mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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] | |
| MC JC | 571,399 | Δ3,192 bp | IS5‑mediated | [ybcL]–nmpC | [ybcL], ybcM, ylcH, ybcN, ninE, ybcO, rusA, ylcG, ybcQ, nmpC |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| MC JC | 1,291,318 | Δ150 bp | [galU] | [galU] | |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| 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 | 2,337,450 | T→G | K657N (AAA→AAC) | gyrA ← | DNA gyrase subunit A |
| RA | 2,569,429 | G→T | P28Q (CCG→CAG) | eutG ← | putative alcohol dehydrogenase in ethanolamine utilization |
| RA | 2,666,827 | A→C | A340A (GCT→GCG) | hcaT ← | putative 3‑phenylpropionate transporter |
| 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 | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1286780 | 1286911 | 132 | 11 [8] | [8] 10 | ychS | putative uncharacterized protein YchS |
| * | * | ÷ | NC_000913 | 3423782–3424233 | 3424545–3424239 | 7–764 | 9 [8] | [7] 9 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 1 (0.020) | 63 (1.510) | 40/244 | 0.1 | 95.5% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 5 (0.120) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 1 (0.020) | 42 (1.010) | 32/244 | 0.2 | 93.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 5 (0.120) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3363001 = | 88 (1.870) | 77 (1.640) | 48/274 | 0.0 | 63.0% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.060) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 62 (1.310) | 43/276 | 0.1 | 96.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | 4309123 = | 52 (1.100) | 54 (1.150) | 40/274 | 0.1 | 56.1% | coding (347/981 nt) | alsC | D‑allose ABC transporter membrane subunit |
| ? | NC_000913 | = 4309833 | 33 (0.700) | coding (1148/1533 nt) | alsA | D‑allose ABC transporter ATP binding subunit | |||||
| * | ? | NC_000913 | 4542682 = | 38 (0.810) | 11 (0.250) | 8/258 | 2.7 | 21.9% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 43 (0.980) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||