#=GENOME_DIFF	1.0
#=CREATED	17:06:12 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/SRR9723008_R1.good.fq /var/alemutpipe-outputs/good/SRR9723008_R2.good.fq
#=REFSEQ	/var/data/NZ_CP009273_1.gb
#=READSEQ	/var/alemutpipe-outputs/good/SRR9723008_R1.good.fq
#=READSEQ	/var/alemutpipe-outputs/good/SRR9723008_R2.good.fq
#=CONVERTED-BASES	304354388
#=CONVERTED-READS	1223224
#=INPUT-BASES	304354388
#=INPUT-READS	1223224
#=MAPPED-BASES	297398055
#=MAPPED-READS	1195746
SNP	1	37	NZ_CP009273	874860	A
SNP	2	61	NZ_CP009273	1431900	A
DEL	3	94	NZ_CP009273	2860760	1
SNP	4	117	NZ_CP009273	3336630	T
SNP	5	145	NZ_CP009273	3962116	A
RA	6	.	NZ_CP009273	5159	0	G	A	bias_e_value=0.00608779	bias_p_value=1.31444e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=105.5	fisher_strand_p_value=5.33137e-11	frequency=2.653e-01	ks_quality_p_value=1	major_base=G	major_cov=35/1	major_frequency=7.347e-01	minor_base=A	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.653e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=35/1	total_cov=35/14
RA	7	.	NZ_CP009273	17000	0	C	T	bias_e_value=1.40102	bias_p_value=3.025e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=90.1	fisher_strand_p_value=2.72855e-08	frequency=2.830e-01	ks_quality_p_value=0.58494	major_base=C	major_cov=31/7	major_frequency=7.170e-01	minor_base=T	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.830e-01	polymorphism_score=13.8	prediction=polymorphism	ref_cov=31/7	total_cov=31/22
RA	8	.	NZ_CP009273	29486	0	C	A	bias_e_value=17.0358	bias_p_value=3.67826e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=152.5	fisher_strand_p_value=2.25598e-07	frequency=2.143e-01	ks_quality_p_value=1	major_base=C	major_cov=36/8	major_frequency=7.857e-01	minor_base=A	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.143e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=36/8	total_cov=36/20
RA	9	.	NZ_CP009273	71566	0	C	T	bias_e_value=0.108816	bias_p_value=2.34949e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=89.1	fisher_strand_p_value=1.08566e-09	frequency=3.191e-01	ks_quality_p_value=1	major_base=C	major_cov=3/29	major_frequency=6.809e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.191e-01	polymorphism_score=18.6	prediction=polymorphism	ref_cov=3/29	total_cov=18/29
RA	10	.	NZ_CP009273	117994	0	A	T	bias_e_value=0.0180807	bias_p_value=3.90388e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=116.2	fisher_strand_p_value=1.65987e-10	frequency=3.385e-01	ks_quality_p_value=1	major_base=A	major_cov=9/34	major_frequency=6.615e-01	minor_base=T	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=3.385e-01	polymorphism_score=26.4	prediction=polymorphism	ref_cov=9/34	total_cov=31/34
RA	11	.	NZ_CP009273	118066	0	G	T	bias_e_value=11.0251	bias_p_value=2.38048e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=173.2	fisher_strand_p_value=1.41968e-07	frequency=2.615e-01	ks_quality_p_value=1	major_base=G	major_cov=14/34	major_frequency=7.385e-01	minor_base=T	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.615e-01	polymorphism_score=17.2	prediction=polymorphism	ref_cov=14/34	total_cov=32/34
RA	12	.	NZ_CP009273	262060	0	C	A	bias_e_value=1.94016	bias_p_value=4.18908e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=125.9	fisher_strand_p_value=2.41084e-08	frequency=3.000e-01	ks_quality_p_value=0.933727	major_base=C	major_cov=6/29	major_frequency=7.000e-01	minor_base=A	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.000e-01	polymorphism_score=18.6	prediction=polymorphism	ref_cov=6/29	total_cov=22/29
RA	13	.	NZ_CP009273	262069	0	T	G	bias_e_value=0.135915	bias_p_value=2.9346e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=119.1	fisher_strand_p_value=1.3708e-09	frequency=3.019e-01	ks_quality_p_value=1	major_base=T	major_cov=5/32	major_frequency=6.981e-01	minor_base=G	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.019e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=5/32	total_cov=21/32
RA	14	.	NZ_CP009273	295837	0	A	G	bias_e_value=2489.67	bias_p_value=0.000537555	consensus_reject=FREQUENCY_CUTOFF	consensus_score=83.0	fisher_strand_p_value=4.92313e-05	frequency=2.963e-01	ks_quality_p_value=1	major_base=A	major_cov=10/28	major_frequency=7.037e-01	minor_base=G	minor_cov=14/2	new_cov=14/2	polymorphism_frequency=2.963e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=10/28	total_cov=24/30
RA	15	.	NZ_CP009273	328702	0	G	T	bias_e_value=1989.76	bias_p_value=0.000429618	consensus_reject=FREQUENCY_CUTOFF	consensus_score=108.5	fisher_strand_p_value=3.84775e-05	frequency=2.951e-01	ks_quality_p_value=1	major_base=G	major_cov=16/27	major_frequency=7.049e-01	minor_base=T	minor_cov=17/1	new_cov=17/1	polymorphism_frequency=2.951e-01	polymorphism_score=14.3	prediction=polymorphism	ref_cov=16/27	total_cov=33/28
RA	16	.	NZ_CP009273	328711	0	A	G	bias_e_value=10.0714	bias_p_value=2.17456e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=110.1	fisher_strand_p_value=1.28948e-07	frequency=3.279e-01	ks_quality_p_value=1	major_base=A	major_cov=13/28	major_frequency=6.721e-01	minor_base=G	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.279e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=13/28	total_cov=33/28
RA	17	.	NZ_CP009273	339165	0	A	G	bias_e_value=5.4694	bias_p_value=1.18092e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=76.4	fisher_strand_p_value=6.74346e-08	frequency=3.409e-01	ks_quality_p_value=1	major_base=A	major_cov=5/24	major_frequency=6.591e-01	minor_base=G	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.409e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=5/24	total_cov=20/24
RA	18	.	NZ_CP009273	341039	0	C	A	bias_e_value=0.0140919	bias_p_value=3.04264e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=118.6	fisher_strand_p_value=1.27953e-10	frequency=2.800e-01	ks_quality_p_value=1	major_base=C	major_cov=34/2	major_frequency=7.200e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.800e-01	polymorphism_score=13.6	prediction=polymorphism	ref_cov=34/2	total_cov=34/16
RA	19	.	NZ_CP009273	357394	0	C	T	bias_e_value=80.903	bias_p_value=1.74681e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=157.2	fisher_strand_p_value=1.19327e-06	frequency=2.338e-01	ks_quality_p_value=1	major_base=C	major_cov=18/41	major_frequency=7.662e-01	minor_base=T	minor_cov=17/1	new_cov=17/1	polymorphism_frequency=2.338e-01	polymorphism_score=12.2	prediction=polymorphism	ref_cov=18/41	total_cov=35/42
RA	20	.	NZ_CP009273	357419	0	A	T	bias_e_value=1.58388	bias_p_value=3.41982e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=217.1	fisher_strand_p_value=1.81677e-08	frequency=2.099e-01	ks_quality_p_value=1	major_base=A	major_cov=17/47	major_frequency=7.901e-01	minor_base=T	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.099e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=17/47	total_cov=34/47
RA	21	.	NZ_CP009273	443152	0	T	A	bias_e_value=0.208571	bias_p_value=4.50334e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=90.6	fisher_strand_p_value=2.1487e-09	frequency=3.333e-01	ks_quality_p_value=1	major_base=T	major_cov=28/4	major_frequency=6.667e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.333e-01	polymorphism_score=15.8	prediction=polymorphism	ref_cov=28/4	total_cov=28/20
RA	22	.	NZ_CP009273	497020	0	A	C	bias_e_value=0.213741	bias_p_value=4.61498e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=139.9	fisher_strand_p_value=2.20468e-09	frequency=2.308e-01	ks_quality_p_value=1	major_base=A	major_cov=37/3	major_frequency=7.692e-01	minor_base=C	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.308e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=37/3	total_cov=37/16
RA	23	.	NZ_CP009273	542217	0	G	A	bias_e_value=2.54879	bias_p_value=5.5032e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=141.8	fisher_strand_p_value=3.0038e-08	frequency=2.951e-01	ks_quality_p_value=1	major_base=G	major_cov=35/8	major_frequency=7.049e-01	minor_base=A	minor_cov=1/17	new_cov=1/17	polymorphism_frequency=2.951e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=35/8	total_cov=36/25
RA	24	.	NZ_CP009273	552843	0	C	T	bias_e_value=30.2058	bias_p_value=6.52187e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=150.6	fisher_strand_p_value=4.15575e-07	frequency=2.105e-01	ks_quality_p_value=1	major_base=C	major_cov=36/9	major_frequency=7.895e-01	minor_base=T	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.105e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=36/9	total_cov=36/21
RA	25	.	NZ_CP009273	554632	0	T	A	bias_e_value=8998.44	bias_p_value=0.00194289	consensus_reject=FREQUENCY_CUTOFF	consensus_score=161.1	fisher_strand_p_value=0.000204638	frequency=2.055e-01	ks_quality_p_value=1	major_base=T	major_cov=29/29	major_frequency=7.945e-01	minor_base=A	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.055e-01	polymorphism_score=10.0	prediction=polymorphism	ref_cov=29/29	total_cov=29/44
RA	26	.	NZ_CP009273	556388	0	A	T	bias_e_value=371.958	bias_p_value=8.03111e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=117.5	fisher_strand_p_value=6.18058e-06	frequency=2.453e-01	ks_quality_p_value=1	major_base=A	major_cov=12/28	major_frequency=7.547e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.453e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=12/28	total_cov=25/28
RA	27	.	NZ_CP009273	595032	0	T	G	bias_e_value=0.0169353	bias_p_value=3.65658e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=64.9	fisher_strand_p_value=1.55022e-10	frequency=3.778e-01	ks_quality_p_value=1	major_base=T	major_cov=2/26	major_frequency=6.222e-01	minor_base=G	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=3.778e-01	polymorphism_score=22.5	prediction=polymorphism	ref_cov=2/26	total_cov=19/26
RA	28	.	NZ_CP009273	630548	0	A	T	bias_e_value=0.323276	bias_p_value=6.97998e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=85.4	fisher_strand_p_value=3.40521e-09	frequency=3.415e-01	ks_quality_p_value=1	major_base=A	major_cov=2/25	major_frequency=6.585e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=3.415e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=2/25	total_cov=16/25
