breseq  version 0.33.1  revision 8505477f25b3 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	1,529,175	T→C	pseudogene (1274/2037 nt)	rhsE →	pseudogene, Rhs family
RA	1,529,180	T→C	pseudogene (1279/2037 nt)	rhsE →	pseudogene, Rhs family
RA	1,529,185	C→T	pseudogene (1284/2037 nt)	rhsE →	pseudogene, Rhs family
RA	1,529,203	C→A	pseudogene (1302/2037 nt)	rhsE →	pseudogene, Rhs family
RA	1,529,218	C→T	pseudogene (1317/2037 nt)	rhsE →	pseudogene, Rhs family
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	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	4,070,814	G→A	R315C (CGT→TGT)	yihS ←	sulphoquinovose isomerase
RA	4,075,135	T→G	I156S (ATC→AGC)	yihW →	putative transcriptional regulator for sulphoquinovose utilization
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	576773	577188	416	34 [26]	[27] 28	[nmpC]	[nmpC]
*	*	÷	NC_000913	583074	584674	1601	29 [27]	[27] 29	[tfaX]–appY	[tfaX],appY
*	*	÷	NC_000913	954508	954865	358	28 [26]	[27] 29	focA/ycaO	formate channel/ribosomal protein S12 methylthiotransferase accessory factor
*	*	÷	NC_000913	1103239	1103640	402	28 [27]	[26] 28	csgD/csgB	csgBAC operon transcriptional regulator/curlin nucleator protein, minor subunit in curli complex
*	*	÷	NC_000913	1211101	1212749	1649	28 [27]	[23] 28	[mcrA]–[ycgX]	[mcrA],icdC,iraM,[ycgX]
*	*	÷	NC_000913	1299309	1300851	1543	29 [26]	[27] 28	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
*	*	÷	NC_000913	1526767	1527765	999	29 [27]	[27] 28	[yncG]–yncH	[yncG],yncH
*	*	÷	NC_000913	1529946	1530516	571	29 [25]	[27] 30	[ydcD]	[ydcD]
*	*	÷	NC_000913	1978418	1979676	1259	29 [26]	[27] 28	insB1–insA	insB1,insA
*	*	÷	NC_000913	2469109	2469905	797	29 [27]	[26] 28	[gtrB]–[gtrS]	[gtrB],[gtrS]
*	*	÷	NC_000913	2470040	2470507	468	28 [27]	[26] 33	[gtrS]	[gtrS]
*	*	÷	NC_000913	2774238	2775205	968	29 [25]	[26] 29	[yfjW]	[yfjW]
*	*	÷	NC_000913	2784474	2785534	1061	29 [27]	[26] 30	[ypjC]	[ypjC]
*	*	÷	NC_000913	2903550	2904126	577	28 [27]	[25] 28	ygcE/queE	putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
*	*	÷	NC_000913	3136438	3136655	218	29 [27]	[27] 28	pitB/gss	phosphate transporter/glutathionylspermidine amidase and glutathionylspermidine synthetase
*	*	÷	NC_000913	3268744	3269708	965	29 [26]	[27] 28	[yhaC]	[yhaC]
*	*	÷	NC_000913	3360855	3361245	391	29 [27]	[27] 28	[gltF]	[gltF]
*	*	÷	NC_000913	3455368	3455805	438	28 [26]	[27] 29	[gspA]–[gspC]	[gspA],[gspC]
*	*	÷	NC_000913	3581688	3582295	608	28 [25]	[27] 29	[yhhZ]	[yhhZ]
*	*	÷	NC_000913	3751842	3752155	314	31 [27]	[25] 28	[yiaT]–[yiaU]	[yiaT],[yiaU]
*	*	÷	NC_000913	3793388	3793767	380	30 [27]	[26] 29	[yibB]	[yibB]
*	*	÷	NC_000913	3796919	3798394	1476	28 [26]	[27] 28	[waaC]–[waaU]	[waaC],waaL,[waaU]
*	*	÷	NC_000913	3798605	3800298	1694	29 [25]	[27] 28	[waaU]–[waaY]	[waaU],waaZ,[waaY]
*	*	÷	NC_000913	3804168	3805236	1069	28 [25]	[27] 28	waaS–[waaP]	waaS,[waaP]
*	*	÷	NC_000913	4078442	4078931	490	28 [26]	[27] 29	yiiD/yiiE	GNAT family putative N‑acetyltransferase/CopG family putative transcriptional regulator
*	*	÷	NC_000913	4304439	4304638	200	28 [26]	[25] 28	[yjcS]	[yjcS]
*	*	÷	NC_000913	4476510	4477261	752	38 [25]	[26] 33	[yjgL]	[yjgL]
*	*	÷	NC_000913	4541564	4541999	436	29 [27]	[25] 28	fimB/fimE	tyrosine recombinase/inversion of on/off regulator of fimA/tyrosine recombinase/inversion of on/off regulator of fimA
*	*	÷	NC_000913	4542524	4542982	459	28 [27]	[26] 28	[fimE]	[fimE]
*	*	÷	NC_000913	4603081	4603479	399	29 [27]	[27] 28	[yjjQ]	[yjjQ]