breseq  version 0.27.1  revision 87c22d663cc3 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		[crl]	[crl]
RA	668,742	C→G	E99Q (GAA→CAA)	rsfS ←	ribosomal silencing factor
RA	701,378	C→A	G73C (GGC→TGC)	nagC ←	N‑acetylglucosamine‑inducible nag divergent operon transcriptional repressor
RA	2,173,363	Δ2 bp	intergenic (‑1/+1)	gatC ← / ← gatC	pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
RA	2,513,351	C→A	L104M (CTG→ATG)	nupC →	nucleoside (except guanosine) transporter
JC	3,411,485	Δ15 bp	coding (215‑229/297 nt)	fis →	global DNA‑binding transcriptional dual regulator
RA	3,560,455	+G	intergenic (‑2/+1)	glpR ← / ← glpR	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
RA	3,992,327	A→C	Q392P (CAG→CCG)	cyaA →	adenylate cyclase
RA	4,059,366	+T	coding (960/1824 nt)	typA →	GTP‑binding protein
RA	4,160,733	C→T	G20S (GGC→AGC)	sthA ←	pyridine nucleotide transhydrogenase, soluble
RA	4,160,854	C→T	intergenic (‑64/‑270)	sthA ← / → fabR	pyridine nucleotide transhydrogenase, soluble/transcriptional repressor of fabA and fabB
MC JC	4,233,804	1557 bp→83 bp	coding (47‑1603/1650 nt)	pgi →	glucosephosphate isomerase
RA	4,296,381	+GC	intergenic (+587/+55)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	582756	584683	1928	53 [48]	[52] 53	[ybcY]–[ompT]	[ybcY], ybcY, tfaX, appY, [ompT]
*	*	÷	NC_000913	1196777	1198675	1899	53 [51]	[42] 54	ymfD–ymfE	ymfD, ymfE
*	*	÷	NC_000913	1211033	1212788	1756	53 [52]	[52] 53	[mcrA]–[ycgX]	[mcrA], icdC, iraM, [ycgX]
*	*	÷	NC_000913	1529886	1530589	704	54 [51]	[52] 54	[rhsE]–[yncI]	[rhsE], ydcD, [yncI]
*	*	÷	NC_000913	1978318	1979738	1421	53 [52]	[51] 55	insB1–insA	insB1, insA
*	*	÷	NC_000913	2455517	2456217	701	53 [50]	[50] 59	[yfcV]	[yfcV]
*	*	÷	NC_000913	2469055	2470743	1689	57 [52]	[50] 53	[gtrB]–gtrS	[gtrB], gtrS
*	*	÷	NC_000913	2773240	2774041	802	53 [52]	[51] 54	[yfjW]	[yfjW]
*	*	÷	NC_000913	2785704	2786856	1153	53 [51]	[52] 54	ileY–[ygaQ]	ileY, [ygaQ]
*	*	÷	NC_000913	2903519	2904069	551	54 [51]	[52] 53	ygcE/queE	putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
*	*	÷	NC_000913	2905466	2905802	337	53 [51]	[52] 53	yqcG–[ygcG]	yqcG, [ygcG]
*	*	÷	NC_000913	2990652	2991421	770	55 [51]	[52] 53	[ygeF]–[ygeG]	[ygeF], ygeF, [ygeG]
*	*	÷	NC_000913	3267785	3269749	1965	56 [51]	[50] 54	yhaB–yhaC	yhaB, yhaC
*	*	÷	NC_000913	3423828–3424233	3424530–3424238	6–703	53 [52]	[52] 54	[rrlD]	[rrlD]
*	*	÷	NC_000913	3796896	3800483	3588	53 [52]	[52] 53	[waaC]–[waaY]	[waaC], waaL, waaU, waaZ, [waaY]
*	*	÷	NC_000913	3804093	3805221	1129	53 [52]	[52] 53	[waaB]–[waaP]	[waaB], waaS, [waaP]