RA	29	.	NZ_CP009273	646723	0	A	T	bias_e_value=81.4524	bias_p_value=1.75867e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=96.9	fisher_strand_p_value=1.22135e-06	frequency=3.279e-01	ks_quality_p_value=0.984134	major_base=A	major_cov=16/25	major_frequency=6.721e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.279e-01	polymorphism_score=18.2	prediction=polymorphism	ref_cov=16/25	total_cov=36/25
RA	30	.	NZ_CP009273	653350	0	T	C	bias_e_value=856.198	bias_p_value=0.000184865	consensus_reject=FREQUENCY_CUTOFF	consensus_score=123.7	fisher_strand_p_value=1.52932e-05	frequency=2.281e-01	ks_quality_p_value=1	major_base=T	major_cov=29/15	major_frequency=7.719e-01	minor_base=C	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.281e-01	polymorphism_score=10.0	prediction=polymorphism	ref_cov=29/15	total_cov=29/28
RA	31	.	NZ_CP009273	655396	0	T	A	bias_e_value=0.480552	bias_p_value=1.03758e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=62.8	fisher_strand_p_value=5.16698e-09	frequency=3.333e-01	ks_quality_p_value=1	major_base=T	major_cov=0/22	major_frequency=6.667e-01	minor_base=A	minor_cov=11/0	new_cov=11/0	polymorphism_frequency=3.333e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=0/22	total_cov=11/22
RA	32	.	NZ_CP009273	723480	0	T	A	bias_e_value=4786.93	bias_p_value=0.00103357	consensus_reject=FREQUENCY_CUTOFF	consensus_score=113.9	fisher_strand_p_value=0.000101362	frequency=2.264e-01	ks_quality_p_value=1	major_base=T	major_cov=26/15	major_frequency=7.736e-01	minor_base=A	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.264e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=26/15	total_cov=26/27
RA	33	.	NZ_CP009273	762172	0	G	T	bias_e_value=17331.2	bias_p_value=0.00374205	consensus_reject=FREQUENCY_CUTOFF	consensus_score=62.0	fisher_strand_p_value=0.000427267	frequency=3.256e-01	ks_quality_p_value=1	major_base=G	major_cov=13/16	major_frequency=6.744e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=3.256e-01	polymorphism_score=11.3	prediction=polymorphism	ref_cov=13/16	total_cov=27/16
RA	34	.	NZ_CP009273	792827	0	T	C	bias_e_value=2.68525e-05	bias_p_value=5.79784e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=162.6	fisher_strand_p_value=1.91448e-13	frequency=2.754e-01	ks_quality_p_value=1	major_base=T	major_cov=46/4	major_frequency=7.246e-01	minor_base=C	minor_cov=0/19	new_cov=0/19	polymorphism_frequency=2.754e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=46/4	total_cov=46/23
RA	35	.	NZ_CP009273	797999	0	T	G	bias_e_value=17.0055	bias_p_value=3.67173e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=125.5	fisher_strand_p_value=2.25171e-07	frequency=2.807e-01	ks_quality_p_value=1	major_base=T	major_cov=11/30	major_frequency=7.193e-01	minor_base=G	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.807e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=11/30	total_cov=27/30
RA	36	.	NZ_CP009273	858015	0	G	T	bias_e_value=372.369	bias_p_value=8.03997e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=97.5	fisher_strand_p_value=6.18797e-06	frequency=3.137e-01	ks_quality_p_value=1	major_base=G	major_cov=12/23	major_frequency=6.863e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.137e-01	polymorphism_score=11.5	prediction=polymorphism	ref_cov=12/23	total_cov=28/23
RA	37	.	NZ_CP009273	874860	0	G	A	consensus_score=177.3	frequency=1	major_base=A	major_cov=21/25	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=21/25	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=21/25
RA	38	.	NZ_CP009273	921356	0	A	G	bias_e_value=0.000370209	bias_p_value=7.99334e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=91.1	fisher_strand_p_value=2.89966e-12	frequency=3.333e-01	ks_quality_p_value=1	major_base=A	major_cov=0/30	major_frequency=6.667e-01	minor_base=G	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.333e-01	polymorphism_score=11.5	prediction=polymorphism	ref_cov=0/30	total_cov=15/30
RA	39	.	NZ_CP009273	937169	0	T	G	bias_e_value=3.05648e-05	bias_p_value=6.59938e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=78.7	fisher_strand_p_value=2.18883e-13	frequency=3.830e-01	ks_quality_p_value=1	major_base=T	major_cov=0/29	major_frequency=6.170e-01	minor_base=G	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.830e-01	polymorphism_score=16.8	prediction=polymorphism	ref_cov=0/29	total_cov=18/29
RA	40	.	NZ_CP009273	949844	0	C	T	bias_e_value=5.44426	bias_p_value=1.17549e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=77.4	fisher_strand_p_value=8.60867e-08	frequency=3.036e-01	ks_quality_p_value=0.779514	major_base=C	major_cov=29/10	major_frequency=6.964e-01	minor_base=T	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=3.036e-01	polymorphism_score=15.9	prediction=polymorphism	ref_cov=29/10	total_cov=29/27
RA	41	.	NZ_CP009273	1009488	0	A	T	bias_e_value=24.678	bias_p_value=5.32833e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=57.6	fisher_strand_p_value=3.34917e-07	frequency=4.250e-01	ks_quality_p_value=1	major_base=A	major_cov=5/18	major_frequency=5.750e-01	minor_base=T	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=4.250e-01	polymorphism_score=17.1	prediction=polymorphism	ref_cov=5/18	total_cov=23/18
RA	42	.	NZ_CP009273	1009524	0	G	T	bias_e_value=6859.33	bias_p_value=0.00148103	consensus_reject=FREQUENCY_CUTOFF	consensus_score=94.5	fisher_strand_p_value=0.00015117	frequency=3.488e-01	ks_quality_p_value=1	major_base=G	major_cov=12/16	major_frequency=6.512e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.488e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=12/16	total_cov=27/16
RA	43	.	NZ_CP009273	1217689	0	G	A	bias_e_value=0.00762319	bias_p_value=1.64595e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=73.3	fisher_strand_p_value=6.74009e-11	frequency=3.913e-01	ks_quality_p_value=1	major_base=G	major_cov=26/2	major_frequency=6.087e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=3.913e-01	polymorphism_score=12.5	prediction=polymorphism	ref_cov=26/2	total_cov=26/20
RA	44	.	NZ_CP009273	1219504	0	T	G	bias_e_value=70.1426	bias_p_value=1.51448e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=136.2	fisher_strand_p_value=1.02385e-06	frequency=2.545e-01	ks_quality_p_value=1	major_base=T	major_cov=11/30	major_frequency=7.455e-01	minor_base=G	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=2.545e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=11/30	total_cov=25/30
RA	45	.	NZ_CP009273	1229680	0	T	A	bias_e_value=0.784026	bias_p_value=1.69282e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=145.9	fisher_strand_p_value=8.74383e-09	frequency=2.373e-01	ks_quality_p_value=0.989509	major_base=T	major_cov=38/7	major_frequency=7.627e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.373e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=38/7	total_cov=38/21
RA	46	.	NZ_CP009273	1229689	0	T	A	bias_e_value=0.00185356	bias_p_value=4.00209e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=134.4	fisher_strand_p_value=1.54563e-11	frequency=2.833e-01	ks_quality_p_value=1	major_base=T	major_cov=39/4	major_frequency=7.167e-01	minor_base=A	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=2.833e-01	polymorphism_score=15.7	prediction=polymorphism	ref_cov=39/4	total_cov=39/21
RA	47	.	NZ_CP009273	1240690	0	G	T	bias_e_value=0.00153162	bias_p_value=3.30699e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=109.5	fisher_strand_p_value=1.26746e-11	frequency=3.333e-01	ks_quality_p_value=1	major_base=G	major_cov=5/35	major_frequency=6.667e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.333e-01	polymorphism_score=17.5	prediction=polymorphism	ref_cov=5/35	total_cov=25/35
RA	48	.	NZ_CP009273	1256344	0	C	A	bias_e_value=0.423446	bias_p_value=9.1428e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=179.0	fisher_strand_p_value=4.52298e-09	frequency=2.162e-01	ks_quality_p_value=1	major_base=C	major_cov=46/12	major_frequency=7.838e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.162e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=46/12	total_cov=46/28
RA	49	.	NZ_CP009273	1264332	0	A	T	bias_e_value=0.0186943	bias_p_value=4.03637e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=18.9	fisher_strand_p_value=7.04101e-05	frequency=5.385e-01	ks_quality_p_value=2.44106e-06	major_base=T	major_cov=14/0	major_frequency=5.385e-01	minor_base=A	minor_cov=3/9	new_cov=14/0	polymorphism_frequency=5.385e-01	polymorphism_score=40.5	prediction=polymorphism	ref_cov=3/9	total_cov=17/9
RA	50	.	NZ_CP009273	1264335	0	G	T	bias_e_value=78490	bias_p_value=0.0169471	consensus_reject=FREQUENCY_CUTOFF	consensus_score=21.6	fisher_strand_p_value=0.00241155	frequency=4.231e-01	ks_quality_p_value=1	major_base=G	major_cov=6/9	major_frequency=5.769e-01	minor_base=T	minor_cov=11/0	new_cov=11/0	polymorphism_frequency=4.231e-01	polymorphism_score=10.2	prediction=polymorphism	ref_cov=6/9	total_cov=17/9
RA	51	.	NZ_CP009273	1267283	0	A	T	bias_e_value=0.000304737	bias_p_value=6.5797e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=104.9	fisher_strand_p_value=2.3695e-12	frequency=3.137e-01	ks_quality_p_value=1	major_base=A	major_cov=1/34	major_frequency=6.863e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.137e-01	polymorphism_score=15.1	prediction=polymorphism	ref_cov=1/34	total_cov=17/34
RA	52	.	NZ_CP009273	1340894	0	C	G	bias_e_value=154.683	bias_p_value=3.33982e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=108.2	fisher_strand_p_value=2.39553e-06	frequency=3.400e-01	ks_quality_p_value=1	major_base=C	major_cov=22/11	major_frequency=6.600e-01	minor_base=G	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=3.400e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=22/11	total_cov=22/28
RA	53	.	NZ_CP009273	1340910	0	C	A	bias_e_value=109.991	bias_p_value=2.37486e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=89.4	fisher_strand_p_value=1.65971e-06	frequency=3.265e-01	ks_quality_p_value=1	major_base=C	major_cov=23/10	major_frequency=6.735e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.265e-01	polymorphism_score=12.4	prediction=polymorphism	ref_cov=23/10	total_cov=23/26
RA	54	.	NZ_CP009273	1355081	0	G	T	bias_e_value=87.3073	bias_p_value=1.88509e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=130.6	fisher_strand_p_value=1.29497e-06	frequency=2.609e-01	ks_quality_p_value=1	major_base=G	major_cov=27/7	major_frequency=7.391e-01	minor_base=T	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.609e-01	polymorphism_score=12.4	prediction=polymorphism	ref_cov=27/7	total_cov=27/19
