breseq  version 0.33.1  revision 8505477f25b3 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 71 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	36,378	0	C	T	78.7%	405.1 / 191.4	378	L58L (TTG→TTA)	tpn	IS431mec transposase
*	CP000730	1,233,504	0	T	A	72.1%	91.4 / 49.7	68	V470D (GTT→GAT)	prkC	non‑specific serine/threonine protein kinase
*	CP000730	707,910	0	A	G	65.6%	72.5 / 44.4	64	intergenic (‑1/‑121)	mntB/sirR	ABC superfamily ATP binding cassette transporter, ABC protein/possible metal‑dependent transcriptional regulator
*	CP000730	1,744,362	0	G	A	64.4%	80.3 / 74.8	87	H104Y (CAC→TAC)	apt	adenine phosphoribosyltransferase
*	CP000730	2,028,583	0	G	T	63.4%	34.8 / 75.4	71	A21D (GCC→GAC)	yvqF	hypothetical membrane protein
*	CP000730	1,064,444	0	A	.	63.1%	63.1 / 107.6	65	coding (45/1218 nt)	brpA	LytR family transcriptional regulator
*	CP000730	933,033	0	T	C	61.2%	54.7 / 57.7	67	intergenic (‑74/‑27)	nifU/USA300HOU_0898	possible NifU family protein/hypothetical protein
*	CP000730	1,440,085	0	G	T	60.3%	36.1 / 60.3	59	intergenic (‑45/‑891)	cspA/xpaC	cold shock protein CspA/5‑bromo‑4‑chloroindolyl phosphate hydrolysis protein XpaC
*	CP000730	396,540	0	G	A	59.1%	54.5 / 91.7	89	A208T (GCA→ACA)	USA300HOU_0364	possible lipoprotein
*	CP000730	607,884	0	G	A	59.0%	35.2 / 82.3	80	R209* (CGA→TGA)	dck	deoxynucleoside kinase
*	CP000730	629,681	0	C	A	58.7%	26.3 / 69.4	63	L84I (CTA→ATA)	hxlA	possible 3‑hexulose‑6‑phosphate synthase
*	CP000730	665,392	0	T	G	58.0%	33.2 / 71.7	69	L79* (TTA→TGA)	iolS	possible acetytransferase
*	CP000730	804,673	0	A	T	57.4%	18.9 / 67.3	61	L135I (TTA→ATA)	dtpT	POT family proton (H+)‑dependent oligopeptide transporter
*	CP000730	2,352,815	0	G	A	57.4%	30.5 / 75.1	70	A92V (GCA→GTA)	rpsI	ribosomal protein S9
*	CP000730	195,286	0	T	A	56.7%	54.3 / 100.0	90	intergenic (‑97/‑82)	USA300HOU_0183/USA300HOU_0184	hypothetical protein/hypothetical protein
*	CP000730	36,269	0	C	T	56.6%	59.1 / inf	444	A95T (GCA→ACA)	tpn	IS431mec transposase
*	CP000730	2,289,257	0	A	C	56.5%	11.9 / 57.1	63	V78G (GTA→GGA)	ybbP	hypothetical membrane protein
*	CP000730	35,970	0	T	C	56.1%	147.6 / inf	345	E194E (GAA→GAG)	tpn	IS431mec transposase
*	CP000730	76,295	0	T	C	55.8%	104.7 / inf	360	intergenic (+353/‑781)	USA300HOU_0072/USA300HOU_0075	universal stress protein/lysophospholipase
*	CP000730	36,315	0	G	A	55.7%	39.7 / inf	476	Y79Y (TAC→TAT)	tpn	IS431mec transposase

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	52495 =	66 (0.890)	120 (1.640) +T	6/282	8.5	62.7%	intergenic (+105/‑568)	USA300HOU_0043/USA300HOU_0044	hypothetical membrane protein/possible transcriptional regulator
	?	CP000730	= 52988	78 (1.060)					intergenic (+598/‑75)	USA300HOU_0043/USA300HOU_0044	hypothetical membrane protein/possible transcriptional regulator