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 47 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,929,812	0	G	A	77.2%	170.6 / 53.1	101	intergenic (‑895/‑273)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,925	0	T	A	72.9%	182.4 / 68.4	107	intergenic (‑1008/‑160)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,804	0	A	G	72.0%	114.1 / 45.9	78	intergenic (‑887/‑281)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,928	0	T	A	72.0%	170.9 / 79.7	107	intergenic (‑1011/‑157)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,930	0	T	A	71.7%	164.0 / 81.6	107	intergenic (‑1013/‑155)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,917	0	C	T	71.7%	177.7 / 91.5	128	intergenic (‑1000/‑168)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,918	0	A	G	71.7%	199.0 / 81.9	127	intergenic (‑1001/‑167)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,941	0	A	T	68.8%	133.2 / 81.7	96	intergenic (‑1024/‑144)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,796	0	T	C	67.1%	79.7 / 62.7	79	intergenic (‑879/‑289)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,797	0	G	A	66.7%	60.3 / 66.1	79	intergenic (‑880/‑288)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,862	1	.	T	66.0%	382.1 / 207.6	159	intergenic (‑945/‑223)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,799	0	C	A	65.8%	64.2 / 72.9	79	intergenic (‑882/‑286)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,865	0	A	C	65.4%	205.0 / 138.0	159	intergenic (‑948/‑220)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	35,876	0	C	T	64.0%	‑1.6 / 132.6	139	intergenic (+107/+1)	rlmH/tpn	hypothetical protein/IS431mec transposase
*	CP000730	36,413	0	C	T	62.6%	288.1 / inf	481	V47I (GTC→ATC)	tpn	IS431mec transposase
*	CP000730	36,087	0	A	G	62.5%	733.8 / inf	913	C155C (TGT→TGC)	tpn	IS431mec transposase
*	CP000730	36,124	0	G	A	61.3%	389.7 / inf	660	A143V (GCT→GTT)	tpn	IS431mec transposase
*	CP000730	76,295	0	T	C	60.6%	407.8 / inf	651	intergenic (+353/‑781)	USA300HOU_0072/USA300HOU_0075	universal stress protein/lysophospholipase
*	CP000730	35,970	0	T	C	60.0%	371.3 / inf	614	E194E (GAA→GAG)	tpn	IS431mec transposase
*	CP000730	76,322	0	G	A	59.8%	322.4 / inf	615	intergenic (+380/‑754)	USA300HOU_0072/USA300HOU_0075	universal stress protein/lysophospholipase

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 =	50 (1.230)	102 (2.520) +T	3/278	5.3	65.5%	intergenic (+105/‑568)	USA300HOU_0043/USA300HOU_0044	hypothetical membrane protein/possible transcriptional regulator
	?	CP000730	= 52988	58 (1.420)					intergenic (+598/‑75)	USA300HOU_0043/USA300HOU_0044	hypothetical membrane protein/possible transcriptional regulator