RA	55	.	NZ_CP009273	1377979	0	G	A	bias_e_value=0.000262652	bias_p_value=5.67104e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=139.2	fisher_strand_p_value=2.03099e-12	frequency=2.812e-01	ks_quality_p_value=1	major_base=G	major_cov=42/4	major_frequency=7.188e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=2.812e-01	polymorphism_score=14.3	prediction=polymorphism	ref_cov=42/4	total_cov=42/22
RA	56	.	NZ_CP009273	1385342	0	A	T	bias_e_value=6.96249	bias_p_value=1.5033e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=149.3	fisher_strand_p_value=8.71175e-08	frequency=2.295e-01	ks_quality_p_value=1	major_base=A	major_cov=37/10	major_frequency=7.705e-01	minor_base=T	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.295e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=37/10	total_cov=37/25
RA	57	.	NZ_CP009273	1407992	0	A	T	bias_e_value=0.00524619	bias_p_value=1.13273e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=111.1	fisher_strand_p_value=4.59352e-11	frequency=2.963e-01	ks_quality_p_value=0.993927	major_base=A	major_cov=3/35	major_frequency=7.037e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.963e-01	polymorphism_score=21.7	prediction=polymorphism	ref_cov=3/35	total_cov=19/35
RA	58	.	NZ_CP009273	1408018	0	C	T	bias_e_value=0.32819	bias_p_value=7.08608e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=113.6	fisher_strand_p_value=3.45965e-09	frequency=2.885e-01	ks_quality_p_value=1	major_base=C	major_cov=5/32	major_frequency=7.115e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=2.885e-01	polymorphism_score=14.4	prediction=polymorphism	ref_cov=5/32	total_cov=20/32
RA	59	.	NZ_CP009273	1408032	0	A	T	bias_e_value=5.66177	bias_p_value=1.22246e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=134.5	fisher_strand_p_value=6.99528e-08	frequency=2.407e-01	ks_quality_p_value=1	major_base=A	major_cov=7/34	major_frequency=7.593e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.407e-01	polymorphism_score=15.1	prediction=polymorphism	ref_cov=7/34	total_cov=20/34
RA	60	.	NZ_CP009273	1429984	0	G	A	bias_e_value=0.151017	bias_p_value=3.26067e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=83.5	fisher_strand_p_value=1.53102e-09	frequency=3.256e-01	ks_quality_p_value=1	major_base=G	major_cov=27/2	major_frequency=6.744e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=3.256e-01	polymorphism_score=10.9	prediction=polymorphism	ref_cov=27/2	total_cov=27/16
RA	61	.	NZ_CP009273	1431900	0	G	A	consensus_score=211.8	frequency=1	major_base=A	major_cov=18/37	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=18/37	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=18/37
RA	62	.	NZ_CP009273	1472581	0	T	G	bias_e_value=0.0856647	bias_p_value=1.84962e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=145.2	fisher_strand_p_value=8.44893e-10	frequency=2.903e-01	ks_quality_p_value=1	major_base=T	major_cov=8/36	major_frequency=7.097e-01	minor_base=G	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=2.903e-01	polymorphism_score=11.1	prediction=polymorphism	ref_cov=8/36	total_cov=27/36
RA	63	.	NZ_CP009273	1574014	0	C	A	bias_e_value=160.537	bias_p_value=3.46623e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=150.9	fisher_strand_p_value=2.49335e-06	frequency=2.615e-01	ks_quality_p_value=1	major_base=C	major_cov=30/18	major_frequency=7.385e-01	minor_base=A	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=2.615e-01	polymorphism_score=14.8	prediction=polymorphism	ref_cov=30/18	total_cov=30/35
RA	64	.	NZ_CP009273	1597969	0	A	T	bias_e_value=9.32661	bias_p_value=2.01375e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=139.8	fisher_strand_p_value=1.18837e-07	frequency=2.712e-01	ks_quality_p_value=1	major_base=A	major_cov=11/32	major_frequency=7.288e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.712e-01	polymorphism_score=13.8	prediction=polymorphism	ref_cov=11/32	total_cov=27/32
RA	65	.	NZ_CP009273	1759042	0	T	A	bias_e_value=0.0115975	bias_p_value=2.50407e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=132.9	fisher_strand_p_value=1.04411e-10	frequency=3.281e-01	ks_quality_p_value=1	major_base=T	major_cov=35/8	major_frequency=6.719e-01	minor_base=A	minor_cov=0/21	new_cov=0/21	polymorphism_frequency=3.281e-01	polymorphism_score=18.8	prediction=polymorphism	ref_cov=35/8	total_cov=35/29
RA	66	.	NZ_CP009273	1817694	0	C	T	bias_e_value=0.142281	bias_p_value=3.07205e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=94.0	fisher_strand_p_value=1.43823e-09	frequency=2.889e-01	ks_quality_p_value=1	major_base=C	major_cov=30/2	major_frequency=7.111e-01	minor_base=T	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.889e-01	polymorphism_score=13.0	prediction=polymorphism	ref_cov=30/2	total_cov=30/15
RA	67	.	NZ_CP009273	1819318	0	G	A	bias_e_value=0.31595	bias_p_value=6.8218e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=76.7	fisher_strand_p_value=3.32413e-09	frequency=3.077e-01	ks_quality_p_value=1	major_base=G	major_cov=26/1	major_frequency=6.923e-01	minor_base=A	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=3.077e-01	polymorphism_score=16.0	prediction=polymorphism	ref_cov=26/1	total_cov=26/13
RA	68	.	NZ_CP009273	1861959	0	T	A	bias_e_value=0.00255308	bias_p_value=5.51246e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=133.1	fisher_strand_p_value=2.15669e-11	frequency=2.881e-01	ks_quality_p_value=1	major_base=T	major_cov=38/4	major_frequency=7.119e-01	minor_base=A	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=2.881e-01	polymorphism_score=14.9	prediction=polymorphism	ref_cov=38/4	total_cov=38/21
RA	69	.	NZ_CP009273	1980482	0	A	C	bias_e_value=105.927	bias_p_value=2.28711e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=126.4	fisher_strand_p_value=1.59388e-06	frequency=2.903e-01	ks_quality_p_value=1	major_base=A	major_cov=28/16	major_frequency=7.097e-01	minor_base=C	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=2.903e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=28/16	total_cov=28/35
RA	70	.	NZ_CP009273	1995392	0	G	A	bias_e_value=1.45367	bias_p_value=3.13867e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=49.5	fisher_strand_p_value=1.65942e-08	frequency=4.375e-01	ks_quality_p_value=1	major_base=G	major_cov=21/6	major_frequency=5.625e-01	minor_base=A	minor_cov=0/21	new_cov=0/21	polymorphism_frequency=4.375e-01	polymorphism_score=25.0	prediction=polymorphism	ref_cov=21/6	total_cov=21/27
RA	71	.	NZ_CP009273	1995399	0	A	C	bias_e_value=5.91535e-09	bias_p_value=1.27721e-15	consensus_reject=FREQUENCY_CUTOFF	consensus_score=52.5	fisher_strand_p_value=6.31571e-10	frequency=5.111e-01	ks_quality_p_value=5.19109e-08	major_base=C	major_cov=0/23	major_frequency=5.111e-01	minor_base=A	minor_cov=19/3	new_cov=0/23	polymorphism_frequency=5.111e-01	polymorphism_score=74.6	prediction=polymorphism	ref_cov=19/3	total_cov=19/26
RA	72	.	NZ_CP009273	2007703	0	C	A	bias_e_value=312.085	bias_p_value=6.73837e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=74.5	fisher_strand_p_value=5.11097e-06	frequency=3.617e-01	ks_quality_p_value=1	major_base=C	major_cov=20/10	major_frequency=6.383e-01	minor_base=A	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=3.617e-01	polymorphism_score=10.3	prediction=polymorphism	ref_cov=20/10	total_cov=20/27
RA	73	.	NZ_CP009273	2089571	0	A	G	bias_e_value=4.17796	bias_p_value=9.02081e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=60.8	fisher_strand_p_value=5.06855e-08	frequency=4.130e-01	ks_quality_p_value=1	major_base=A	major_cov=6/21	major_frequency=5.870e-01	minor_base=G	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=4.130e-01	polymorphism_score=12.5	prediction=polymorphism	ref_cov=6/21	total_cov=26/21
RA	74	.	NZ_CP009273	2319929	0	T	G	bias_e_value=0.00837984	bias_p_value=1.80933e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=103.5	fisher_strand_p_value=7.43915e-11	frequency=3.585e-01	ks_quality_p_value=1	major_base=T	major_cov=4/30	major_frequency=6.415e-01	minor_base=G	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.585e-01	polymorphism_score=15.3	prediction=polymorphism	ref_cov=4/30	total_cov=23/30
RA	75	.	NZ_CP009273	2372447	0	C	T	bias_e_value=53.2293	bias_p_value=1.1493e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=64.0	fisher_strand_p_value=7.61746e-07	frequency=2.826e-01	ks_quality_p_value=1	major_base=C	major_cov=7/26	major_frequency=7.174e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.826e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=7/26	total_cov=20/26
RA	76	.	NZ_CP009273	2380115	0	G	T	bias_e_value=55.1371	bias_p_value=1.19049e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=174.6	fisher_strand_p_value=7.91025e-07	frequency=2.241e-01	ks_quality_p_value=1	major_base=G	major_cov=34/11	major_frequency=7.759e-01	minor_base=T	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.241e-01	polymorphism_score=13.2	prediction=polymorphism	ref_cov=34/11	total_cov=34/24
RA	77	.	NZ_CP009273	2380341	0	G	A	bias_e_value=6.71877e-05	bias_p_value=1.45068e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=87.4	fisher_strand_p_value=4.94518e-13	frequency=3.393e-01	ks_quality_p_value=1	major_base=G	major_cov=2/35	major_frequency=6.607e-01	minor_base=A	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.393e-01	polymorphism_score=36.0	prediction=polymorphism	ref_cov=2/35	total_cov=21/35
RA	78	.	NZ_CP009273	2380362	0	C	T	bias_e_value=0.0696372	bias_p_value=1.50357e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=123.4	fisher_strand_p_value=6.80076e-10	frequency=2.712e-01	ks_quality_p_value=1	major_base=C	major_cov=6/37	major_frequency=7.288e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.712e-01	polymorphism_score=19.7	prediction=polymorphism	ref_cov=6/37	total_cov=22/37
RA	79	.	NZ_CP009273	2380376	0	A	T	bias_e_value=9.62633	bias_p_value=2.07846e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=160.3	fisher_strand_p_value=1.22899e-07	frequency=2.203e-01	ks_quality_p_value=1	major_base=A	major_cov=9/37	major_frequency=7.797e-01	minor_base=T	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.203e-01	polymorphism_score=10.9	prediction=polymorphism	ref_cov=9/37	total_cov=22/37
