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	366,521	0	C	T	46.8%	30.8 / inf	235	L330L (CTG→CTA)	lacI	DNA‑binding transcriptional repressor LacI
*	NC_000913	4,296,060	0	C	T	33.3%	231.2 / 179.1	183	intergenic (+266/+376)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO

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	1207790 =	114 (0.790)	48 (0.400)	38/164	4.5	33.5%	coding (290/630 nt)	ycfK	e14 prophage; protein StfP
	?	NC_000913	1209619 =	95 (0.790)					pseudogene (37/537 nt)	stfE	e14 prophage; putative side tail fiber protein fragment
*	?	NC_000913	= 1207805	122 (0.850)	39 (0.330)	33/164	5.7	28.8%	coding (305/630 nt)	ycfK	e14 prophage; protein StfP
	?	NC_000913	= 1209602	91 (0.760)					pseudogene (54/537 nt)	stfE	e14 prophage; putative side tail fiber protein fragment
*	?	NC_000913	= 1209618	119 (0.830)	6 (0.050)	6/166	17.5	4.6%	pseudogene (38/537 nt)	stfE	e14 prophage; putative side tail fiber protein fragment
	?	NC_000913	2471897 =	147 (1.210)					pseudogene (166/519 nt)	yfdL	CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL
*	?	NC_000913	= 4542690	218 (1.520)	6 (0.050)	6/178	18.4	3.1%	intergenic (+57/‑425)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
	?	NC_000913	= 4542986	172 (1.320)					intergenic (+353/‑129)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit