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 | 502,907 | C→T | G111D (GGC→GAC) | ybaL ← | putative transporter YbaL |
| RA | 664,313 | A→G | V293A (GTG→GCG) | rlpA ← | rare lipoprotein RlpA |
| RA | 697,968 | A→G | F404L (TTC→CTC) | asnB ← | asparagine synthetase B |
| RA | 1,421,650 | (C)7→6 | coding (532/858 nt) | ydaU → | Rac prophage; DUF1376 domain‑containing protein YdaU |
| JC JC | 1,873,031 | IS1 (–) +9 bp | coding (991‑999/1491 nt) | dgcJ → | putative diguanylate cyclase DgcJ |
| RA | 1,978,440 | (G)6→7 | intergenic (‑243/+78) | flhD ← / ← insB‑5 | DNA‑binding transcriptional dual regulator FlhD/IS1 protein InsB |
| RA | 2,054,799 | A→G | Q386R (CAG→CGG) | shiA → | shikimate:H(+) symporter |
| RA | 2,293,765 | T→C | G380G (GGA→GGG) | ccmF ← | holocytochrome c synthetase membrane subunit CcmF |
| RA | 2,468,946 | Δ1 bp | coding (733/921 nt) | yfdH → | CPS‑53 (KpLE1) prophage; bactoprenol glucosyl transferase |
| RA | 2,533,333 | A→G | T309A (ACC→GCC) | cysK → | O‑acetylserine sulfhydrylase A |
| RA | 2,718,041 | G→A | T163I (ACA→ATA) | yfiF ← | putative methyltransferase |
| RA | 2,730,953 | T→C | noncoding (205/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 2,819,134 | T→C | T5A (ACT→GCT) | csrA ← | carbon storage regulator |
| RA | 3,261,353 | (T)5→4 | coding (1066/2295 nt) | tdcE ← | 2‑ketobutyrate formate‑lyase/pyruvate formate‑lyase 4 |
| RA | 3,451,917 | A→G | F124L (TTC→CTC) | rplD ← | 50S ribosomal subunit protein L4 |
| RA | 3,584,362 | A→G | intergenic (+53/‑42) | yrhA → / → yrhD | putative uncharacterized protein YrhA/uncharacterized protein YrhD |
| RA | 3,852,713 | T→C | E24E (GAA→GAG) | ilvB ← | acetohydroxy acid synthase I subunit IlvB |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,485,023 | A→G | L310P (CTA→CCA) | pepA ← | aminopeptidase A/I |
| RA | 4,606,215 | (G)8→9 | noncoding (72/87 nt) | leuP ← | tRNA‑Leu |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 361189 | 361933 | 745 | 343 [333] | [335] 341 | lacA–[lacY] | lacA,[lacY] |
| * | * | ÷ | NC_000913 | 2856973 | 2857095 | 123 | 338 [331] | [0] 586 | [mutS] | [mutS] |
| * | * | ÷ | NC_000913 | 3423683–3424234 | 3424605–3424238 | 5–923 | 338 [332] | [337] 346 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 70046 = | 547 (0.930) | 578 (1.000) | 243/274 | 0.0 | 68.3% | coding (3/1701 nt) | araB | ribulokinase |
| ? | NC_000913 | 2857096 = | 0 (0.000) | coding (4/2562 nt) | mutS | DNA mismatch repair protein MutS | |||||
| * | ? | NC_000913 | 1207790 = | 91 (0.150) | 324 (0.620) | 177/248 | 1.1 | 78.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 94 (0.180) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 89 (0.150) | 394 (0.750) | 185/248 | 0.7 | 82.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 94 (0.180) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1590765 = | 488 (0.830) | 1304 (2.290) | 280/270 | 0.0 | 73.9% | intergenic (‑229/+89) | yneL/hipA | putative HTH‑type transcriptional regulator YneL/serine/threonine kinase HipA |
| ? | NC_000913 | = 1647024 | 451 (0.790) | intergenic (+287/+150) | flxA/ydfW | Qin prophage; protein FlxA/Qin prophage; uncharacterized protein YdfW | |||||