RA	80	.	NZ_CP009273	2405364	0	T	A	bias_e_value=0.00123581	bias_p_value=2.66829e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=112.3	fisher_strand_p_value=1.03068e-11	frequency=3.019e-01	ks_quality_p_value=0.983814	major_base=T	major_cov=35/2	major_frequency=6.981e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.019e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=35/2	total_cov=35/18
RA	81	.	NZ_CP009273	2476747	0	T	A	bias_e_value=0.22226	bias_p_value=4.79892e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=129.6	fisher_strand_p_value=2.29705e-09	frequency=2.969e-01	ks_quality_p_value=1	major_base=T	major_cov=35/10	major_frequency=7.031e-01	minor_base=A	minor_cov=0/19	new_cov=0/19	polymorphism_frequency=2.969e-01	polymorphism_score=21.0	prediction=polymorphism	ref_cov=35/10	total_cov=35/29
RA	82	.	NZ_CP009273	2483981	0	A	T	bias_e_value=6184.75	bias_p_value=0.00133537	consensus_reject=FREQUENCY_CUTOFF	consensus_score=139.7	fisher_strand_p_value=0.0001403	frequency=2.182e-01	ks_quality_p_value=0.960221	major_base=A	major_cov=26/17	major_frequency=7.818e-01	minor_base=T	minor_cov=0/12	new_cov=0/12	polymorphism_frequency=2.182e-01	polymorphism_score=17.3	prediction=polymorphism	ref_cov=26/17	total_cov=26/29
RA	83	.	NZ_CP009273	2544652	0	T	A	bias_e_value=49.364	bias_p_value=1.06584e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=167.1	fisher_strand_p_value=7.02672e-07	frequency=2.424e-01	ks_quality_p_value=1	major_base=T	major_cov=34/16	major_frequency=7.576e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.424e-01	polymorphism_score=12.7	prediction=polymorphism	ref_cov=34/16	total_cov=34/32
RA	84	.	NZ_CP009273	2551890	0	A	C	bias_e_value=0.0041057	bias_p_value=8.86479e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=124.4	fisher_strand_p_value=3.53669e-11	frequency=4.058e-01	ks_quality_p_value=1	major_base=A	major_cov=31/10	major_frequency=5.942e-01	minor_base=C	minor_cov=0/28	new_cov=0/28	polymorphism_frequency=4.058e-01	polymorphism_score=13.6	prediction=polymorphism	ref_cov=31/10	total_cov=31/38
RA	85	.	NZ_CP009273	2609092	0	T	A	bias_e_value=168.981	bias_p_value=3.64854e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=131.9	fisher_strand_p_value=2.63497e-06	frequency=2.923e-01	ks_quality_p_value=1	major_base=T	major_cov=18/28	major_frequency=7.077e-01	minor_base=A	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=2.923e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=18/28	total_cov=37/28
RA	86	.	NZ_CP009273	2617867	0	A	T	bias_e_value=0.441548	bias_p_value=9.53365e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=166.8	fisher_strand_p_value=4.72663e-09	frequency=2.388e-01	ks_quality_p_value=1	major_base=A	major_cov=10/41	major_frequency=7.612e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.388e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=10/41	total_cov=26/41
RA	87	.	NZ_CP009273	2617873	0	A	T	bias_e_value=0.230656	bias_p_value=4.98019e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=161.7	fisher_strand_p_value=2.38827e-09	frequency=2.424e-01	ks_quality_p_value=1	major_base=A	major_cov=9/41	major_frequency=7.576e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.424e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=9/41	total_cov=25/41
RA	88	.	NZ_CP009273	2621984	0	A	C	bias_e_value=0.0169752	bias_p_value=3.66518e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=127.6	fisher_strand_p_value=1.55403e-10	frequency=3.333e-01	ks_quality_p_value=1	major_base=A	major_cov=34/8	major_frequency=6.667e-01	minor_base=C	minor_cov=0/21	new_cov=0/21	polymorphism_frequency=3.333e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=34/8	total_cov=34/30
RA	89	.	NZ_CP009273	2630530	0	G	C	bias_e_value=38.0607	bias_p_value=8.21784e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=153.2	fisher_strand_p_value=5.32016e-07	frequency=2.581e-01	ks_quality_p_value=1	major_base=G	major_cov=32/14	major_frequency=7.419e-01	minor_base=C	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.581e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=32/14	total_cov=32/30
RA	90	.	NZ_CP009273	2738448	0	A	C	bias_e_value=0.103745	bias_p_value=2.24e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=105.8	fisher_strand_p_value=1.03268e-09	frequency=3.333e-01	ks_quality_p_value=1	major_base=A	major_cov=31/7	major_frequency=6.667e-01	minor_base=C	minor_cov=0/19	new_cov=0/19	polymorphism_frequency=3.333e-01	polymorphism_score=18.1	prediction=polymorphism	ref_cov=31/7	total_cov=31/26
RA	91	.	NZ_CP009273	2819821	0	G	A	bias_e_value=0.0413758	bias_p_value=8.93362e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=78.5	fisher_strand_p_value=3.94354e-10	frequency=3.333e-01	ks_quality_p_value=1	major_base=G	major_cov=28/2	major_frequency=6.667e-01	minor_base=A	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=3.333e-01	polymorphism_score=14.1	prediction=polymorphism	ref_cov=28/2	total_cov=28/17
RA	92	.	NZ_CP009273	2826926	0	T	G	bias_e_value=0.000553645	bias_p_value=1.1954e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=146.6	fisher_strand_p_value=4.40315e-12	frequency=3.286e-01	ks_quality_p_value=1	major_base=T	major_cov=8/39	major_frequency=6.714e-01	minor_base=G	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=3.286e-01	polymorphism_score=12.7	prediction=polymorphism	ref_cov=8/39	total_cov=31/40
RA	93	.	NZ_CP009273	2840033	0	T	G	bias_e_value=26.2752	bias_p_value=5.6732e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=72.8	fisher_strand_p_value=3.58101e-07	frequency=3.721e-01	ks_quality_p_value=1	major_base=T	major_cov=6/21	major_frequency=6.279e-01	minor_base=G	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.721e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=6/21	total_cov=22/21
RA	94	.	NZ_CP009273	2860760	0	T	.	bias_e_value=3795520	bias_p_value=0.819506	consensus_score=327.9	fisher_strand_p_value=0.463768	frequency=1	ks_quality_p_value=0.998296	major_base=.	major_cov=31/37	major_frequency=9.855e-01	minor_base=G	minor_cov=1/0	new_cov=31/37	polymorphism_frequency=9.855e-01	polymorphism_score=-3.6	prediction=consensus	ref_cov=0/0	total_cov=32/37
RA	95	.	NZ_CP009273	2885554	0	A	T	bias_e_value=31.7341	bias_p_value=6.85184e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=153.2	fisher_strand_p_value=4.38073e-07	frequency=2.535e-01	ks_quality_p_value=1	major_base=A	major_cov=18/35	major_frequency=7.465e-01	minor_base=T	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=2.535e-01	polymorphism_score=11.3	prediction=polymorphism	ref_cov=18/35	total_cov=37/35
RA	96	.	NZ_CP009273	2897051	0	C	A	bias_e_value=0.00573917	bias_p_value=1.23917e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=76.6	fisher_strand_p_value=5.18311e-11	frequency=4.490e-01	ks_quality_p_value=0.967289	major_base=C	major_cov=3/24	major_frequency=5.510e-01	minor_base=A	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=4.490e-01	polymorphism_score=28.3	prediction=polymorphism	ref_cov=3/24	total_cov=25/24
RA	97	.	NZ_CP009273	2897070	0	C	A	bias_e_value=34.1339	bias_p_value=7.36999e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=124.4	fisher_strand_p_value=4.73559e-07	frequency=2.857e-01	ks_quality_p_value=1	major_base=C	major_cov=8/27	major_frequency=7.143e-01	minor_base=A	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=2.857e-01	polymorphism_score=15.2	prediction=polymorphism	ref_cov=8/27	total_cov=22/27
RA	98	.	NZ_CP009273	2897074	0	G	A	bias_e_value=0.0309531	bias_p_value=6.68321e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=64.8	fisher_strand_p_value=2.91115e-10	frequency=3.830e-01	ks_quality_p_value=1	major_base=G	major_cov=3/26	major_frequency=6.170e-01	minor_base=A	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.830e-01	polymorphism_score=31.1	prediction=polymorphism	ref_cov=3/26	total_cov=22/27
RA	99	.	NZ_CP009273	2897076	0	C	A	bias_e_value=8.54193	bias_p_value=1.84432e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=124.0	fisher_strand_p_value=1.08242e-07	frequency=3.061e-01	ks_quality_p_value=1	major_base=C	major_cov=7/27	major_frequency=6.939e-01	minor_base=A	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=3.061e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=7/27	total_cov=22/27
RA	100	.	NZ_CP009273	2897080	0	C	A	bias_e_value=0.933528	bias_p_value=2.01562e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=124.1	fisher_strand_p_value=1.03997e-08	frequency=3.137e-01	ks_quality_p_value=1	major_base=C	major_cov=6/29	major_frequency=6.863e-01	minor_base=A	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.137e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=6/29	total_cov=22/29
RA	101	.	NZ_CP009273	2897114	0	G	A	bias_e_value=1501.16	bias_p_value=0.000324121	consensus_reject=FREQUENCY_CUTOFF	consensus_score=109.2	fisher_strand_p_value=2.82471e-05	frequency=2.083e-01	ks_quality_p_value=1	major_base=G	major_cov=10/28	major_frequency=7.917e-01	minor_base=A	minor_cov=10/0	new_cov=10/0	polymorphism_frequency=2.083e-01	polymorphism_score=15.9	prediction=polymorphism	ref_cov=10/28	total_cov=22/28
RA	102	.	NZ_CP009273	2914532	0	T	C	bias_e_value=7.27159	bias_p_value=1.57004e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=73.2	fisher_strand_p_value=9.12289e-08	frequency=2.973e-01	ks_quality_p_value=1	major_base=T	major_cov=24/2	major_frequency=7.027e-01	minor_base=C	minor_cov=0/11	new_cov=0/11	polymorphism_frequency=2.973e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=24/2	total_cov=25/13
RA	103	.	NZ_CP009273	2997266	0	G	T	bias_e_value=31.4618	bias_p_value=6.79304e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=119.1	fisher_strand_p_value=4.34058e-07	frequency=2.857e-01	ks_quality_p_value=1	major_base=G	major_cov=15/30	major_frequency=7.143e-01	minor_base=T	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=2.857e-01	polymorphism_score=15.5	prediction=polymorphism	ref_cov=15/30	total_cov=33/30
RA	104	.	NZ_CP009273	2997280	0	T	G	bias_e_value=0.0259924	bias_p_value=5.61213e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=100.3	fisher_strand_p_value=2.4253e-10	frequency=3.966e-01	ks_quality_p_value=1	major_base=T	major_cov=7/28	major_frequency=6.034e-01	minor_base=G	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=3.966e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=7/28	total_cov=31/28
