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 | 293,137 | C→A | intergenic (‑189/+83) | yagK ← / ← yagL | CP4‑6 prophage; uncharacterized protein YagK/CP4‑6 prophage; resolvase‑like catalytic domain‑containing protein YagL |
| RA | 352,810 | C→A | L35L (CTC→CTA) | prpE → | propionyl‑CoA synthetase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,557,755 | G→T | P95Q (CCG→CAG) | ddpF ← | putative D,D‑dipeptide ABC transporter ATP‑binding subunit DdpF |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| 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 | 2,126,824 | C→A | E123* (GAG→TAG) | fcl ← | GDP‑L‑fucose synthase |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,350,278 | T→G | Q245P (CAG→CCG) | glpQ ← | glycerophosphoryl diester phosphodiesterase |
| JC | 2,765,463 | (TATGGCAC)6→7 | intergenic (‑310/+50) | abpA ← / ← yfjM | CP4‑57 prophage; anti‑bacteriophage protein/CP4‑57 prophage; protein YfjM |
| JC | 3,250,182 | Δ4 bp | coding (106‑109/300 nt) | yqjK → | conserved protein YqjK |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,436,014 | G→T | E270* (GAA→TAA) | rsmB → | 16S rRNA m(5)C967 methyltransferase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,734,407 | G→T | G230C (GGC→TGC) | xylH → | xylose ABC transporter membrane subunit |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,863,147 | G→T | L153M (CTG→ATG) | glvC ← | putative PTS enzyme II component GlvC |
| 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 | 4,351,229 | G→T | A145D (GCT→GAT) | dcuS ← | sensory histidine kinase DcuS |
| RA | 4,417,960 | C→A | G165V (GGG→GTG) | ulaR ← | DNA‑binding transcriptional repressor UlaR |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102978 | 3104081 | 1104 | 37 [35] | [35] 37 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424234 | 3424550–3424239 | 6–781 | 37 [31] | [35] 36 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 115 (0.950) | 33 (0.310) | 24/244 | 2.7 | 23.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 109 (1.020) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 125 (1.070) | 66/268 | 0.3 | 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 = | 220 (1.820) | 194 (1.620) | 89/274 | 0.0 | 63.9% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.010) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 137 (1.140) | 71/276 | 0.2 | 98.6% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.020) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||