breseq  version 0.35.4  revision f352f80f4bc9 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence	position	mutation	annotation	gene	description
MC JC	257,908	Δ776 bp		insB9–[crl]	insB9, insA9, [crl]
RA	1,091,695	G→A	Q199* (CAA→TAA)	pgaA ←	partially deacetylated poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine outer membrane porin
RA	1,529,218	C→T	pseudogene (1329/2049 nt)	rhsE →	RhsE protein in rhs element
RA	2,173,363	Δ2 bp	pseudogene (915‑916/1358 nt)	gatC ←	galactitol‑specific PTS enzyme IIC component
RA	3,560,455	+G	pseudogene (151/758 nt)	glpR ←	DNA‑binding transcriptional repressor GlpR
RA	3,815,810	Δ1 bp	intergenic (‑42/+53)	pyrE ← / ← rph	orotate phosphoribosyltransferase/truncated RNase PH
RA	4,296,381	+GC	intergenic (+587/+55)	gltP → / ← yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1978498	1979280	783	61 [54]	[55] 57	insB‑5–insA‑5	insB‑5,insA‑5
*	*	÷	NC_000913	3423865–3424501	3424501	1–637	57 [55]	[55] 56	[rrlD]	[rrlD]

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1299498	0 (0.000)	54 (0.390)	39/512	2.9	100%	intergenic (+253/‑33)	ychE/insH21	putative inner membrane protein/IS5 transposase and trans‑activator
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+151/‑484)	insH21/oppA	IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein
*	?	NC_000913	= 1978502	0 (0.000)	47 (0.350)	38/504	2.9	100%	intergenic (‑305/+16)	flhD/insB‑5	DNA‑binding transcriptional dual regulator FlhD/IS1 protein InsB
	?	NC_000913	1979279 =	0 (0.000)					intergenic (‑64/‑474)	insA‑5/uspC	IS1 protein InsA/universal stress protein C