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 | 100,982 | C→A | P73Q (CCG→CAG) | murC → | UDP‑N‑acetylmuramate‑‑L‑alanine ligase |
| RA | 233,152 | C→A | P268P (CCG→CCT) | mltD ← | membrane‑bound lytic murein transglycosylase D |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 498,499 | C→A | R149S (CGC→AGC) | hemH → | ferrochelatase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 987,152 | G→T | intergenic (‑170/+433) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 1,333,590 | C→A | A848E (GCG→GAG) | topA → | DNA topoisomerase 1 |
| 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 |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,065,747 | (C)6→5 | coding (18/546 nt) | cobU ← | cobinamide‑P guanylyltransferase/cobinamide kinase |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,388,147 | C→A | A94S (GCC→TCC) | yfbN ← | uncharacterized protein YfbN |
| RA | 2,995,589 | C→A | pseudogene (432/707 nt) | ygeN ← | putative type III secretion system protein |
| RA | 3,012,471 | G→T | intergenic (+78/+143) | yqeA → / ← yqeB | putative amino acid kinase YqeA/XdhC‑CoxI family protein YqeB |
| RA | 3,120,156 | T→G | D375A (GAC→GCC) | glcA ← | glycolate/lactate:H(+) symporter GlcA |
| RA | 3,337,239 | G→T | S6R (AGC→AGA) | mlaB ← | intermembrane phospholipid transport system protein MlaB |
| RA | 3,353,097 | A→G | intergenic (‑72/+24) | arcB ← / ← yhcC | sensory histidine kinase ArcB/radical SAM family oxidoreductase YhcC |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,697,013 | G→T | A186S (GCC→TCC) | bcsE → | c‑di‑GMP‑binding protein BcsE |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,835,337 | G→T | A198E (GCA→GAA) | yicJ ← | putative xyloside transporter YicJ |
| 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 | 4,321,261 | G→T | R146S (CGC→AGC) | phnG ← | carbon‑phosphorus lyase core complex subunit PhnG |
| RA | 4,394,384 | C→A | L107M (CTG→ATG) | nnr → | NAD(P)HX epimerase/NAD(P)HX dehydratase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102964 | 3104068 | 1105 | 39 [38] | [38] 39 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423757–3424234 | 3424526–3424239 | 6–770 | 39 [37] | [34] 40 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 375203 = | NA (NA) | 48 (0.440) | 21/216 | 3.0 | NA | noncoding (17/36 nt) | other | REP31f |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 1207790 = | 174 (1.240) | 81 (0.650) | 52/244 | 0.7 | 36.7% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 126 (1.020) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 237 (1.740) | 107/268 | 0.0 | 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 = | 199 (1.420) | 205 (1.470) | 87/274 | 0.1 | 67.0% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 4 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 180 (1.280) | 92/276 | 0.1 | 95.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 9 (0.060) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||