mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 349,717 | T→C | 11.3% | intergenic (+145/‑295) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,410,395 | Δ1 bp | 69.7% | coding (885/1374 nt) | dbpA → | ATP‑dependent RNA helicase, specific for 23S rRNA |
| RA | 1,413,542 | A→T | 100% | Y67N (TAT→AAT) | ydaC ← | DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein |
| RA | 1,638,557 | A→T | 9.5% | I37I (ATT→ATA) | cspI ← | Qin prophage; cold shock protein |
| RA | 1,793,897 | Δ1 bp | 100% | coding (213/552 nt) | btuE ← | glutathione peroxidase |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,016,417 | C→T | 5.9% | H184Y (CAT→TAT) | fliH → | negative regulator of FliI ATPase activity |
| RA | 2,093,040 | G→A | 100% | A215T (GCT→ACT) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,451,102 | C→T | 8.5% | A161T (GCC→ACC) | yfcR ← | putative fimbrial‑like adhesin protein |
| RA | 2,818,044 | A→G | 16.5% | intergenic (‑186/+13) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,818,047 | T→A | 11.9% | intergenic (‑189/+10) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,913,421 | G→A | 17.3% | R77W (CGG→TGG) | relA ← | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| RA | 3,657,881 | G→T | 16.8% | intergenic (+315/+104) | hdeD → / ← arrS | acid‑resistance membrane protein/antisense sRNA ArrS, function unknown |
| RA | 3,995,269 | C→A | 69.9% | A170E (GCG→GAG) | dapF → | diaminopimelate epimerase |
| RA | 4,094,414 | T→G | 7.0% | intergenic (‑143/+308) | rhaD ← / ← rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| RA | 4,117,109 | T→G | 100% | Q38P (CAA→CCA) | glpK ← | glycerol kinase |
| RA | 4,187,597 | C→T | 100% | P750L (CCG→CTG) | rpoC → | RNA polymerase, beta prime subunit |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 16 (0.390) | 21 (0.580) | 19/244 | NT | 56.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 18 (0.500) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 16 (0.390) | 19 (0.530) | 16/244 | NT | 54.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 18 (0.500) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1293197 = | 9 (0.220) | 28 (0.690) +G |
24/274 | NT | 75.8% | intergenic (‑275/‑330) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| ? | NC_000913 | 2101749 = | NA (NA) | intergenic (‑5/+146) | wbbL/insH1 | pseudogene, lipopolysaccharide biosynthesis protein/IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913 | = 1293199 | 9 (0.220) | 26 (0.640) | 22/276 | NT | 74.3% | intergenic (‑277/‑328) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| ? | NC_000913 | 1299499 = | NA (NA) | intergenic (+254/‑1683) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 2290111 | NA (NA) | 3 (0.070) | 3/276 | NT | 6.2% | intergenic (‑32/+1) | insH1/yejO | IS5 transposase and trans‑activator/pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system |
| ? | NC_000913 | 3744030 = | 45 (1.100) | coding (289/468 nt) | yiaL | DUF386 family protein | |||||
| * | ? | NC_000913 | 3315699 = | 43 (1.050) | 3 (0.080) | 3/266 | NT | 7.0% | coding (314/2673 nt) | infB | translation initiation factor IF‑2 |
| ? | NC_000913 | 3315729 = | 38 (0.960) | coding (284/2673 nt) | infB | translation initiation factor IF‑2 | |||||
| * | ? | NC_000913 | = 4633255 | NA (NA) | 3 (0.080) | 3/266 | NT | 6.7% | coding (492/513 nt) | yjjX | non‑canonical purine NTP phosphatase, ITPase/XTPase |
| ? | NC_000913 | = 4633304 | 42 (1.070) | coding (443/513 nt) | yjjX | non‑canonical purine NTP phosphatase, ITPase/XTPase | |||||