RA	105	.	NZ_CP009273	2999371	0	C	T	bias_e_value=9.99466	bias_p_value=2.15799e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=163.2	fisher_strand_p_value=1.27904e-07	frequency=2.714e-01	ks_quality_p_value=1	major_base=C	major_cov=16/35	major_frequency=7.286e-01	minor_base=T	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=2.714e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=16/35	total_cov=35/35
RA	106	.	NZ_CP009273	2999409	0	G	A	bias_e_value=93.023	bias_p_value=2.0085e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=180.2	fisher_strand_p_value=1.38623e-06	frequency=2.329e-01	ks_quality_p_value=1	major_base=G	major_cov=20/36	major_frequency=7.671e-01	minor_base=A	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.329e-01	polymorphism_score=16.4	prediction=polymorphism	ref_cov=20/36	total_cov=37/36
RA	107	.	NZ_CP009273	3129140	0	G	T	bias_e_value=15.0097	bias_p_value=3.24082e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=93.4	fisher_strand_p_value=1.97138e-07	frequency=3.077e-01	ks_quality_p_value=1	major_base=G	major_cov=9/27	major_frequency=6.923e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.077e-01	polymorphism_score=14.1	prediction=polymorphism	ref_cov=9/27	total_cov=25/27
RA	108	.	NZ_CP009273	3171107	0	C	A	bias_e_value=40.8248	bias_p_value=8.81465e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=91.7	fisher_strand_p_value=5.73437e-07	frequency=2.600e-01	ks_quality_p_value=1	major_base=C	major_cov=29/8	major_frequency=7.400e-01	minor_base=A	minor_cov=0/13	new_cov=0/13	polymorphism_frequency=2.600e-01	polymorphism_score=13.7	prediction=polymorphism	ref_cov=29/8	total_cov=29/21
RA	109	.	NZ_CP009273	3184462	0	C	T	bias_e_value=31.4618	bias_p_value=6.79304e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=123.4	fisher_strand_p_value=4.34058e-07	frequency=2.857e-01	ks_quality_p_value=1	major_base=C	major_cov=15/30	major_frequency=7.143e-01	minor_base=T	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=2.857e-01	polymorphism_score=15.1	prediction=polymorphism	ref_cov=15/30	total_cov=33/31
RA	110	.	NZ_CP009273	3184522	0	C	A	bias_e_value=10.7076	bias_p_value=2.31192e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=145.5	fisher_strand_p_value=1.37624e-07	frequency=3.019e-01	ks_quality_p_value=1	major_base=C	major_cov=9/28	major_frequency=6.981e-01	minor_base=A	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.019e-01	polymorphism_score=11.0	prediction=polymorphism	ref_cov=9/28	total_cov=25/28
RA	111	.	NZ_CP009273	3199794	0	C	T	bias_e_value=2.12484e-05	bias_p_value=4.58784e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=87.2	fisher_strand_p_value=1.50292e-13	frequency=3.220e-01	ks_quality_p_value=1	major_base=C	major_cov=2/38	major_frequency=6.780e-01	minor_base=T	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.220e-01	polymorphism_score=22.3	prediction=polymorphism	ref_cov=2/38	total_cov=21/38
RA	112	.	NZ_CP009273	3199803	0	T	A	bias_e_value=27.3522	bias_p_value=5.90573e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=68.1	fisher_strand_p_value=3.7379e-07	frequency=3.571e-01	ks_quality_p_value=1	major_base=T	major_cov=4/32	major_frequency=6.429e-01	minor_base=A	minor_cov=16/4	new_cov=16/4	polymorphism_frequency=3.571e-01	polymorphism_score=17.2	prediction=polymorphism	ref_cov=4/32	total_cov=21/36
RA	113	.	NZ_CP009273	3199811	0	C	A	bias_e_value=0.175404	bias_p_value=3.78722e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=105.8	fisher_strand_p_value=1.79147e-09	frequency=2.857e-01	ks_quality_p_value=1	major_base=C	major_cov=6/34	major_frequency=7.143e-01	minor_base=A	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.857e-01	polymorphism_score=12.0	prediction=polymorphism	ref_cov=6/34	total_cov=22/36
RA	114	.	NZ_CP009273	3199842	0	G	A	bias_e_value=0.00409652	bias_p_value=8.84497e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=54.5	fisher_strand_p_value=3.52845e-11	frequency=3.208e-01	ks_quality_p_value=1	major_base=G	major_cov=3/33	major_frequency=6.792e-01	minor_base=A	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=3.208e-01	polymorphism_score=14.1	prediction=polymorphism	ref_cov=3/33	total_cov=20/33
RA	115	.	NZ_CP009273	3279212	0	G	T	bias_e_value=0.360744	bias_p_value=7.78898e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=137.7	fisher_strand_p_value=3.82138e-09	frequency=2.414e-01	ks_quality_p_value=1	major_base=G	major_cov=6/38	major_frequency=7.586e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=2.414e-01	polymorphism_score=17.1	prediction=polymorphism	ref_cov=6/38	total_cov=20/38
RA	116	.	NZ_CP009273	3335460	0	C	G	bias_e_value=2.10849	bias_p_value=4.55252e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=158.3	fisher_strand_p_value=2.45799e-08	frequency=2.500e-01	ks_quality_p_value=1	major_base=C	major_cov=36/9	major_frequency=7.500e-01	minor_base=G	minor_cov=0/15	new_cov=0/15	polymorphism_frequency=2.500e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=36/9	total_cov=36/24
RA	117	.	NZ_CP009273	3336630	0	G	T	consensus_score=322.5	frequency=1	major_base=T	major_cov=48/32	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=48/32	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=48/32
RA	118	.	NZ_CP009273	3357755	0	A	T	bias_e_value=1.01898	bias_p_value=2.20013e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=138.2	fisher_strand_p_value=1.1406e-08	frequency=2.742e-01	ks_quality_p_value=1	major_base=A	major_cov=35/10	major_frequency=7.258e-01	minor_base=T	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=2.742e-01	polymorphism_score=12.4	prediction=polymorphism	ref_cov=35/10	total_cov=35/27
RA	119	.	NZ_CP009273	3387038	0	A	T	bias_e_value=1.54184	bias_p_value=3.32904e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=119.8	fisher_strand_p_value=1.76588e-08	frequency=2.857e-01	ks_quality_p_value=1	major_base=A	major_cov=8/32	major_frequency=7.143e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.857e-01	polymorphism_score=10.7	prediction=polymorphism	ref_cov=8/32	total_cov=24/32
RA	120	.	NZ_CP009273	3390897	0	C	T	bias_e_value=34.1339	bias_p_value=7.36999e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=96.1	fisher_strand_p_value=4.73559e-07	frequency=2.857e-01	ks_quality_p_value=1	major_base=C	major_cov=27/8	major_frequency=7.143e-01	minor_base=T	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.857e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=27/8	total_cov=27/22
RA	121	.	NZ_CP009273	3394818	0	T	C	bias_e_value=0.0268511	bias_p_value=5.79753e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=108.1	fisher_strand_p_value=2.50911e-10	frequency=3.438e-01	ks_quality_p_value=1	major_base=T	major_cov=33/9	major_frequency=6.562e-01	minor_base=C	minor_cov=0/22	new_cov=0/22	polymorphism_frequency=3.438e-01	polymorphism_score=21.8	prediction=polymorphism	ref_cov=33/9	total_cov=33/31
RA	122	.	NZ_CP009273	3406251	0	C	G	bias_e_value=0.00981154	bias_p_value=2.11845e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=131.8	fisher_strand_p_value=8.76945e-11	frequency=3.091e-01	ks_quality_p_value=1	major_base=C	major_cov=34/4	major_frequency=6.909e-01	minor_base=G	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=3.091e-01	polymorphism_score=21.8	prediction=polymorphism	ref_cov=34/4	total_cov=34/21
RA	123	.	NZ_CP009273	3406257	0	C	T	bias_e_value=0.03453	bias_p_value=7.45553e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=94.3	fisher_strand_p_value=3.26382e-10	frequency=3.019e-01	ks_quality_p_value=1	major_base=C	major_cov=33/4	major_frequency=6.981e-01	minor_base=T	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.019e-01	polymorphism_score=22.6	prediction=polymorphism	ref_cov=33/4	total_cov=33/21
RA	124	.	NZ_CP009273	3406265	0	T	A	bias_e_value=0.0486838	bias_p_value=1.05115e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=112.2	fisher_strand_p_value=4.6752e-10	frequency=3.077e-01	ks_quality_p_value=1	major_base=T	major_cov=32/4	major_frequency=6.923e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=3.077e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=32/4	total_cov=32/20
RA	125	.	NZ_CP009273	3416656	0	G	C	bias_e_value=1.3469	bias_p_value=2.90814e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=96.9	fisher_strand_p_value=1.53102e-08	frequency=3.023e-01	ks_quality_p_value=1	major_base=G	major_cov=3/27	major_frequency=6.977e-01	minor_base=C	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=3.023e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=3/27	total_cov=16/27
RA	126	.	NZ_CP009273	3485387	0	C	T	bias_e_value=9.14245	bias_p_value=1.97398e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=77.1	fisher_strand_p_value=1.16345e-07	frequency=3.077e-01	ks_quality_p_value=1	major_base=C	major_cov=3/24	major_frequency=6.923e-01	minor_base=T	minor_cov=12/0	new_cov=12/0	polymorphism_frequency=3.077e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=3/24	total_cov=18/24
RA	127	.	NZ_CP009273	3485429	0	G	A	bias_e_value=541.112	bias_p_value=0.000116834	consensus_reject=FREQUENCY_CUTOFF	consensus_score=106.9	fisher_strand_p_value=9.28175e-06	frequency=2.500e-01	ks_quality_p_value=1	major_base=G	major_cov=10/26	major_frequency=7.500e-01	minor_base=A	minor_cov=12/0	new_cov=12/0	polymorphism_frequency=2.500e-01	polymorphism_score=14.4	prediction=polymorphism	ref_cov=10/26	total_cov=22/26
RA	128	.	NZ_CP009273	3492975	0	G	A	bias_e_value=21.3859	bias_p_value=4.61752e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=172.5	fisher_strand_p_value=2.89735e-07	frequency=2.267e-01	ks_quality_p_value=0.992214	major_base=G	major_cov=19/39	major_frequency=7.733e-01	minor_base=A	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.267e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=19/39	total_cov=36/39
RA	129	.	NZ_CP009273	3578418	0	T	C	bias_e_value=0.00493723	bias_p_value=1.06602e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=125.0	fisher_strand_p_value=4.28582e-11	frequency=2.982e-01	ks_quality_p_value=1	major_base=T	major_cov=36/4	major_frequency=7.018e-01	minor_base=C	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=2.982e-01	polymorphism_score=12.6	prediction=polymorphism	ref_cov=36/4	total_cov=36/21
