breseq  version 0.26.1  
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 1,196,220 C→T H366H (CAC→CAT)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA 1,196,232 C→T T370T (ACC→ACT)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA 1,196,245 T→C L375L (TTA→CTA)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA 1,196,247 A→G L375L (TTA→TTG)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA 2,019,460 G→A V359I (GTC→ATC)  fliK → flagellar hook‑length control protein
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 2,966,745 C→A E564* (GAA→TAA)  ptsP ← PEP‑protein phosphotransferase enzyme I; GAF domain containing protein
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
JC JC 3,890,075 IS5 (–) +4 bp coding (1346‑1349/1416 nt) tnaA → tryptophanase/L‑cysteine desulfhydrase, PLP‑dependent
RA 3,966,667 G→T S84I (AGC→ATC)  rho → transcription termination factor
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 384543 385053 511 40 [38] [39] 41 [yaiS] [yaiS]
* * ÷ NC_000913 401089 401326 238 41 [38] [37] 49 ddlA/iraP D‑alanine‑D‑alanine ligase A/anti‑RssB factor, RpoS stabilzer during Pi starvation; anti‑adapter protein
* * ÷ NC_000913 582763 584631 1869 40 [37] [39] 40 [ybcY]–appY [ybcY], ybcY, tfaX, appY
* * ÷ NC_000913 720881 721120 240 40 [37] [39] 40 [kdpE] [kdpE]
* * ÷ NC_000913 1103313 1103979 667 43 [37] [38] 40 [csgB] [csgB]
* * ÷ NC_000913 1196259 1211461 15203 41 [37] [38] 40 [icd]–[icdC] 25 genes
[icd], ymfD, ymfE, lit, intE, xisE, ymfI, ymfJ, cohE, croE, ymfL, ymfM, oweE, aaaE, ymfR, beeE, jayE, ymfQ, stfP, tfaP, tfaE, stfE, pinE, mcrA, [icdC]
* * ÷ NC_000913 1212033 1212581 549 45 [37] [36] 44 iraM/ycgX RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein
* * ÷ NC_000913 1636958 1637790 833 40 [37] [32] 42 [ynfO]–gnsB [ynfO], ydfO, gnsB
* * ÷ NC_000913 1978365 1979676 1312 40 [38] [37] 47 insB1–insA insB1, insA
* * ÷ NC_000913 2033552 2034135 584 41 [39] [36] 41 [yedS] [yedS]
* * ÷ NC_000913 2383351 2383952 602 48 [38] [39] 40 [elaD] [elaD]
* * ÷ NC_000913 2385676 2385998 323 41 [37] [36] 45 [yfbK]–[yfbL] [yfbK], [yfbL]
* * ÷ NC_000913 2406926 2407432 507 42 [39] [39] 40 lrhA/alaA transcriptional repressor of flagellar, motility and chemotaxis genes/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase
* * ÷ NC_000913 2455594 2456166 573 40 [39] [36] 40 [yfcV] [yfcV]
* * ÷ NC_000913 2469114 2469841 728 41 [39] [39] 40 [gtrB]–[gtrS] [gtrB], [gtrS]
* * ÷ NC_000913 2494554 2494785 232 42 [38] [39] 40 [ypdI] [ypdI]
* * ÷ NC_000913 2591024 2591272 249 40 [38] [38] 40 [yffB] [yffB]
* * ÷ NC_000913 2774372 2775486 1115 40 [39] [37] 40 [yfjW] [yfjW]
* * ÷ NC_000913 2784462 2785390 929 41 [35] [38] 43 [ypjC] [ypjC]
* * ÷ NC_000913 3185120 3185450 331 40 [39] [38] 40 [yqiC]–[ygiL] [yqiC], [ygiL]
* * ÷ NC_000913 3268740 3269757 1018 40 [39] [38] 41 [yhaC] [yhaC]
* * ÷ NC_000913 3360839 3361288 450 40 [37] [38] 40 [gltF] [gltF]
* * ÷ NC_000913 3423747–3424547 3424547 1–801 40 [39] [39] 43 [rrfD]–[rrlD] [rrfD], [rrlD]
* * ÷ NC_000913 3769589 3770180 592 49 [35] [34] 42 [yibV]–yibU [yibV], yibV, yibU, yibU
* * ÷ NC_000913 3804223 3804535 313 40 [39] [36] 43 waaS lipopolysaccharide rhamnose:KdoIII transferase; lipopolysaccharide core biosynthesis protein
* * ÷ NC_000913 4002932 4003365 434 40 [39] [39] 41 [yigG]–[rarD] [yigG], [rarD]
* * ÷ NC_000913 4282250 4282929 680 41 [35] [39] 40 yjcF pentapeptide repeats protein
* * ÷ NC_000913 4542552 4542988 437 41 [36] [38] 40 [fimE] [fimE]
* * ÷ NC_000913 4603045 4603449 405 40 [37] [34] 41 yjjP/yjjQ DUF1212 family inner membrane protein/putative transcriptional regulator