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] | |
| JC JC | 485,983 | IS5 (+) +4 bp | coding (223‑226/648 nt) | acrR → | DNA‑binding transcriptional repressor AcrR |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| 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 | 2,512,749 | G→A | intergenic (‑43/‑293) | mntH ← / → nupC | Mn(2(+))/Fe(2(+)): H(+) symporter MntH/nucleoside:H(+) symporter NupC |
| RA | 2,564,482 | T→C | intergenic (+110/‑41) | yffR → / → yffS | CPZ‑55 prophage; uncharacterized protein YffR/CPZ‑55 prophage; uncharacterized protein YffS |
| 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 |
| JC JC | 3,802,748 | IS5 (+) +4 bp | coding (308‑311/1020 nt) | waaO ← | UDP‑D‑glucose:(glucosyl)LPS alpha‑1,3‑glucosyltransferase |
| 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 | 1196280 | 1211428 | 15149 | 8 [6] | [7] 8 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 3423789–3424233 | 3424528–3424242 | 10–740 | 8 [7] | [7] 8 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 349768 | NA (NA) | 36 (0.940) | 27/274 | 0.3 | NA | noncoding (17/35 nt) | other | REP25d |
| ? | NC_000913 | 349774 = | NA (NA) | noncoding (11/35 nt) | other | REP25d | |||||
| * | ? | NC_000913 | = 2521359 | 1 (0.030) | 17 (0.690) | 15/178 | 0.5 | 96.4% | intergenic (+31/+234) | lysV/xapR | tRNA‑Lys/DNA‑binding transcriptional activator XapR |
| ? | NC_000913 | 2521516 = | NA (NA) | intergenic (+188/+77) | lysV/xapR | tRNA‑Lys/DNA‑binding transcriptional activator XapR | |||||
| * | ? | NC_000913 | 3363001 = | 60 (1.560) | 57 (1.490) | 33/274 | 0.2 | 65.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 35 (0.910) | 25/276 | 0.4 | 100% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 0 (0.000) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | 4542682 = | 29 (0.750) | 7 (0.190) | 6/258 | 2.8 | 20.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 28 (0.780) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||