RA	130	.	NZ_CP009273	3578446	0	A	C	bias_e_value=0.00011912	bias_p_value=2.57197e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=124.0	fisher_strand_p_value=8.94842e-13	frequency=3.214e-01	ks_quality_p_value=1	major_base=A	major_cov=36/2	major_frequency=6.786e-01	minor_base=C	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=3.214e-01	polymorphism_score=14.0	prediction=polymorphism	ref_cov=36/2	total_cov=36/21
RA	131	.	NZ_CP009273	3659012	0	G	A	bias_e_value=0.144406	bias_p_value=3.11793e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=143.9	fisher_strand_p_value=1.46078e-09	frequency=2.985e-01	ks_quality_p_value=1	major_base=G	major_cov=36/11	major_frequency=7.015e-01	minor_base=A	minor_cov=0/20	new_cov=0/20	polymorphism_frequency=2.985e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=36/11	total_cov=36/31
RA	132	.	NZ_CP009273	3659017	0	C	A	bias_e_value=1.42045	bias_p_value=3.06695e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=178.7	fisher_strand_p_value=1.61942e-08	frequency=2.647e-01	ks_quality_p_value=1	major_base=C	major_cov=37/13	major_frequency=7.353e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=2.647e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=37/13	total_cov=37/31
RA	133	.	NZ_CP009273	3659062	0	C	A	bias_e_value=0.0119747	bias_p_value=2.58551e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=133.0	fisher_strand_p_value=1.07958e-10	frequency=3.239e-01	ks_quality_p_value=1	major_base=C	major_cov=37/11	major_frequency=6.761e-01	minor_base=A	minor_cov=0/23	new_cov=0/23	polymorphism_frequency=3.239e-01	polymorphism_score=19.1	prediction=polymorphism	ref_cov=37/11	total_cov=37/34
RA	134	.	NZ_CP009273	3725026	0	G	A	bias_e_value=1205.59	bias_p_value=0.000260303	consensus_reject=FREQUENCY_CUTOFF	consensus_score=147.1	fisher_strand_p_value=2.22206e-05	frequency=2.615e-01	ks_quality_p_value=1	major_base=G	major_cov=27/21	major_frequency=7.385e-01	minor_base=A	minor_cov=0/17	new_cov=0/17	polymorphism_frequency=2.615e-01	polymorphism_score=11.3	prediction=polymorphism	ref_cov=27/21	total_cov=27/38
RA	135	.	NZ_CP009273	3725073	0	G	A	bias_e_value=1627.16	bias_p_value=0.000351327	consensus_reject=FREQUENCY_CUTOFF	consensus_score=128.7	fisher_strand_p_value=3.08555e-05	frequency=2.687e-01	ks_quality_p_value=1	major_base=G	major_cov=26/23	major_frequency=7.313e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=2.687e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=26/23	total_cov=26/41
RA	136	.	NZ_CP009273	3725084	0	G	A	bias_e_value=1504.85	bias_p_value=0.000324919	consensus_reject=FREQUENCY_CUTOFF	consensus_score=133.9	fisher_strand_p_value=2.83232e-05	frequency=2.727e-01	ks_quality_p_value=1	major_base=G	major_cov=26/22	major_frequency=7.273e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=2.727e-01	polymorphism_score=10.0	prediction=polymorphism	ref_cov=26/22	total_cov=26/40
RA	137	.	NZ_CP009273	3751028	0	C	T	bias_e_value=43.8202	bias_p_value=9.46141e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=106.5	fisher_strand_p_value=6.1856e-07	frequency=2.712e-01	ks_quality_p_value=1	major_base=C	major_cov=30/13	major_frequency=7.288e-01	minor_base=T	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.712e-01	polymorphism_score=13.6	prediction=polymorphism	ref_cov=30/13	total_cov=30/29
RA	138	.	NZ_CP009273	3753744	0	A	C	bias_e_value=236.846	bias_p_value=5.11385e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=51.1	fisher_strand_p_value=3.79299e-06	frequency=3.958e-01	ks_quality_p_value=1	major_base=A	major_cov=21/8	major_frequency=6.042e-01	minor_base=C	minor_cov=1/18	new_cov=1/18	polymorphism_frequency=3.958e-01	polymorphism_score=16.8	prediction=polymorphism	ref_cov=21/8	total_cov=22/26
RA	139	.	NZ_CP009273	3823685	0	G	A	bias_e_value=7777.81	bias_p_value=0.00167934	consensus_reject=FREQUENCY_CUTOFF	consensus_score=137.4	fisher_strand_p_value=0.000173898	frequency=2.222e-01	ks_quality_p_value=1	major_base=G	major_cov=26/23	major_frequency=7.778e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.222e-01	polymorphism_score=12.8	prediction=polymorphism	ref_cov=26/23	total_cov=26/37
RA	140	.	NZ_CP009273	3868889	0	C	G	bias_e_value=53595.1	bias_p_value=0.0115719	consensus_reject=FREQUENCY_CUTOFF	consensus_score=112.6	fisher_strand_p_value=0.00156732	frequency=2.045e-01	ks_quality_p_value=0.98838	major_base=C	major_cov=14/21	major_frequency=7.955e-01	minor_base=G	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.045e-01	polymorphism_score=13.1	prediction=polymorphism	ref_cov=14/21	total_cov=23/21
RA	141	.	NZ_CP009273	3868892	0	A	T	bias_e_value=46847	bias_p_value=0.0101149	consensus_reject=FREQUENCY_CUTOFF	consensus_score=110.5	fisher_strand_p_value=0.00156732	frequency=2.045e-01	ks_quality_p_value=0.84636	major_base=A	major_cov=14/21	major_frequency=7.955e-01	minor_base=T	minor_cov=9/0	new_cov=9/0	polymorphism_frequency=2.045e-01	polymorphism_score=13.5	prediction=polymorphism	ref_cov=14/21	total_cov=23/21
RA	142	.	NZ_CP009273	3897605	0	G	A	bias_e_value=23.1641	bias_p_value=5.00146e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=119.7	fisher_strand_p_value=3.13043e-07	frequency=2.857e-01	ks_quality_p_value=1	major_base=G	major_cov=29/11	major_frequency=7.143e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.857e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=29/11	total_cov=29/27
RA	143	.	NZ_CP009273	3924078	0	T	G	bias_e_value=0.00310837	bias_p_value=6.71141e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=104.6	fisher_strand_p_value=2.64698e-11	frequency=3.788e-01	ks_quality_p_value=1	major_base=T	major_cov=8/33	major_frequency=6.212e-01	minor_base=G	minor_cov=25/0	new_cov=25/0	polymorphism_frequency=3.788e-01	polymorphism_score=15.8	prediction=polymorphism	ref_cov=8/33	total_cov=35/33
RA	144	.	NZ_CP009273	3941210	0	C	T	bias_e_value=3.70392e-05	bias_p_value=7.99728e-12	consensus_reject=FREQUENCY_CUTOFF	consensus_score=184.5	fisher_strand_p_value=2.67008e-13	frequency=2.603e-01	ks_quality_p_value=1	major_base=C	major_cov=5/49	major_frequency=7.397e-01	minor_base=T	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=2.603e-01	polymorphism_score=14.4	prediction=polymorphism	ref_cov=5/49	total_cov=24/49
RA	145	.	NZ_CP009273	3962116	0	C	A	consensus_score=281.4	frequency=1	major_base=A	major_cov=34/38	major_frequency=1.000e+00	minor_base=N	minor_cov=0/0	new_cov=34/38	polymorphism_frequency=1.000e+00	polymorphism_score=NA	prediction=consensus	ref_cov=0/0	total_cov=34/38
RA	146	.	NZ_CP009273	4058908	0	T	A	bias_e_value=9.71691	bias_p_value=2.09802e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=191.9	fisher_strand_p_value=1.24129e-07	frequency=2.469e-01	ks_quality_p_value=1	major_base=T	major_cov=39/22	major_frequency=7.531e-01	minor_base=A	minor_cov=0/20	new_cov=0/20	polymorphism_frequency=2.469e-01	polymorphism_score=17.9	prediction=polymorphism	ref_cov=39/22	total_cov=39/42
RA	147	.	NZ_CP009273	4058931	0	T	A	bias_e_value=344.89	bias_p_value=7.44667e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=148.2	fisher_strand_p_value=5.69495e-06	frequency=2.676e-01	ks_quality_p_value=1	major_base=T	major_cov=34/18	major_frequency=7.324e-01	minor_base=A	minor_cov=1/18	new_cov=1/18	polymorphism_frequency=2.676e-01	polymorphism_score=11.9	prediction=polymorphism	ref_cov=34/18	total_cov=35/36
RA	148	.	NZ_CP009273	4058940	0	T	A	bias_e_value=0.14334	bias_p_value=3.09492e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=125.7	fisher_strand_p_value=1.44947e-09	frequency=3.286e-01	ks_quality_p_value=1	major_base=T	major_cov=34/13	major_frequency=6.714e-01	minor_base=A	minor_cov=0/23	new_cov=0/23	polymorphism_frequency=3.286e-01	polymorphism_score=23.5	prediction=polymorphism	ref_cov=34/13	total_cov=36/36
RA	149	.	NZ_CP009273	4058956	0	C	A	bias_e_value=38.3277	bias_p_value=8.27551e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=174.9	fisher_strand_p_value=5.36009e-07	frequency=2.368e-01	ks_quality_p_value=1	major_base=C	major_cov=38/20	major_frequency=7.632e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=2.368e-01	polymorphism_score=10.4	prediction=polymorphism	ref_cov=38/20	total_cov=38/38
RA	150	.	NZ_CP009273	4058958	0	G	A	bias_e_value=0.0191915	bias_p_value=4.14371e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=146.8	fisher_strand_p_value=1.76653e-10	frequency=3.205e-01	ks_quality_p_value=1	major_base=G	major_cov=39/14	major_frequency=6.795e-01	minor_base=A	minor_cov=0/25	new_cov=0/25	polymorphism_frequency=3.205e-01	polymorphism_score=16.5	prediction=polymorphism	ref_cov=39/14	total_cov=39/39
RA	151	.	NZ_CP009273	4091435	0	T	G	bias_e_value=0.00595362	bias_p_value=1.28547e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=118.3	fisher_strand_p_value=5.20897e-11	frequency=3.971e-01	ks_quality_p_value=1	major_base=T	major_cov=10/31	major_frequency=6.029e-01	minor_base=G	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=3.971e-01	polymorphism_score=11.2	prediction=polymorphism	ref_cov=10/31	total_cov=37/31
RA	152	.	NZ_CP009273	4091442	0	G	T	bias_e_value=0.0115425	bias_p_value=2.49219e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=85.5	fisher_strand_p_value=1.03895e-10	frequency=3.881e-01	ks_quality_p_value=1	major_base=G	major_cov=10/31	major_frequency=6.119e-01	minor_base=T	minor_cov=26/0	new_cov=26/0	polymorphism_frequency=3.881e-01	polymorphism_score=35.1	prediction=polymorphism	ref_cov=10/31	total_cov=36/31
RA	153	.	NZ_CP009273	4091464	0	C	A	bias_e_value=3.98008	bias_p_value=8.59356e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=127.9	fisher_strand_p_value=4.81458e-08	frequency=3.500e-01	ks_quality_p_value=1	major_base=C	major_cov=12/27	major_frequency=6.500e-01	minor_base=A	minor_cov=21/0	new_cov=21/0	polymorphism_frequency=3.500e-01	polymorphism_score=15.0	prediction=polymorphism	ref_cov=12/27	total_cov=33/27
RA	154	.	NZ_CP009273	4091467	0	T	A	bias_e_value=26.2361	bias_p_value=5.66474e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=116.5	fisher_strand_p_value=3.57531e-07	frequency=3.220e-01	ks_quality_p_value=1	major_base=T	major_cov=13/27	major_frequency=6.780e-01	minor_base=A	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.220e-01	polymorphism_score=12.1	prediction=polymorphism	ref_cov=13/27	total_cov=32/27
