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 | 549,695 | G→T | A23A (GCG→GCT) | ylbF → | DUF2877 domain‑containing protein YlbF |
| RA | 558,674 | G→T | A155S (GCA→TCA) | sfmA → | putative fimbrial protein SfmA |
| MC JC | 570,136 | Δ4,455 bp | IS5‑mediated | [ybcK]–nmpC | [ybcK], ybcL, ybcM, ylcH, ybcN, ninE, ybcO, rusA, ylcG, ybcQ, nmpC |
| RA | 633,168 | C→A | A104S (GCC→TCC) | hcxA ← | hydroxycarboxylate dehydrogenase A |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 922,417 | G→T | G58G (GGC→GGA) | cspD ← | DNA replication inhibitor |
| RA | 1,219,223 | G→T | intergenic (+22/‑378) | ymgF → / → ycgH | inner membrane protein that interacts with cell division proteins/putative transporter component, N‑terminal fragment |
| RA | 1,373,729 | G→T | A170S (GCC→TCC) | ycjO → | putative ABC transporter membrane subunit YcjO |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,840,447 | C→A | S327R (AGC→AGA) | ynjE → | molybdopterin synthase sulfurtransferase |
| 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 | 2,818,159 | G→T | intergenic (‑24/+39) | argZ ← / ← argY | tRNA‑Arg/tRNA‑Arg |
| RA | 2,982,040 | G→A | P48L (CCG→CTG) | araE ← | arabinose:H(+) symporter |
| RA | 3,323,958 | G→T | A38E (GCG→GAG) | glmM ← | phosphoglucosamine mutase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,477,059 | C→A | A121S (GCG→TCG) | fkpA ← | peptidyl‑prolyl cis‑trans isomerase FkpA |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| JC JC | 3,744,031 | IS5 (+) +4 bp | coding (289‑292/468 nt) | yiaL → | DUF386 domain‑containing protein YiaL |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,853,083 | G→T | intergenic (‑95/+35) | ivbL ← / ← istR | ilvBN operon leader peptide/small RNA IstR‑2 |
| RA | 4,110,792 | G→T | A239D (GCT→GAT) | tpiA ← | triose‑phosphate isomerase |
| RA | 4,134,963 | G→T | D377Y (GAC→TAC) | katG → | hydroperoxidase I |
| 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 | 4,314,040 | G→T | R58L (CGT→CTT) | yjdP → | protein YjdP |
| RA | 4,554,906 | G→T | E111* (GAG→TAG) | uxuR → | DNA‑binding transcriptional repressor UxuR |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102970 | 3104043 | 1074 | 18 [17] | [0] 18 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423759–3424234 | 3424537–3424238 | 5–779 | 18 [17] | [17] 18 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 20 (0.270) | 92 (1.390) | 55/244 | 0.1 | 84.5% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 16 (0.240) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 19 (0.250) | 58 (0.880) | 38/244 | 0.4 | 78.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 16 (0.240) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 113 (1.560) | 68/268 | 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 = | 135 (1.810) | 107 (1.440) | 66/274 | 0.0 | 61.1% | 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) | 92 (1.230) | 52/276 | 0.2 | 92.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 7 (0.090) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||