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 58 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	36,087	0	A	G	65.5%	377.4 / inf	358	C155C (TGT→TGC)	tpn	IS431mec transposase
*	CP000730	76,295	0	T	C	63.5%	262.8 / 296.2	302	intergenic (+353/‑781)	USA300HOU_0072/USA300HOU_0075	universal stress protein/lysophospholipase
*	CP000730	76,322	0	G	A	62.8%	212.1 / 302.9	282	intergenic (+380/‑754)	USA300HOU_0072/USA300HOU_0075	universal stress protein/lysophospholipase
*	CP000730	36,124	0	G	A	62.5%	169.6 / 279.8	267	A143V (GCT→GTT)	tpn	IS431mec transposase
*	CP000730	35,970	0	T	C	59.2%	180.7 / 264.7	234	E194E (GAA→GAG)	tpn	IS431mec transposase
*	CP000730	76,353	0	G	A	58.3%	123.9 / 267.6	218	intergenic (+411/‑723)	USA300HOU_0072/USA300HOU_0075	universal stress protein/lysophospholipase
*	CP000730	1,929,870	0	A	C	57.5%	53.6 / 82.8	73	intergenic (‑953/‑215)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,842	0	T	.	56.9%	14.1 / 157.7	72	intergenic (‑925/‑243)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,843	0	A	.	56.9%	15.1 / 157.2	72	intergenic (‑926/‑242)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,872	0	G	A	56.9%	19.0 / 89.8	72	intergenic (‑955/‑213)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,873	0	C	A	56.9%	5.0 / 108.6	72	intergenic (‑956/‑212)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,861	0	T	C	56.2%	31.9 / 81.6	73	intergenic (‑944/‑224)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,875	0	T	C	56.2%	34.0 / 82.5	73	intergenic (‑958/‑210)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,848	0	C	A	55.4%	‑4.3 / 110.1	74	intergenic (‑931/‑237)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,866	0	G	T	54.8%	‑4.2 / 118.0	74	intergenic (‑949/‑219)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,812	0	G	A	54.4%	3.7 / 73.4	57	intergenic (‑895/‑273)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,867	0	G	T	52.7%	2.9 / 123.5	74	intergenic (‑950/‑218)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	36,315	0	G	A	52.7%	0.7 / inf	359	Y79Y (TAC→TAT)	tpn	IS431mec transposase
*	CP000730	36,269	0	C	T	52.3%	47.6 / inf	391	A95T (GCA→ACA)	tpn	IS431mec transposase
*	CP000730	35,876	0	C	T	51.8%	30.5 / 77.9	54	intergenic (+107/+1)	rlmH/tpn	hypothetical protein/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	2085296 =	29 (0.830)	4 (0.130)	4/252	3.2	14.8%	intergenic (‑558/‑400)	mapW2/USA300HOU_1944	cell surface protein MapW2/hypothetical protein
	?	CP000730	= 2128343	20 (0.630)					intergenic (+57/+1062)	int/hlgB	bacteriophage integrase/possible leukocidin subunit
*	?	CP000730	= 800928	28 (0.800)	4 (0.120)	4/266	3.4	14.9%	intergenic (+62/‑289)	hisC1/USA300HOU_0748	histidinol‑phosphate transaminase/hypothetical protein
	?	CP000730	801948 =	19 (0.570)					intergenic (+189/+435)	USA300HOU_0748/dgkA1	hypothetical protein/possible diacylglycerol kinase