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 |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 838,384 | G→T | R25S (CGC→AGC) | ybiI ← | zinc finger domain‑containing protein YbiI |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,787,765 | T→G | D107E (GAT→GAG) | ppsR → | posphoenolpyruvate synthetase regulatory protein |
| RA | 1,822,111 | +G | coding (146/339 nt) | osmE ← | osmotically‑inducible lipoprotein OsmE |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,178,530 | G→T | A12D (GCC→GAC) | fbaB ← | fructose‑bisphosphate aldolase class I |
| RA | 2,215,840 | C→A | V213L (GTG→TTG) | yehW ← | glycine betaine ABC transporter membrane subunit YehW |
| RA | 2,654,221 | G→A | A238V (GCG→GTG) | sseB ← | protein SseB |
| RA | 2,857,685 | G→T | R198L (CGT→CTT) | mutS → | DNA mismatch repair protein MutS |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,550,906 | A→T | I523N (ATC→AAC) | malP ← | maltodextrin phosphorylase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,622,433 | C→A | S1081Y (TCC→TAC) | rhsB → | rhs element protein RhsB |
| RA | 3,699,141 | G→T | D310Y (GAT→TAT) | bcsG → | cellulose phosphoethanolamine transferase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,053,884 | C→A | E465D (GAG→GAT) | glnG ← | DNA‑binding transcriptional dual regulator NtrC |
| RA | 4,208,051 | G→T | intergenic (‑519/‑96) | purH ← / → rrsE | bifunctional AICAR transformylase/IMP cyclohydrolase/16S ribosomal RNA |
| 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 | 4,446,230 | C→A | L707I (CTT→ATT) | tamB → | translocation and assembly module subunit TamB |
| RA | 4,547,721 | G→T | E876* (GAA→TAA) | fimD → | type I fimbriae usher protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102972 | 3104074 | 1103 | 50 [44] | [44] 45 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423755–3424234 | 3424540–3424239 | 6–786 | 47 [41] | [41] 46 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 574335 | 1 (0.010) | 235 (1.540) | 103/276 | 0.0 | 99.6% | coding (380/384 nt) | ybcQ | DLP12 prophage; putative antitermination protein |
| ? | NC_000913 | 574591 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1207790 = | 166 (1.080) | 59 (0.440) | 47/244 | 1.2 | 27.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 159 (1.180) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 166 (1.080) | 47 (0.350) | 34/244 | 2.2 | 23.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 159 (1.180) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 188 (1.270) | 88/268 | 0.1 | 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 = | 191 (1.250) | 265 (1.740) | 97/274 | 0.1 | 73.6% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.010) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 137 (0.900) | 80/276 | 0.3 | 93.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 9 (0.060) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||