mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 |
| RA | 7,541 | C→A | R140L (CGC→CTC) | yaaJ ← | putative transporter YaaJ |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 259,264 | A→G | G279G (GGT→GGC) | phoE ← | outer membrane porin PhoE |
| RA | 275,977 | C→A | S218* (TCG→TAG) | mmuP → | S‑methyl‑L‑methionine transporter |
| RA | 293,318 | G→T | L201I (CTT→ATT) | yagL ← | CP4‑6 prophage; resolvase‑like catalytic domain‑containing protein YagL |
| RA | 380,385 | +GA | coding (458/774 nt) | yaiO ← | outer membrane protein YaiO |
| RA | 399,371 | G→T | intergenic (‑38/‑222) | yaiY ← / → yaiZ | inner membrane protein/DUF2754 domain‑containing protein YaiZ |
| RA | 476,195 | C→A | A59A (GCG→GCT) | atl ← | DNA base‑flipping protein |
| RA | 507,468 | G→C | P205A (CCG→GCG) | ybaP ← | TraB family protein YbaP |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,910,862 | C→A | S196Y (TCT→TAT) | yebQ → | putative transporter YebQ |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,028,016 | A→C | M1G (GTG→GGG) † | dgcQ ← | putative diguanylate cyclase DgcQ |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,792,806 | G→A | P24P (CCG→CCA) | gabT → | 4‑aminobutyrate aminotransferase GabT |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,393,854 | A→G | L802S (TTA→TCA) | yhdP ← | AsmA2 domain‑containing protein |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,844,007 | C→A | A15D (GCT→GAT) | adeD → | adenine deaminase |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,566,757 | C→A | D164Y (GAT→TAT) | yjiN ← | DUF445 domain‑containing protein YjiN |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196259 | 1211433 | 15175 | 31 [29] | [27] 35 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 3102960 | 3104069 | 1110 | 31 [29] | [29] 31 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424232 | 3424539–3424239 | 8–770 | 32 [27] | [30] 31 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 78 (0.770) | 52/268 | 0.6 | 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 | 3363001 = | 139 (1.330) | 156 (1.500) | 71/274 | 0.1 | 68.9% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 119 (1.140) | 63/276 | 0.3 | 98.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.020) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||