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 | 73,871 | (C)6→7 | coding (651/1611 nt) | thiP ← | thiamine ABC transporter membrane subunit |
| RA | 133,472 | C→T | L620L (CTG→TTG) | acnB → | hypothetical protein |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 341,825 | C→T | A234V (GCG→GTG) | yahJ → | putative deaminase with metallo‑dependent hydrolase domain |
| RA | 613,353 | C→T | A206V (GCG→GTG) | fes → | enterochelin esterase |
| RA | 752,762 | C→T | A12T (GCC→ACC) | ybgD ← | putative fimbrial protein YbgD |
| RA | 827,678 | C→T | R435Q (CGG→CAG) | ybhF ← | putative ABC exporter ATP binding subunit |
| RA | 915,117 | C→T | intergenic (‑260/+235) | lysO ← / ← aqpZ | L‑lysine exporter/water channel AqpZ |
| RA | 916,877 | A→G | G135G (GGA→GGG) | ybjD → | DUF2813 domain‑containing protein YbjD |
| RA | 1,074,174 | A→G | intergenic (‑163/‑68) | rutA ← / → rutR | pyrimidine oxygenase/DNA‑binding transcriptional dual regulator RutR |
| RA | 1,157,593 | C→T | intergenic (+19/‑276) | ycfH → / → ptsG | putative metal‑dependent hydrolase YcfH/glucose‑specific PTS enzyme IIBC component |
| RA | 1,178,828 | A→G | N79S (AAT→AGT) | nagK → | N‑acetyl‑D‑glucosamine kinase |
| RA | 1,341,896 | T→C | intergenic (+169/‑25) | lapB → / → pyrF | lipopolysaccharide assembly protein B/orotidine‑5'‑phosphate decarboxylase |
| RA | 1,594,256 | (C)8→9 | pseudogene (3831/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,659,963 | C→T | A632V (GCA→GTA) | ynfE → | putative selenate reductase YnfE |
| RA | 1,767,648 | G→A | L346L (CTC→CTT) | ydiJ ← | putative FAD‑linked oxidoreductase |
| RA | 1,917,265 | G→A | L336L (CTG→CTA) | yebS → | intermembrane transport protein YebS |
| 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 | 2,177,604 | G→A | R321C (CGT→TGT) | fbaB ← | fructose‑bisphosphate aldolase class I |
| RA | 2,602,017 | (C)7→8 | coding (200/2019 nt) | hyfB → | hydrogenase 4 component B |
| RA | 2,669,722 | G→A | G231S (GGC→AGC) | hcaE → | putative 3‑phenylpropionate/cinnamate dioxygenase subunit alpha |
| RA | 2,872,528 | G→A | A98V (GCG→GTG) | ftsB ← | cell division protein FtsB |
| RA | 3,129,826 | T→C | Q130Q (CAA→CAG) | yghO ← | putative DNA‑binding transcriptional regulator YghO |
| RA | 3,149,851 | G→A | A64T (GCT→ACT) | yghA → | NADP(+)‑dependent aldehyde reductase |
| RA | 3,367,999 | C→T | A58V (GCC→GTC) | yhcG → | DUF1016 domain‑containing protein YhcG |
| RA | 3,377,215 | A→G | L69P (CTG→CCG) | sspA ← | stringent starvation protein A |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,617,735 | G→A | V241I (GTT→ATT) | nikD → | Ni(2(+)) ABC transporter ATP binding subunit NikD |
| JC | 4,181,666 | (CTTTGTTATCAACGGTAC)1→2 | coding (422/4029 nt) | rpoB → | RNA polymerase subunit beta |
| RA | 4,185,894 | C→T | A182V (GCG→GTG) | rpoC → | RNA polymerase subunit beta' |
| RA | 4,200,155 | (C)6→7 | intergenic (+61/‑126) | yjaG → / → hupA | conserved protein YjaG/DNA‑binding protein HU‑alpha |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| JC | 4,397,629 | (GCTGGC)3→4 | coding (218/1848 nt) | mutL → | DNA mismatch repair protein MutL |
| RA | 4,505,087 | A→G | T344A (ACC→GCC) | yjhB → | putative sialic acid transporter |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423759–3424234 | 3424532–3424239 | 6–774 | 24 [22] | [21] 25 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3486111 | 3486773 | 663 | 26 [20] | [19] 24 | crp | crp |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 74 (0.960) | 29 (0.430) | 26/224 | 1.1 | 31.4% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 62 (0.920) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 71 (0.960) | 53/248 | 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 | |||||