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	3,556,205	0	A	C	42.9%	18.0 / 11.4	21	S215R (AGT→AGG) ‡	rtcA	RNA 3'‑terminal phosphate cyclase
*	NC_000913	3,556,207	0	T	C	42.9%	13.0 / 13.1	21	S215G (AGT→GGT) ‡	rtcA	RNA 3'‑terminal phosphate cyclase
*	NC_000913	2,001,918	0	A	C	34.5%	42.3 / 13.9	29	intergenic (‑129/+192)	fliA/fliC	RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein
*	NC_000913	4,604,344	0	C	T	32.5%	61.7 / 18.8	40	S62F (TCT→TTT)	bglJ	DNA‑binding transcriptional regulator BglJ
*	NC_000913	2,667,126	0	A	C	31.6%	63.9 / 10.1	38	Y241D (TAT→GAT)	hcaT	putative 3‑phenylpropionate transporter
*	NC_000913	2,405,832	0	C	.	25.6%	117.7 / 36.3	43	coding (810/939 nt)	lrhA	DNA‑binding transcriptional dual regulator LrhA
*	NC_000913	2,405,833	0	G	.	25.6%	119.0 / 36.2	43	coding (809/939 nt)	lrhA	DNA‑binding transcriptional dual regulator LrhA
*	NC_000913	3,926,366	0	A	C	24.5%	97.6 / 12.4	49	G30G (GGT→GGG)	mioC	flavoprotein MioC

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	1979486 =	45 (1.020)	19 (0.430)	5/276	3.8	29.7%	intergenic (‑271/‑267)	insA‑5/uspC	IS1 protein InsA/universal stress protein C
	?	NC_000913	2101749 =	NA (NA)					noncoding (1195/1195 nt)	IS5	repeat region