breseq  version 0.35.4  revision f352f80f4bc9 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
*	NC_000913	1,577,123	0	A	C	30.0%	83.8 / 15.9	50	V166G (GTA→GGA)	yddB	putative TonB‑dependent receptor
*	NC_000913	3,206,435	0	C	T	30.0%	48.4 / 14.9	30	intergenic (‑179/‑28)	ttdR/ttdA	DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha
*	NC_000913	2,001,918	0	A	C	28.6%	56.7 / 10.8	35	intergenic (‑129/+192)	fliA/fliC	RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein
*	NC_000913	3,404,215	0	T	G	28.1%	51.2 / 10.3	32	G244G (GGT→GGG)	yhdH	acrylyl‑CoA reductase
*	NC_000913	4,296,060	0	C	T	25.4%	110.1 / 35.0	59	intergenic (+266/+376)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
*	NC_000913	3,003,480	0	A	G	24.4%	75.2 / 11.5	41	G289G (GGA→GGG)	xdhB	putative xanthine dehydrogenase FAD‑binding subunit XdhB
*	NC_000913	646,747	0	T	G	23.5%	65.0 / 11.1	34	T255P (ACC→CCC)	citG	triphosphoribosyl‑dephospho‑CoA synthase
*	NC_000913	4,568,512	0	C	A	21.7%	136.3 / 10.4	46	R3L (CGT→CTT)	mdtM	multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4542690	62 (1.350)	8 (0.190)	8/258	3.0	12.3%	intergenic (+57/‑425)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
	?	NC_000913	= 4542986	56 (1.310)					intergenic (+353/‑129)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
*	?	NC_000913	374945 =	NA (NA)	7 (0.150) +T	4/274	4.6	NA	noncoding (15/34 nt)	other	REP31a
	?	NC_000913	377408 =	NA (NA)					noncoding (15/34 nt)	other	REP32b