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 | 53,450 | C→T | R418H (CGT→CAT) | surA ← | peptidyl‑prolyl cis‑trans isomerase SurA |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 266,711 | C→A | intergenic (‑158/+473) | yafY ← / ← yafZ | CP4‑6 prophage; inner membrane lipoprotein YafY/CP4‑6 prophage; conserved protein YafZ |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| JC JC | 1,118,953 | IS5 (+) +4 bp | coding (91‑94/567 nt) | yceJ ← | putative cytochrome b561 |
| RA | 1,232,285 | G→T | R367L (CGC→CTC) | umuC → | DNA polymerase V catalytic protein |
| RA | 1,321,437 | G→T | R504S (CGC→AGC) | trpE ← | anthranilate synthase subunit TrpE |
| 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 | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,288,477 | C→A | pseudogene (438/2525 nt) | yejO ← | adhesin‑like autotransporter YejO |
| RA | 2,483,477 | (A)8→7 | intergenic (‑138/‑278) | emrK ← / → evgA | tripartite efflux pump membrane fusion protein EmrK/DNA‑binding transcriptional activator EvgA |
| RA | 2,779,891 | C→A | G946W (GGG→TGG) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,818,478 | C→A | noncoding (72/77 nt) | argV ← | tRNA‑Arg |
| RA | 2,829,173 | C→A | L43M (CTG→ATG) | srlR → | DNA‑binding transcriptional repressor SrlR |
| RA | 3,139,553 | G→T | S276I (AGT→ATT) | yghU → | disulfide reductase/organic hydroperoxide reductase |
| 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 | 3,581,633 | G→T | intergenic (+7/‑230) | yhhY → / → yhhZ | N‑acetyltransferase YhhY/putative endonuclease YhhZ |
| RA | 3,796,766 | G→T | G263V (GGG→GTG) | waaC → | ADP‑heptose:LPS heptosyltransferase 1 |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| 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 | 4,480,318 | A→G | T197A (ACT→GCT) | yjgN → | conserved inner membrane protein YjgN |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102944 | 3104085 | 1142 | 41 [40] | [39] 41 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423738–3424234 | 3424540–3424242 | 9–803 | 42 [38] | [40] 43 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3708384 | 3708575 | 192 | 41 [38] | [39] 42 | dppA/proK | dipeptide ABC transporter periplasmic binding protein/tRNA‑Pro |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 96 (0.950) | 33 (0.370) | 24/246 | 2.9 | 28.1% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 84 (0.940) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 105 (1.070) | 63/270 | 0.2 | 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 = | 115 (1.140) | 140 (1.400) | 74/276 | 0.1 | 70.5% | 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) | 99 (0.980) | 63/278 | 0.2 | 91.7% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 9 (0.090) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||