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 | 223,648 | A→G | intergenic (+240/‑123) | gmhB → / → rrsH | D‑glycero‑beta‑D‑manno‑heptose‑1,7‑bisphosphate 7‑phosphatase/16S ribosomal RNA |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 881,995 | Δ1 bp | coding (740/759 nt) | deoR ← | DNA‑binding transcriptional repressor DeoR |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,059,312 | C→T | G19G (GGC→GGT) | torA → | trimethylamine N‑oxide reductase 1 |
| 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 |
| RA | 1,513,646 | T→A | I277N (ATC→AAC) | ydcT → | putative ABC transporter ATP‑binding protein YdcT |
| RA | 1,597,281 | A→G | pseudogene (806/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| 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 |
| JC JC | 2,480,678 | IS5 (+) +4 bp | coding (1496‑1499/1539 nt) | emrY ← | tripartite efflux pump membrane subunit EmrY |
| RA | 2,818,760 | T→C | intergenic (‑115/+201) | serV ← / ← csrA | tRNA‑Ser/carbon storage regulator |
| RA | 3,077,978 | A→C | A294A (GCT→GCG) | cmtA ← | mannitol‑specific PTS enzyme IICB component CmtA |
| RA | 3,337,427 | G→C | N155K (AAC→AAG) | mlaC ← | intermembrane phospholipid transport system ‑ periplasmic binding protein |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,370,371 | Δ1 bp | coding (666/690 nt) | nanE ← | putative N‑acetylmannosamine‑6‑phosphate epimerase |
| 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 | 3,977,710 | (A)6→5 | coding (186/1080 nt) | rffT → | 4‑acetamido‑4,6‑dideoxy‑D‑galactose transferase |
| RA | 3,977,712 | C→T | S63L (TCG→TTG) | rffT → | 4‑acetamido‑4,6‑dideoxy‑D‑galactose transferase |
| RA | 3,977,715 | 4 bp→ACA | coding (191‑194/1080 nt) | rffT → | 4‑acetamido‑4,6‑dideoxy‑D‑galactose transferase |
| RA | 3,977,720 | G→A | E66K (GAA→AAA) | rffT → | 4‑acetamido‑4,6‑dideoxy‑D‑galactose transferase |
| RA | 4,238,711 | A→G | I360V (ATC→GTC) | yjbH → | YjbH family protein |
| 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 | 696729 | 696862 | 134 | 26 [25] | [0] 57 | [metU]–glnW | [metU],glnW |
| * | * | ÷ | NC_000913 | 1196255 | 1211435 | 15181 | 27 [24] | [25] 26 | [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 | 2818121–2818143 | 2818255–2818202 | 60–135 | 26 [25] | [25] 26 | [argZ]–[argY] | [argZ],[argY] |
| * | * | ÷ | NC_000913 | 3423768–3424536 | 3424536 | 1–769 | 28 [21] | [24] 29 | [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) | 53 (0.770) +GAAGAAACAATC |
24/252 | 1.9 | 62.1% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 71 (0.940) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 91 (1.240) | 55/268 | 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 = | 94 (1.240) | 107 (1.420) | 61/274 | 0.1 | 69.2% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 84 (1.110) | 53/276 | 0.2 | 94.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 5 (0.070) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||