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
RA	410,389	G→T	R140L (CGC→CTC)	thiI →	thiamine biosynthesis protein ThiI
RA	433,564	C→T	A20V (GCG→GTG)	hupB →	HU, DNA‑binding transcriptional regulator, beta subunit
RA	1,098,752	G→A	V75V (GTG→GTA)	ycdO →	hypothetical protein
RA	1,329,516	C→T	H33Y (CAC→TAC)	topA →	DNA topoisomerase I
RA	1,609,130	A→C	K285Q (AAG→CAG)	insF‑3 →	putative transposase for IS3
JC	1,733,297	(CGTATGAA)1→2	coding (333/1413 nt)	pykF →	pyruvate kinase
RA	2,193,779	G→T	L143I (CTT→ATT)	yeiB ←	conserved inner membrane protein
RA	2,876,460	A→C	L115* (TTA→TGA)	araE ←	arabinose transporter
RA	3,252,006	A→G	V252A (GTA→GCA)	nusA ←	transcription elongation factor NusA
RA	3,328,536	G→A	A148V (GCA→GTA)	mreB ←	cell wall structural complex MreBCD, actin‑like component MreB
RA	3,497,639	A→G	F133L (TTC→CTC)	glgP ←	glycogen phosphorylase
RA	3,762,741	A→T	K662I (AAA→ATA)	spoT →	bifunctional (p)ppGpp synthetase II/ guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase
RA	3,875,632	(T)7→8	intergenic (‑66/+287)	glmU ← / ← atpC	bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon
MC JC	3,894,997	Δ6,934 bp	IS150‑mediated	rbsD–[yieO]	rbsD, rbsA, rbsC, rbsB, rbsK, rbsR, [yieO]
RA	4,163,752	T→G	I966S (ATC→AGC)	rpoB →	DNA‑directed RNA polymerase subunit beta
JC JC	4,524,522	IS186 (+) +6 bp	coding (494‑499/549 nt)	fimA →	major type 1 subunit fimbrin (pilin)

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	REL606	546992–547700	593413	45714–46422	21 [19]	[19] 21	[insB‑6]–[fepA]	[insB‑6],insA‑6,nmpC,ybcR,ybcS,ybcT,ybcU,ECB_00510,nohB,ECB_00512,ECB_00513,ECB_00514,ECB_00515,ECB_00516,ECB_00517,appY,ompT,envY,ybcH,nfrA,nfrB,nfrB,ECB_00524,yhhI,ECB_00526,ECB_00527,ECB_00528,ECB_00529,ECB_00530,cusS,cusR,cusC,ylcC,cusB,cusA,pheP,ybdG,nfnB,ybdF,ybdJ,ybdK,insJ‑1,insK‑1,insB‑7,insA‑7,insK‑1,hokE,insL‑3,entD,[fepA]
*	*	÷	REL606	593565	619820–619116	25552–26256	22 [20]	[20] 24	[fepA]–[insA‑8]	[fepA],fes,ybdZ,entF,fepE,fepC,fepG,fepD,ybdA,fepB,entC,entE,entB,entA,ybdB,cstA,cstA,ybdD,ybdH,ybdL,ybdM,ybdN,insB‑8,[insA‑8]
*	*	÷	REL606	2032328–2032367	2055609–2055574	23208–23282	22 [20]	[19] 21	[manB]–[cpsG]	[manB],manC,insB‑14,insA‑14,wbbD,wbbC,wzy,wbbB,wbbA,vioB,vioA,wzx,rmlC,rfbA,rfbD,rfbB,galF,wcaM,wcaL,wcaK,wzxC,wcaJ,[cpsG]