RA	155	.	NZ_CP009273	4091486	0	C	A	bias_e_value=18329	bias_p_value=0.0039575	consensus_reject=FREQUENCY_CUTOFF	consensus_score=166.1	fisher_strand_p_value=0.000455153	frequency=2.308e-01	ks_quality_p_value=1	major_base=C	major_cov=26/24	major_frequency=7.692e-01	minor_base=A	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=2.308e-01	polymorphism_score=10.6	prediction=polymorphism	ref_cov=26/24	total_cov=41/24
RA	156	.	NZ_CP009273	4123160	0	A	G	bias_e_value=11.4757	bias_p_value=2.47776e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=111.6	fisher_strand_p_value=1.48146e-07	frequency=3.115e-01	ks_quality_p_value=1	major_base=A	major_cov=10/32	major_frequency=6.885e-01	minor_base=G	minor_cov=18/1	new_cov=18/1	polymorphism_frequency=3.115e-01	polymorphism_score=14.2	prediction=polymorphism	ref_cov=10/32	total_cov=28/33
RA	157	.	NZ_CP009273	4123168	0	C	T	bias_e_value=0.934898	bias_p_value=2.01858e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=97.7	fisher_strand_p_value=1.04158e-08	frequency=3.103e-01	ks_quality_p_value=1	major_base=C	major_cov=9/31	major_frequency=6.897e-01	minor_base=T	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.103e-01	polymorphism_score=15.6	prediction=polymorphism	ref_cov=9/31	total_cov=27/31
RA	158	.	NZ_CP009273	4123173	0	A	G	bias_e_value=0.103745	bias_p_value=2.24e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=113.5	fisher_strand_p_value=1.03268e-09	frequency=3.333e-01	ks_quality_p_value=1	major_base=A	major_cov=7/31	major_frequency=6.667e-01	minor_base=G	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.333e-01	polymorphism_score=10.5	prediction=polymorphism	ref_cov=7/31	total_cov=27/31
RA	159	.	NZ_CP009273	4151070	0	C	A	bias_e_value=0.458341	bias_p_value=9.89624e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=130.2	fisher_strand_p_value=4.91597e-09	frequency=2.667e-01	ks_quality_p_value=1	major_base=C	major_cov=36/8	major_frequency=7.333e-01	minor_base=A	minor_cov=0/16	new_cov=0/16	polymorphism_frequency=2.667e-01	polymorphism_score=14.8	prediction=polymorphism	ref_cov=36/8	total_cov=36/24
RA	160	.	NZ_CP009273	4151076	0	G	A	bias_e_value=0.0538587	bias_p_value=1.16289e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=110.3	fisher_strand_p_value=5.19659e-10	frequency=3.000e-01	ks_quality_p_value=1	major_base=G	major_cov=35/7	major_frequency=7.000e-01	minor_base=A	minor_cov=0/18	new_cov=0/18	polymorphism_frequency=3.000e-01	polymorphism_score=17.5	prediction=polymorphism	ref_cov=35/7	total_cov=35/25
RA	161	.	NZ_CP009273	4245997	0	G	C	bias_e_value=1389.61	bias_p_value=0.000300036	consensus_reject=FREQUENCY_CUTOFF	consensus_score=75.8	fisher_strand_p_value=2.59567e-05	frequency=2.955e-01	ks_quality_p_value=1	major_base=G	major_cov=10/21	major_frequency=7.045e-01	minor_base=C	minor_cov=13/0	new_cov=13/0	polymorphism_frequency=2.955e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=10/21	total_cov=23/21
RA	162	.	NZ_CP009273	4265869	0	C	T	bias_e_value=160.882	bias_p_value=3.47367e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=96.2	fisher_strand_p_value=2.49912e-06	frequency=3.000e-01	ks_quality_p_value=1	major_base=C	major_cov=16/26	major_frequency=7.000e-01	minor_base=T	minor_cov=18/0	new_cov=18/0	polymorphism_frequency=3.000e-01	polymorphism_score=11.4	prediction=polymorphism	ref_cov=16/26	total_cov=34/26
RA	163	.	NZ_CP009273	4265885	0	A	G	bias_e_value=172.323	bias_p_value=3.72071e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=111.4	fisher_strand_p_value=2.69119e-06	frequency=2.969e-01	ks_quality_p_value=1	major_base=A	major_cov=18/27	major_frequency=7.031e-01	minor_base=G	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=2.969e-01	polymorphism_score=20.9	prediction=polymorphism	ref_cov=18/27	total_cov=37/27
RA	164	.	NZ_CP009273	4265953	0	C	T	bias_e_value=35.7684	bias_p_value=7.72291e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=129.7	fisher_strand_p_value=4.97835e-07	frequency=3.016e-01	ks_quality_p_value=1	major_base=C	major_cov=15/29	major_frequency=6.984e-01	minor_base=T	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.016e-01	polymorphism_score=12.9	prediction=polymorphism	ref_cov=15/29	total_cov=34/29
RA	165	.	NZ_CP009273	4277638	0	G	A	bias_e_value=1.42805e-06	bias_p_value=3.08335e-13	consensus_reject=FREQUENCY_CUTOFF	consensus_score=42.5	fisher_strand_p_value=9.25555e-15	frequency=4.600e-01	ks_quality_p_value=1	major_base=G	major_cov=27/0	major_frequency=5.400e-01	minor_base=A	minor_cov=0/23	new_cov=0/23	polymorphism_frequency=4.600e-01	polymorphism_score=31.4	prediction=polymorphism	ref_cov=27/0	total_cov=27/23
RA	166	.	NZ_CP009273	4277647	0	T	A	bias_e_value=0.672904	bias_p_value=1.4529e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=59.4	fisher_strand_p_value=7.3652e-09	frequency=3.958e-01	ks_quality_p_value=1	major_base=T	major_cov=24/5	major_frequency=6.042e-01	minor_base=A	minor_cov=0/19	new_cov=0/19	polymorphism_frequency=3.958e-01	polymorphism_score=31.4	prediction=polymorphism	ref_cov=24/5	total_cov=24/24
RA	167	.	NZ_CP009273	4326718	0	T	A	bias_e_value=545.853	bias_p_value=0.000117858	consensus_reject=FREQUENCY_CUTOFF	consensus_score=101.6	fisher_strand_p_value=1.0919e-05	frequency=2.692e-01	ks_quality_p_value=0.858148	major_base=T	major_cov=26/12	major_frequency=7.308e-01	minor_base=A	minor_cov=0/14	new_cov=0/14	polymorphism_frequency=2.692e-01	polymorphism_score=12.3	prediction=polymorphism	ref_cov=26/12	total_cov=26/27
RA	168	.	NZ_CP009273	4399174	0	T	A	bias_e_value=48.0875	bias_p_value=1.03828e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=184.0	fisher_strand_p_value=6.83238e-07	frequency=2.667e-01	ks_quality_p_value=1	major_base=T	major_cov=33/22	major_frequency=7.333e-01	minor_base=A	minor_cov=0/20	new_cov=0/20	polymorphism_frequency=2.667e-01	polymorphism_score=10.8	prediction=polymorphism	ref_cov=33/22	total_cov=33/42
RA	169	.	NZ_CP009273	4419801	0	T	G	bias_e_value=0.00840389	bias_p_value=1.81452e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=123.1	fisher_strand_p_value=7.46142e-11	frequency=3.676e-01	ks_quality_p_value=1	major_base=T	major_cov=10/33	major_frequency=6.324e-01	minor_base=G	minor_cov=25/0	new_cov=25/0	polymorphism_frequency=3.676e-01	polymorphism_score=18.3	prediction=polymorphism	ref_cov=10/33	total_cov=35/33
RA	170	.	NZ_CP009273	4419807	0	A	T	bias_e_value=133.151	bias_p_value=2.87491e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=148.5	fisher_strand_p_value=2.03847e-06	frequency=2.500e-01	ks_quality_p_value=1	major_base=A	major_cov=19/32	major_frequency=7.500e-01	minor_base=T	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.500e-01	polymorphism_score=11.8	prediction=polymorphism	ref_cov=19/32	total_cov=36/32
RA	171	.	NZ_CP009273	4419876	0	A	T	bias_e_value=190.557	bias_p_value=4.11439e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=172.6	fisher_strand_p_value=2.99947e-06	frequency=2.353e-01	ks_quality_p_value=1	major_base=A	major_cov=18/34	major_frequency=7.647e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.353e-01	polymorphism_score=12.7	prediction=polymorphism	ref_cov=18/34	total_cov=34/34
RA	172	.	NZ_CP009273	4431979	0	A	T	bias_e_value=127.41	bias_p_value=2.75097e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=128.4	fisher_strand_p_value=1.94404e-06	frequency=2.542e-01	ks_quality_p_value=1	major_base=A	major_cov=14/30	major_frequency=7.458e-01	minor_base=T	minor_cov=15/0	new_cov=15/0	polymorphism_frequency=2.542e-01	polymorphism_score=13.3	prediction=polymorphism	ref_cov=14/30	total_cov=29/30
RA	173	.	NZ_CP009273	4446922	0	A	G	bias_e_value=0.000150675	bias_p_value=3.25328e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=91.0	fisher_strand_p_value=1.14156e-12	frequency=3.774e-01	ks_quality_p_value=1	major_base=A	major_cov=2/31	major_frequency=6.226e-01	minor_base=G	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=3.774e-01	polymorphism_score=13.4	prediction=polymorphism	ref_cov=2/31	total_cov=23/31
RA	174	.	NZ_CP009273	4526014	0	A	T	bias_e_value=5.64193e-05	bias_p_value=1.21817e-11	consensus_reject=FREQUENCY_CUTOFF	consensus_score=75.4	fisher_strand_p_value=4.12716e-13	frequency=3.725e-01	ks_quality_p_value=1	major_base=A	major_cov=1/31	major_frequency=6.275e-01	minor_base=T	minor_cov=19/0	new_cov=19/0	polymorphism_frequency=3.725e-01	polymorphism_score=35.1	prediction=polymorphism	ref_cov=1/31	total_cov=20/31
RA	175	.	NZ_CP009273	4526015	0	G	T	bias_e_value=2.54443	bias_p_value=5.49378e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=110.7	fisher_strand_p_value=2.99836e-08	frequency=2.745e-01	ks_quality_p_value=1	major_base=G	major_cov=6/31	major_frequency=7.255e-01	minor_base=T	minor_cov=14/0	new_cov=14/0	polymorphism_frequency=2.745e-01	polymorphism_score=10.1	prediction=polymorphism	ref_cov=6/31	total_cov=20/31
RA	176	.	NZ_CP009273	4526029	0	T	A	bias_e_value=0.271666	bias_p_value=5.86566e-08	consensus_reject=FREQUENCY_CUTOFF	consensus_score=104.4	fisher_strand_p_value=2.83629e-09	frequency=3.137e-01	ks_quality_p_value=1	major_base=T	major_cov=5/30	major_frequency=6.863e-01	minor_base=A	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=3.137e-01	polymorphism_score=15.5	prediction=polymorphism	ref_cov=5/30	total_cov=21/30
RA	177	.	NZ_CP009273	4526060	0	C	T	bias_e_value=791.949	bias_p_value=0.000170993	consensus_reject=FREQUENCY_CUTOFF	consensus_score=117.8	fisher_strand_p_value=1.40468e-05	frequency=2.857e-01	ks_quality_p_value=1	major_base=C	major_cov=12/28	major_frequency=7.143e-01	minor_base=T	minor_cov=15/1	new_cov=15/1	polymorphism_frequency=2.857e-01	polymorphism_score=11.7	prediction=polymorphism	ref_cov=12/28	total_cov=27/29
RA	178	.	NZ_CP009273	4526064	0	G	T	bias_e_value=12.5581	bias_p_value=2.71147e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=130.4	fisher_strand_p_value=1.63055e-07	frequency=2.759e-01	ks_quality_p_value=1	major_base=G	major_cov=11/31	major_frequency=7.241e-01	minor_base=T	minor_cov=16/0	new_cov=16/0	polymorphism_frequency=2.759e-01	polymorphism_score=19.6	prediction=polymorphism	ref_cov=11/31	total_cov=27/32
