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 | 66,528 | T→C | Q8R (CAG→CGG) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase |
| MC JC | 66,533 | 3540 bp→27 bp | [araD]–araB | [araD], araA, araB | |
| RA | 70,289 | G→T | intergenic (‑241/‑98) | araB ← / → araC | L‑ribulokinase/DNA‑binding transcriptional dual regulator |
| JC JC | 370,982 | IS30 (+) +2 bp | coding (520‑521/867 nt) | mhpC → | 2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase |
| RA | 502,653 | C→T | intergenic (‑191/+47) | ybaL ← / ← fsr | putative transporter with NAD(P)‑binding Rossmann‑fold domain/putative fosmidomycin efflux system |
| RA | 547,694 | A→G | pseudogene (114/252 nt) | ylbE → | putative protein, C‑ter fragment (pseudogene) |
| RA | 547,835 | +G | pseudogene (4/1008 nt) | ylbE → | putative protein, C‑ter fragment (pseudogene) |
| RA | 704,236 | T→C | L357S (TTG→TCG) | nagE → | fused N‑acetyl glucosamine specific PTS enzyme: IIC, IIB, and IIA components |
| RA | 1,335,418 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,650,355 | T→C | pseudogene (781/1158 nt) | intQ → | pseudogene, Qin prophage; predicted defective integrase;Phage or Prophage Related |
| MC JC | 1,976,527 | Δ776 bp | insB1–insA | insB1, insA | |
| RA | 2,388,324 | C→G | G402R (GGT→CGT) | nuoN ← | NADH:ubiquinone oxidoreductase, membrane subunit N |
| RA | 2,842,032 | G→T | R67R (CGC→CGA) | hycG ← | hydrogenase 3 and formate hydrogenase complex, HycG subunit |
| RA | 3,108,443 | C→A | noncoding (56/76 nt) | pheV → | tRNA‑Phe |
| RA | 3,957,957 | C→T | intergenic (‑121/+78) | ppiC ← / ← yifN | peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/conserved protein (pseudogene) |
| RA | 4,091,793 | C→T | G168D (GGC→GAC) | rhaD ← | rhamnulose‑1‑phosphate aldolase |
| MC JC | 4,092,014 | 3461 bp→29 bp | [rhaD]–rhaB | [rhaD], rhaA, rhaB | |
| RA | 4,159,271 | G→T | G42V (GGC→GTC) | fabR → | DNA‑binding transcriptional repressor |
| RA | 4,162,146 | C→G | A162G (GCA→GGA) | btuB → | vitamin B12/cobalamin outer membrane transporter |
| RA | 4,294,404 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/hypothetical protein |
| RA | 4,472,857 | A→G | intergenic (+117/‑28) | bdcR → / → tabA | transcriptional repressor for divergent bdcA/biofilm modulator regulated by toxins |
| RA | 4,583,503 | G→A | Q428* (CAA→TAA) | hsdR ← | endonuclease R Type I restriction enzyme |
| RA | 4,600,532 | C→T | W117* (TGG→TAG) | yjjP ← | inner membrane protein, H‑NS‑repressed, DUF1212 family |
| RA | 4,614,692 | G→T | L133I (CTA→ATA) | yjjI ← | hypothetical protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 363469 | 365537 | 2069 | 185 [181] | [183] 187 | [lacZ] | [lacZ] |
| * | * | ÷ | NC_000913 | 2518970–2519028 | 2519128–2519069 | 42–159 | 190 [184] | [183] 185 | [valU]–[valX] | [valU],[valX] |
| * | * | ÷ | NC_000913 | 3421707–3422638 | 3422638 | 1–932 | 187 [183] | [182] 188 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207013 = | 55 (0.200) | 200 (0.900) | 113/142 | 0.0 | 79.9% | coding (290/630 nt) | stfP | e14 prophage; putative protein |
| ? | NC_000913 | 1208842 = | 56 (0.250) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; predicted side tail fiber protein fragment;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207028 | 55 (0.200) | 197 (0.890) | 106/142 | 0.0 | 79.6% | coding (305/630 nt) | stfP | e14 prophage; putative protein |
| ? | NC_000913 | = 1208825 | 56 (0.250) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; predicted side tail fiber protein fragment;Phage or Prophage Related | |||||