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 | 557,845 | G→T | intergenic (‑104/‑367) | folD ← / → sfmA | bifunctional 5,10‑methylene‑tetrahydrofolate dehydrogenase/ 5,10‑methylene‑tetrahydrofolate cyclohydrolase/putative fimbrial protein SfmA |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,044,976 | C→A | M276I (ATG→ATT) | gfcE ← | putative exopolysaccharide export lipoprotein GfcE |
| RA | 1,162,733 | G→T | V32V (GTG→GTT) | lpoB → | outer membrane lipoprotein ‑ activator of MrcB activity |
| MC JC | 1,393,738 | Δ2,306 bp | IS5‑mediated | [mppA]–ynaI | [mppA], ynaI |
| 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 |
| RA | 1,936,350 | G→T | intergenic (‑36/‑302) | zwf ← / → yebK | NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase/DNA‑binding transcriptional repressor YebK |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,991,199 | G→T | L141M (CTG→ATG) | yecA ← | UPF0149 family protein YecA |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,662,033 | T→G | E33D (GAA→GAC) | iscR ← | DNA‑binding transcriptional dual regulator IscR |
| RA | 2,789,509 | G→T | M175I (ATG→ATT) | csiD → | PF08943 family protein CsiD |
| RA | 2,893,923 | C→A | L423M (CTG→ATG) S2Y (TCT→TAT) |
ygcN → ygcO → |
putative oxidoreductase with FAD/NAD(P)‑binding domain putative 4Fe‑4S cluster‑containing protein |
| JC JC | 3,223,254 | IS5 (–) +4 bp | coding (622‑625/3093 nt) | ebgA → | evolved beta‑D‑galactosidase subunit alpha |
| RA | 3,297,150 | G→T | A330E (GCG→GAG) | yraQ ← | permease family protein YraQ |
| 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 | 4,261,710 | 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 | 4,321,408 | G→T | L97M (CTG→ATG) | phnG ← | carbon‑phosphorus lyase core complex subunit PhnG |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 696718 | 696862 | 145 | 48 [46] | [0] 107 | [metU]–glnW | [metU],glnW |
| * | * | ÷ | NC_000913 | 3102981 | 3104065 | 1085 | 47 [45] | [46] 47 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423754–3424534 | 3424534 | 1–781 | 47 [45] | [46] 50 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 696863 = | 0 (0.000) | 100 (0.710) +GAAGAAACAATC |
37/252 | 2.2 | 57.0% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 165 (1.060) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | 1207790 = | 19 (0.120) | 163 (1.190) | 76/244 | 0.2 | 91.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 12 (0.090) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 19 (0.120) | 111 (0.810) | 63/244 | 0.5 | 88.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 12 (0.090) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 146 (0.970) | 81/268 | 0.3 | 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 = | 216 (1.390) | 224 (1.460) | 84/274 | 0.2 | 66.9% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 7 (0.050) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 176 (1.140) | 87/276 | 0.2 | 97.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 5 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||