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	4,296,060	0	C	T	34.4%	40.8 / 27.1	32	intergenic (+266/+376)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
*	NC_000913	2,326,450	0	T	G	33.3%	18.3 / 14.6	21	G114G (GGT→GGG)	atoB	acetyl‑CoA acetyltransferase
*	NC_000913	2,001,918	0	A	C	31.4%	51.9 / 16.0	35	intergenic (‑129/+192)	fliA/fliC	RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein
*	NC_000913	29,496	0	T	A	26.7%	64.3 / 10.2	30	intergenic (+301/‑155)	dapB/carA	4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha

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	= 374958	NA (NA)	3 (0.110)	3/202	3.1	NA	noncoding (28/34 nt)	other	REP31a
	?	NC_000913	= 377392	NA (NA)					noncoding (31/34 nt)	other	REP32b
*	?	NC_000913	4542682 =	29 (0.790)	3 (0.090)	3/258	3.8	7.6%	intergenic (+49/‑433)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
	?	NC_000913	4542996 =	46 (1.350)					intergenic (+363/‑119)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
*	?	NC_000913	= 1615389	31 (0.850)	3 (0.080)	3/274	3.9	9.0%	coding (586/882 nt)	yneJ	putative LysR‑type DNA‑binding transcriptional regulator YneJ
	?	NC_000913	1615393 =	30 (0.830)					coding (590/882 nt)	yneJ	putative LysR‑type DNA‑binding transcriptional regulator YneJ