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 | 583,642 | A→G | intergenic (+582/‑39) | tfaX → / → appY | DLP12 prophage; protein TfaX/DNA‑binding transcriptional activator AppY |
| RA | 809,091 | A→G | I56T (ATC→ACC) | bioA ← | adenosylmethionine‑8‑amino‑7‑oxononanoate aminotransferase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,290,964 | G→T | L241F (TTG→TTT) | rssB → | regulator of RpoS |
| 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 | |
| JC | 2,048,724 | Δ5 bp | coding (3787‑3791/7077 nt) | yeeJ → | inverse autotransporter adhesin |
| RA | 2,128,377 | G→T | P171H (CCC→CAC) | wcaF ← | putative acyl transferase |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,327,705 | G→T | L147I (CTC→ATC) | yfaP ← | DUF2135 domain‑containing protein YfaP |
| RA | 2,411,113 | T→C | G80G (GGA→GGG) | yfbS ← | putative transporter YfbS |
| RA | 2,455,877 | Δ1 bp | intergenic (‑231/+450) | yfcV ← / ← sixA | putative fimbrial protein YfcV/phosphohistidine phosphatase |
| RA | 2,870,062 | G→T | C71* (TGC→TGA) | umpG ← | broad specificity 5'(3')‑nucleotidase and polyphosphatase |
| RA | 3,036,538 | C→A | P523P (CCG→CCT) | recJ ← | ssDNA‑specific exonuclease RecJ |
| RA | 3,061,836 | T→C | D329D (GAT→GAC) | scpA → | methylmalonyl‑CoA mutase |
| RA | 3,326,714 | A→C | D74E (GAT→GAG) | ftsH ← | ATP‑dependent zinc metalloprotease FtsH |
| RA | 3,336,462 | C→A | K11N (AAG→AAT) | murA ← | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,510,138 | A→G | L280S (TTA→TCA) | yhfX ← | putative PLP‑binding protein YhfX |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,734,694 | C→A | D325E (GAC→GAA) | xylH → | xylose ABC transporter membrane subunit |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102986 | 3104052 | 1067 | 33 [30] | [29] 31 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423770–3424233 | 3424525–3424238 | 6–756 | 31 [20] | [29] 41 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 57 (0.460) | 109 (1.000) | 60/244 | 0.3 | 65.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 63 (0.580) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 57 (0.460) | 65 (0.600) | 39/244 | 1.1 | 53.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 63 (0.580) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 178 (1.490) | 82/268 | 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 = | 219 (1.780) | 202 (1.650) | 73/274 | 0.2 | 64.6% | 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) | 131 (1.060) | 68/276 | 0.3 | 92.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 10 (0.080) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||