96	max_min_right=119	max_min_right_minus=92	max_min_right_plus=119	max_pos_hash_score=442	max_right=238	max_right_minus=224	max_right_plus=238	neg_log10_pos_hash_p_value=0.0	new_junction_coverage=1.22	new_junction_read_count=65	polymorphism_frequency=1.000e+00	pos_hash_score=60	prediction=consensus	side_1_annotate_key=gene	side_1_continuation=17	side_1_coverage=0.00	side_1_overlap=0	side_1_possible_overlap_registers=229	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=246	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=64	unique_read_sequence=GCACGACCC
JC	140	.	NZ_CP009273	3416618	1	NZ_CP009273	3416648	-1	-152	alignment_overlap=-152	coverage_minus=4	coverage_plus=0	flanking_left=250	flanking_right=250	frequency=3.224e-01	junction_possible_overlap_registers=94	key=NZ_CP009273__3416618__1__NZ_CP009273__3416648__-1__-152__GAATTAATTCCCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGG__250__250__0__0	max_left=89	max_left_minus=89	max_left_plus=0	max_min_left=0	max_min_left_minus=0	max_min_left_plus=0	max_min_right=31	max_min_right_minus=31	max_min_right_plus=0	max_pos_hash_score=190	max_right=31	max_right_minus=31	max_right_plus=0	neg_log10_pos_hash_p_value=3.7	new_junction_coverage=0.19	new_junction_read_count=4	polymorphism_frequency=3.224e-01	pos_hash_score=4	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.43	side_1_overlap=0	side_1_possible_overlap_registers=246	side_1_read_count=24	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.36	side_2_overlap=0	side_2_possible_overlap_registers=246	side_2_read_count=20	side_2_redundant=0	total_non_overlap_reads=4	unique_read_sequence=GAATTAATTCCCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGG
JC	141	.	NZ_CP009273	3624594	-1	NZ_CP009273	3645396	1	0	alignment_overlap=0	coverage_minus=36	coverage_plus=23	flanking_left=250	flanking_right=250	frequency=1	junction_possible_overlap_registers=246	key=NZ_CP009273__3624594__-1__NZ_CP009273__3645396__1__0____250__250__0__1	max_left=246	max_left_minus=242	max_left_plus=246	max_min_left=115	max_min_left_minus=110	max_min_left_plus=115	max_min_right=122	max_min_right_minus=122	max_min_right_plus=94	max_pos_hash_score=494	max_right=238	max_right_minus=233	max_right_plus=238	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.18	new_junction_read_count=65	polymorphism_frequency=1.000e+00	pos_hash_score=55	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=246	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=59
UN	142	.	NZ_CP009273	15597	16498
UN	143	.	NZ_CP009273	16507	16507
UN	144	.	NZ_CP009273	19990	19990
UN	145	.	NZ_CP009273	19993	20346
UN	146	.	NZ_CP009273	20348	20348
UN	147	.	NZ_CP009273	20350	20351
UN	148	.	NZ_CP009273	220462	221048
UN	149	.	NZ_CP009273	221050	221050
UN	150	.	NZ_CP009273	221604	221849
UN	151	.	NZ_CP009273	221851	221851
UN	152	.	NZ_CP009273	223696	224936
UN	153	.	NZ_CP009273	224939	224939
UN	154	.	NZ_CP009273	266469	266787
UN	155	.	NZ_CP009273	269897	270652
UN	156	.	NZ_CP009273	275095	275414
UN	157	.	NZ_CP009273	286554	286879
UN	158	.	NZ_CP009273	311163	311163
UN	159	.	NZ_CP009273	311166	311975
UN	160	.	NZ_CP009273	353601	353601
UN	161	.	NZ_CP009273	366198	366198
UN	162	.	NZ_CP009273	366204	366992
UN	163	.	NZ_CP009273	376947	377821
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UN	168	.	NZ_CP009273	563265	563265
UN	169	.	NZ_CP009273	570270	571010
UN	170	.	NZ_CP009273	603673	604593
UN	171	.	NZ_CP009273	681510	681510
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UN	174	.	NZ_CP009273	1089935	1090755
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UN	179	.	NZ_CP009273	1463780	1464538
UN	180	.	NZ_CP009273	1522801	1523224
UN	181	.	NZ_CP009273	1565350	1565374
UN	182	.	NZ_CP009273	1565382	1565382
UN	183	.	NZ_CP009273	1628588	1628672
UN	184	.	NZ_CP009273	1645305	1645571
UN	185	.	NZ_CP009273	1645573	1645573
UN	186	.	NZ_CP009273	2060415	2060558
UN	187	.	NZ_CP009273	2062649	2063537
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UN	189	.	NZ_CP009273	2163881	2164690
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UN	193	.	NZ_CP009273	2719648	2722396
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UN	195	.	NZ_CP009273	2989951	2990821
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UN	199	.	NZ_CP009273	3179684	3180560
UN	200	.	NZ_CP009273	3359135	3359894
UN	201	.	NZ_CP009273	3417243	3417783
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UN	203	.	NZ_CP009273	3420395	3421692
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UN	208	.	NZ_CP009273	3612844	3612845
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UN	225	.	NZ_CP009273	4156445	4157930
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UN	232	.	NZ_CP009273	4488224	4489094
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UN	235	.	NZ_CP009273	4497498	4498280
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