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 52 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,929,873	0	C	A	71.4%	56.6 / 47.1	50	intergenic (‑956/‑212)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	512,643	0	A	G	70.3%	44.9 / 25.9	37	intergenic (+711/‑150)	recR/rrs1	recombination protein RecR/16S ribosomal RNA
*	CP000730	1,929,861	0	T	C	70.0%	70.4 / 32.2	50	intergenic (‑944/‑224)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,870	0	A	C	70.0%	100.0 / 36.2	50	intergenic (‑953/‑215)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,872	0	G	A	70.0%	68.1 / 35.6	50	intergenic (‑955/‑213)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,875	0	T	C	70.0%	72.8 / 31.4	50	intergenic (‑958/‑210)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,842	0	T	.	67.3%	75.2 / 76.1	53	intergenic (‑925/‑243)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,941	0	A	T	66.7%	27.9 / 14.2	21	intergenic (‑1024/‑144)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,843	0	A	.	66.0%	72.9 / 77.3	53	intergenic (‑926/‑242)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,867	0	G	T	65.4%	46.1 / 56.7	52	intergenic (‑950/‑218)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,848	0	C	A	64.8%	42.5 / 64.6	54	intergenic (‑931/‑237)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,866	0	G	T	64.7%	44.6 / 55.6	52	intergenic (‑949/‑219)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,925	0	T	A	64.0%	21.3 / 24.0	25	intergenic (‑1008/‑160)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,928	0	T	A	64.0%	24.0 / 25.1	25	intergenic (‑1011/‑157)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,930	0	T	A	64.0%	27.4 / 22.5	25	intergenic (‑1013/‑155)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,946	0	G	A	63.2%	10.9 / 15.9	19	intergenic (‑1029/‑139)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,917	0	C	T	62.2%	24.7 / 33.9	37	intergenic (‑1000/‑168)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	1,929,918	0	A	G	62.2%	29.9 / 32.3	37	intergenic (‑1001/‑167)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
*	CP000730	36,087	0	A	G	58.9%	195.1 / inf	310	C155C (TGT→TGC)	tpn	IS431mec transposase
*	CP000730	1,929,865	0	A	C	58.8%	55.2 / 53.6	51	intergenic (‑948/‑220)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	368774 =	28 (1.180)	4 (0.180)	4/258	1.6	14.3%	intergenic (+208/+70)	nagC/USA300HOU_0337	possible transcriptional regulator/possible RpiR family transcriptional regulator
	?	CP000730	368825 =	21 (0.920)					intergenic (+259/+19)	nagC/USA300HOU_0337	possible transcriptional regulator/possible RpiR family transcriptional regulator