breseq  version 0.29.0  revision 8f9c342918e4 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 229 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	61.9%	‑6.1 / 19.6	21	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	357,880	0	T	C	57.9%	‑0.8 / 19.6	20	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	357,875	0	A	T	57.1%	‑2.1 / 24.1	21	N272K (AAT→AAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	2,228,275	0	T	C	53.1%	25.5 / 38.3	32	pseudogene (335/1287 nt)	mdtQ	pseudogene; putative channel/filament proteins
*	NC_000913	298,960	0	A	C	51.2%	42.2 / 70.4	41	Y659D (TAT→GAT)	paoC	PaoABC aldehyde oxidoreductase, Moco‑containing subunit
*	NC_000913	354,288	0	T	G	48.4%	82.3 / 17.5	62	V528G (GTG→GGG)	prpE	propionate‑‑CoA ligase
*	NC_000913	4,171,882	0	C	G	47.1%	39.0 / 22.7	34	intergenic (+126/‑175)	rrfB/murB	5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding
*	NC_000913	1,736,789	0	G	C	46.7%	42.6 / 11.4	31	L168V (CTG→GTG)	ydhP	putative MFS transporter, inner membrane protein
*	NC_000913	2,984,441	0	A	C	46.6%	115.2 / 25.5	73	G384G (GGT→GGG)	yqeF	short chain acyltransferase
*	NC_000913	2,624,514	0	A	T	45.3%	79.1 / 37.2	64	I491F (ATT→TTT)	ppk	polyphosphate kinase, component of RNA degradosome
*	NC_000913	1,764,783	0	C	A	44.7%	53.3 / 16.9	38	intergenic (‑397/+151)	sufA/ydiH	Fe‑S cluster assembly protein/uncharacterized protein
*	NC_000913	1,478,324	0	T	G	44.4%	74.1 / 11.5	45	G33G (GGT→GGG)	ynbB	putative CDP‑diglyceride synthase
*	NC_000913	2,903,692	0	C	A	43.5%	129.9 / 68.9	92	intergenic (+318/+1055)	ygcE/queE	putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
*	NC_000913	2,434,882	0	T	G	43.2%	150.5 / 35.7	96	Y252S (TAC→TCC)	truA	tRNA pseudouridine(38‑40) synthase
*	NC_000913	1,510,395	0	C	A	42.9%	87.9 / 23.5	49	S131R (AGC→AGA)	ydcR	putative DNA‑binding transcriptional regulator and putative aminotransferase
*	NC_000913	3,740	0	C	A	42.4%	53.5 / 10.6	33	L3I (CTC→ATC)	thrC	L‑threonine synthase
*	NC_000913	2,810,756	0	G	T	42.4%	109.0 / 142.0	99	intergenic (+77/‑14)	ygaH/mprA	putative L‑valine exporter, norvaline resistance protein/transcriptional repressor of microcin B17 synthesis and multidrug efflux
*	NC_000913	3,665,702	0	C	A	42.2%	71.9 / 23.4	45	A37S (GCG→TCG)	gadX	acid resistance regulon transcriptional activator; autoactivator
*	NC_000913	121,507	0	A	T	41.5%	55.7 / 14.2	41	L15L (CTT→CTA)	aroP	aromatic amino acid transporter
*	NC_000913	3,133,302	0	T	G	41.5%	59.6 / 10.2	41	H219P (CAC→CCC)	yghS	putative ATP‑binding protein

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	1207790 =	45 (0.860)	6 (0.130)	6/266	6.3	13.0%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	40 (0.860)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1207805	45 (0.860)	5 (0.110)	5/266	6.9	11.1%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	40 (0.860)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related