RA	179	.	NZ_CP009273	4570447	0	A	T	bias_e_value=0.00175433	bias_p_value=3.78785e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=136.0	fisher_strand_p_value=1.45966e-11	frequency=3.235e-01	ks_quality_p_value=1	major_base=A	major_cov=8/38	major_frequency=6.765e-01	minor_base=T	minor_cov=22/0	new_cov=22/0	polymorphism_frequency=3.235e-01	polymorphism_score=20.6	prediction=polymorphism	ref_cov=8/38	total_cov=30/38
RA	180	.	NZ_CP009273	4570451	0	C	T	bias_e_value=0.00405672	bias_p_value=8.75904e-10	consensus_reject=FREQUENCY_CUTOFF	consensus_score=135.8	fisher_strand_p_value=3.49275e-11	frequency=3.239e-01	ks_quality_p_value=1	major_base=C	major_cov=10/38	major_frequency=6.761e-01	minor_base=T	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=3.239e-01	polymorphism_score=24.9	prediction=polymorphism	ref_cov=10/38	total_cov=33/38
RA	181	.	NZ_CP009273	4570457	0	C	T	bias_e_value=0.0255105	bias_p_value=5.50808e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=141.1	fisher_strand_p_value=2.37833e-10	frequency=3.333e-01	ks_quality_p_value=1	major_base=C	major_cov=11/35	major_frequency=6.667e-01	minor_base=T	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=3.333e-01	polymorphism_score=15.4	prediction=polymorphism	ref_cov=11/35	total_cov=34/35
RA	182	.	NZ_CP009273	4570459	0	G	T	bias_e_value=0.779422	bias_p_value=1.68288e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=164.9	fisher_strand_p_value=8.59857e-09	frequency=2.857e-01	ks_quality_p_value=1	major_base=G	major_cov=14/36	major_frequency=7.143e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=2.857e-01	polymorphism_score=14.1	prediction=polymorphism	ref_cov=14/36	total_cov=34/36
RA	183	.	NZ_CP009273	4570473	0	C	A	bias_e_value=116.211	bias_p_value=2.50917e-05	consensus_reject=FREQUENCY_CUTOFF	consensus_score=199.8	fisher_strand_p_value=1.76085e-06	frequency=2.394e-01	ks_quality_p_value=1	major_base=C	major_cov=20/34	major_frequency=7.606e-01	minor_base=A	minor_cov=17/0	new_cov=17/0	polymorphism_frequency=2.394e-01	polymorphism_score=19.5	prediction=polymorphism	ref_cov=20/34	total_cov=37/34
RA	184	.	NZ_CP009273	4570487	0	G	T	bias_e_value=0.0115934	bias_p_value=2.50319e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=177.2	fisher_strand_p_value=1.04373e-10	frequency=3.506e-01	ks_quality_p_value=1	major_base=G	major_cov=14/36	major_frequency=6.494e-01	minor_base=T	minor_cov=27/0	new_cov=27/0	polymorphism_frequency=3.506e-01	polymorphism_score=21.8	prediction=polymorphism	ref_cov=14/36	total_cov=41/36
RA	185	.	NZ_CP009273	4570552	0	G	T	bias_e_value=2.34899	bias_p_value=5.07181e-07	consensus_reject=FREQUENCY_CUTOFF	consensus_score=198.2	fisher_strand_p_value=2.75535e-08	frequency=3.026e-01	ks_quality_p_value=1	major_base=G	major_cov=19/34	major_frequency=6.974e-01	minor_base=T	minor_cov=23/0	new_cov=23/0	polymorphism_frequency=3.026e-01	polymorphism_score=23.7	prediction=polymorphism	ref_cov=19/34	total_cov=42/34
RA	186	.	NZ_CP009273	4570558	0	G	T	bias_e_value=38.8721	bias_p_value=8.39303e-06	consensus_reject=FREQUENCY_CUTOFF	consensus_score=217.0	fisher_strand_p_value=5.44153e-07	frequency=2.632e-01	ks_quality_p_value=1	major_base=G	major_cov=22/34	major_frequency=7.368e-01	minor_base=T	minor_cov=20/0	new_cov=20/0	polymorphism_frequency=2.632e-01	polymorphism_score=12.2	prediction=polymorphism	ref_cov=22/34	total_cov=42/34
RA	187	.	NZ_CP009273	4594161	0	C	T	bias_e_value=0.0398899	bias_p_value=8.61279e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=77.2	fisher_strand_p_value=3.79551e-10	frequency=4.000e-01	ks_quality_p_value=1	major_base=C	major_cov=8/28	major_frequency=6.000e-01	minor_base=T	minor_cov=24/0	new_cov=24/0	polymorphism_frequency=4.000e-01	polymorphism_score=24.8	prediction=polymorphism	ref_cov=8/28	total_cov=32/28
RA	188	.	NZ_CP009273	4594167	0	C	T	bias_e_value=0.00871714	bias_p_value=1.88215e-09	consensus_reject=FREQUENCY_CUTOFF	consensus_score=77.4	fisher_strand_p_value=7.75171e-11	frequency=4.167e-01	ks_quality_p_value=1	major_base=C	major_cov=7/28	major_frequency=5.833e-01	minor_base=T	minor_cov=25/0	new_cov=25/0	polymorphism_frequency=4.167e-01	polymorphism_score=23.0	prediction=polymorphism	ref_cov=7/28	total_cov=32/28
JC	189	.	NZ_CP009273	1	1	NZ_CP009273	4631469	-1	0	alignment_overlap=0	circular_chromosome=1	coverage_minus=40	coverage_plus=36	flanking_left=250	flanking_right=250	frequency=1	junction_possible_overlap_registers=247	key=NZ_CP009273__1__1__NZ_CP009273__4631469__-1__0____250__250__0__0	max_left=242	max_left_minus=242	max_left_plus=242	max_min_left=122	max_min_left_minus=122	max_min_left_plus=121	max_min_right=120	max_min_right_minus=120	max_min_right_plus=118	max_pos_hash_score=496	max_right=247	max_right_minus=247	max_right_plus=233	neg_log10_pos_hash_p_value=0.1	new_junction_coverage=1.19	new_junction_read_count=76	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=247	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=247	side_2_read_count=0	side_2_redundant=0	total_non_overlap_reads=76
JC	190	.	NZ_CP009273	360104	1	NZ_CP009273	360286	-1	0	alignment_overlap=0	coverage_minus=41	coverage_plus=4	flanking_left=250	flanking_right=250	frequency=5.844e-01	junction_possible_overlap_registers=247	key=NZ_CP009273__360104__1__NZ_CP009273__360286__-1__0____250__250__0__0	max_left=243	max_left_minus=243	max_left_plus=168	max_min_left=116	max_min_left_minus=116	max_min_left_plus=95	max_min_right=123	max_min_right_minus=123	max_min_right_plus=83	max_pos_hash_score=496	max_right=247	max_right_minus=247	max_right_plus=150	neg_log10_pos_hash_p_value=1.3	new_junction_coverage=0.70	new_junction_read_count=45	polymorphism_frequency=5.844e-01	pos_hash_score=40	prediction=polymorphism	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.41	side_1_overlap=0	side_1_possible_overlap_registers=247	side_1_read_count=26	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.59	side_2_overlap=0	side_2_possible_overlap_registers=247	side_2_read_count=38	side_2_redundant=0	total_non_overlap_reads=45
JC	191	.	NZ_CP009273	1203246	1	NZ_CP009273	1205075	1	0	alignment_overlap=16	coverage_minus=8	coverage_plus=12	flanking_left=250	flanking_right=250	frequency=2.573e-01	junction_possible_overlap_registers=231	key=NZ_CP009273__1203246__1__NZ_CP009273__1205059__1__16____250__250__0__0	max_left=223	max_left_minus=222	max_left_plus=223	max_min_left=109	max_min_left_minus=109	max_min_left_plus=94	max_min_right=73	max_min_right_minus=29	max_min_right_plus=73	max_pos_hash_score=464	max_right=232	max_right_minus=232	max_right_plus=215	neg_log10_pos_hash_p_value=4.1	new_junction_coverage=0.33	new_junction_read_count=20	polymorphism_frequency=2.573e-01	pos_hash_score=20	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.86	side_1_overlap=16	side_1_possible_overlap_registers=247	side_1_read_count=55	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.07	side_2_overlap=0	side_2_possible_overlap_registers=231	side_2_read_count=64	side_2_redundant=0	total_non_overlap_reads=20
JC	192	.	NZ_CP009273	1203261	-1	NZ_CP009273	1205058	-1	0	alignment_overlap=16	coverage_minus=5	coverage_plus=8	flanking_left=250	flanking_right=250	frequency=1.814e-01	junction_possible_overlap_registers=231	key=NZ_CP009273__1203261__-1__NZ_CP009273__1205074__-1__16____250__250__0__0	max_left=228	max_left_minus=222	max_left_plus=228	max_min_left=82	max_min_left_minus=82	max_min_left_plus=21	max_min_right=108	max_min_right_minus=58	max_min_right_plus=108	max_pos_hash_score=464	max_right=211	max_right_minus=191	max_right_plus=211	neg_log10_pos_hash_p_value=6.6	new_junction_coverage=0.22	new_junction_read_count=13	polymorphism_frequency=1.814e-01	pos_hash_score=12	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW,FREQUENCY_CUTOFF	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=0.89	side_1_overlap=16	side_1_possible_overlap_registers=247	side_1_read_count=57	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=1.07	side_2_overlap=0	side_2_possible_overlap_registers=231	side_2_read_count=64	side_2_redundant=0	total_non_overlap_reads=13
JC	193	.	NZ_CP009273	4532499	1	NZ_CP009273	4532813	1	0	alignment_overlap=9	coverage_minus=8	coverage_plus=5	flanking_left=250	flanking_right=250	frequency=2.021e-01	junction_possible_overlap_registers=238	key=NZ_CP009273__4532499__1__NZ_CP009273__4532804__1__9____250__250__0__0	max_left=226	max_left_minus=226	max_left_plus=208	max_min_left=117	max_min_left_minus=82	max_min_left_plus=117	max_min_right=118	max_min_right_minus=118	max_min_right_plus=75	max_pos_hash_score=478	max_right=231	max_right_minus=231	max_right_plus=202	neg_log10_pos_hash_p_value=6.4	new_junction_coverage=0.23	new_junction_read_count=14	polymorphism_frequency=2.021e-01	pos_hash_score=13	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.06	side_1_overlap=9	side_1_possible_overlap_registers=247	side_1_read_count=68	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.73	side_2_overlap=0	side_2_possible_overlap_registers=238	side_2_read_count=45	side_2_redundant=0	total_non_overlap_reads=13
JC	194	.	NZ_CP009273	4532507	-1	NZ_CP009273	4532803	-1	0	alignment_overlap=9	coverage_minus=6	coverage_plus=9	flanking_left=250	flanking_right=250	frequency=2.092e-01	junction_possible_overlap_registers=238	key=NZ_CP009273__4532507__-1__NZ_CP009273__4532812__-1__9____250__250__0__0	max_left=227	max_left_minus=227	max_left_plus=184	max_min_left=92	max_min_left_minus=58	max_min_left_plus=92	max_min_right=111	max_min_right_minus=111	max_min_right_plus=109	max_pos_hash_score=478	max_right=224	max_right_minus=184	max_right_plus=224	neg_log10_pos_hash_p_value=5.8	new_junction_coverage=0.24	new_junction_read_count=15	polymorphism_frequency=2.092e-01	pos_hash_score=15	prediction=polymorphism	reject=COVERAGE_EVENNESS_SKEW	side_1_annotate_key=gene	side_1_continuation=0	side_1_coverage=1.11	side_1_overlap=9	side_1_possible_overlap_registers=247	side_1_read_count=71	side_1_redundant=0	side_2_annotate_key=gene	side_2_continuation=0	side_2_coverage=0.73	side_2_overlap=0	side_2_possible_overlap_registers=238	side_2_read_count=45	side_2_redundant=0	total_non_overlap_reads=15
UN	195	.	NZ_CP009273	15601	16513
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UN	287	.	NZ_CP009273	4488224	4489105
UN	288	.	NZ_CP009273	4497512	4498270