breseq  version 0.35.4  revision f352f80f4bc9 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 67 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	454,919	0	G	T	65.8%	2.9 / 27.2	41	intergenic (+130/‑214)	bolA/tig	DNA‑binding transcriptional dual regulator BolA/trigger factor
*	NC_000913	2,177,255	0	G	T	60.8%	15.7 / 31.1	51	intergenic (‑51/+257)	gatY/fbaB	tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I
*	NC_000913	2,177,245	0	G	T	58.1%	2.7 / 20.2	46	intergenic (‑41/+267)	gatY/fbaB	tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I
*	NC_000913	2,470,427	0	C	A	57.6%	2.6 / 25.8	33	Q433K (CAA→AAA)	yfdI	CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase
*	NC_000913	454,926	0	G	A	56.7%	‑0.7 / 32.9	42	intergenic (+137/‑207)	bolA/tig	DNA‑binding transcriptional dual regulator BolA/trigger factor
*	NC_000913	454,933	0	T	A	56.1%	‑4.6 / 23.6	42	intergenic (+144/‑200)	bolA/tig	DNA‑binding transcriptional dual regulator BolA/trigger factor
*	NC_000913	2,177,221	0	T	G	56.0%	‑5.4 / 43.2	51	intergenic (‑17/+291)	gatY/fbaB	tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I
*	NC_000913	4,220,007	0	T	G	51.8%	3.2 / 22.5	27	V471G (GTG→GGG)	aceK	isocitrate dehydrogenase kinase/phosphatase
*	NC_000913	454,934	0	A	C	51.2%	‑0.2 / 33.4	43	intergenic (+145/‑199)	bolA/tig	DNA‑binding transcriptional dual regulator BolA/trigger factor
*	NC_000913	2,794,060	0	T	G	50.0%	36.0 / 14.5	43	intergenic (+45/‑193)	gabT/gabP	4‑aminobutyrate aminotransferase GabT/4‑aminobutyrate:H(+) symporter
*	NC_000913	454,906	0	G	T	46.4%	‑5.1 / 13.6	40	intergenic (+117/‑227)	bolA/tig	DNA‑binding transcriptional dual regulator BolA/trigger factor
*	NC_000913	2,139,598	0	T	G	44.1%	15.1 / 14.3	41	intergenic (+113/+161)	yegH/asmA	inner membrane protein YegH/putative assembly protein AsmA
*	NC_000913	2,177,228	0	C	G	44.1%	20.1 / 25.1	53	intergenic (‑24/+284)	gatY/fbaB	tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I
*	NC_000913	580,759	0	G	C	43.9%	69.1 / 12.6	44	intergenic (‑314/‑75)	ylcI/nohD	DLP12 prophage; DUF3950 domain‑containing protein YlcI/DLP12 prophage; putative DNA‑packaging protein NohD
*	NC_000913	2,177,234	0	C	A	43.8%	20.0 / 11.3	51	intergenic (‑30/+278)	gatY/fbaB	tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I
*	NC_000913	707,976	0	T	G	41.5%	29.3 / 10.8	41	intergenic (+219/‑358)	glnS/chiP	glutamine‑‑tRNA ligase/chitobiose outer membrane channel
*	NC_000913	2,794,048	0	T	G	41.5%	36.7 / 12.7	41	intergenic (+33/‑205)	gabT/gabP	4‑aminobutyrate aminotransferase GabT/4‑aminobutyrate:H(+) symporter
*	NC_000913	454,903	0	G	C	41.2%	17.0 / 10.2	41	intergenic (+114/‑230)	bolA/tig	DNA‑binding transcriptional dual regulator BolA/trigger factor
*	NC_000913	4,143,576	0	A	C	40.5%	52.4 / 10.5	42	E349D (GAA→GAC)	frwC	putative PTS enzyme IIC component FrwC
*	NC_000913	2,470,411	0	A	T	40.0%	26.5 / 22.4	40	L427F (TTA→TTT)	yfdI	CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1467910 =	NA (NA)	5 (0.080)	4/258	5.6	NA	noncoding (1331/1331 nt)	IS2	repeat region
	?	NC_000913	= 1469241	NA (NA)					intergenic (‑92/‑5)	insC‑2/ydbA	IS2 insertion element repressor InsA/putative outer membrane protein, N‑terminal fragment
*	?	NC_000913	1467910 =	NA (NA)	3 (0.050)	3/258	6.2	NA	noncoding (1331/1331 nt)	IS2	repeat region
	?	NC_000913	= 1469242	NA (NA)					intergenic (‑93/‑4)	insC‑2/ydbA	IS2 insertion element repressor InsA/putative outer membrane protein, N‑terminal fragment