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 | 432,286 | A→G | intergenic (‑273/+26) | tsx ← / ← yajI | nucleoside‑specific channel‑forming protein Tsx/putative lipoprotein YajI |
| RA | 558,938 | A→T | intergenic (+184/‑36) | sfmA → / → sfmC | putative fimbrial protein SfmA/putative fimbrial chaperone SfmC |
| RA | 792,954 | G→T | L279I (CTT→ATT) | modF ← | ABC family protein ModF |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,163,425 | G→T | A56S (GCG→TCG) | thiK → | thiamine kinase |
| RA | 1,310,276 | C→T | intergenic (‑7/+293) | kch ← / ← yciI | K(+) channel Kch/protein YciI |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,682,294 | C→A | P46T (CCG→ACG) | rstA → | DNA‑binding transcriptional regulator RstA |
| 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 | 2,765,463 | (TATGGCAC)6→7 | intergenic (‑310/+50) | abpA ← / ← yfjM | CP4‑57 prophage; anti‑bacteriophage protein/CP4‑57 prophage; protein YfjM |
| RA | 2,938,160 | C→A | P231P (CCC→CCA) | fucK → | L‑fuculokinase |
| MC JC | 3,058,051 | (CAG)3→2 | coding (358‑360/1233 nt) | serA ← | phosphoglycerate dehydrogenase |
| RA | 3,223,176 | G→T | D182Y (GAC→TAC) | ebgA → | evolved beta‑D‑galactosidase subunit alpha |
| RA | 3,295,564 | C→A | G57G (GGC→GGA) | yraN → | UPF0102 family protein YraN |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,366,860 | G→T | pseudogene (106/175 nt) | yhcE → | putative uncharacterized protein YhcE |
| RA | 3,537,408 | C→A | R8R (CGC→CGA) | yhgF → | putative RNA‑binding protein YhgF |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| JC JC | 3,721,909 | IS1 (–) +9 bp | coding (712‑720/852 nt) | insK → | IS150 conserved protein InsB |
| RA | 3,753,110 | C→A | L330L (CTG→CTT) | yiaV ← | putative membrane fusion protein |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,199,534 | G→T | E11* (GAG→TAG) | yjaG → | conserved protein YjaG |
| 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 | 4,514,306 | C→T | M1M (ATG→ATA) † | fecB ← | ferric citrate ABC transporter periplasmic binding protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102985 | 3104051 | 1067 | 24 [23] | [19] 26 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423785–3424234 | 3424536–3424238 | 5–752 | 26 [16] | [23] 26 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 36 (0.370) | 108 (1.250) | 58/244 | 0.2 | 79.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 23 (0.270) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 36 (0.370) | 52 (0.600) | 35/244 | 1.0 | 65.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 23 (0.270) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 121 (1.270) | 77/268 | 0.0 | 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 = | 193 (1.970) | 165 (1.700) | 83/274 | 0.0 | 62.9% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 129 (1.320) | 73/276 | 0.1 | 96.3% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 5 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||