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

Marginal read alignment evidence
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	512,643	0	A	G	69.0%	45.1 / 25.0	42	intergenic (+711/‑6052)	recR/speA_2	Recombination protein RecR/Arginine decarboxylase
*	USA300TCH1516_ALE	111,516	0	C	A	25.8%	46.4 / 11.6	32	Q196K (CAA→AAA)	USA300HOU_RS00520	putative lipoprotein

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	1665543 =	22 (0.970)	3 (0.140)	3/254	2.6	13.0%	coding (270/411 nt)	zur	Zinc‑specific metallo‑regulatory protein
	?	USA300TCH1516_ALE	= 1665539	20 (0.960)					coding (274/411 nt)	zur	Zinc‑specific metallo‑regulatory protein
*	?	USA300TCH1516_ALE	= 912892	21 (0.920)	3 (0.140)	3/268	2.7	12.4%	coding (317/1308 nt)	sufB_1	FeS cluster assembly protein SufB
	?	USA300TCH1516_ALE	= 912909	22 (1.000)					coding (334/1308 nt)	sufB_1	FeS cluster assembly protein SufB
*	?	NC_012417	2664 =	702 (1.070)	4 (0.010)	4/270	50.1	0.58%	coding (11/582 nt)	USA300HOU_RS14900	hypothetical protein
	?	NC_012417	2715 =	686 (1.070)					intergenic (‑41/–)	USA300HOU_RS14900/–	hypothetical protein/–
*	?	NC_012417	2464 =	671 (1.020)	4 (0.010)	3/262	50.5	0.64%	coding (211/582 nt)	USA300HOU_RS14900	hypothetical protein
	?	NC_012417	2498 =	603 (0.970)					coding (177/582 nt)	USA300HOU_RS14900	hypothetical protein