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] | |
| 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 | 1,670,314 | A→T | 5.7% | M206L (ATG→TTG) | ynfM → | putative arabinose efflux transporter |
| RA | 1,685,527 | A→G | 100% | G354G (GGT→GGC) | fumC ← | fumarate hydratase (fumarase C),aerobic Class II |
| RA | 1,734,849 | A→G | 5.5% | K139E (AAA→GAA) | mepH → | murein DD‑endopeptidase, space‑maker hydrolase |
| RA | 1,804,987 | T→C | 5.8% | pseudogene (1470/1476 nt) | arpB → | pseudogene, ankyrin repeats |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,145,313 | C→A | 100% | S683Y (TCC→TAC) | yegE → | putative diguanylate cyclase |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (1‑2/442 nt) | gatC ← | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,318,095 | C→G | 100% | L594F (TTG→TTC) | rcsC ← | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| RA | 2,349,267 | T→C | 8.7% | E69G (GAG→GGG) | inaA ← | acid‑inducible Kdo/WaaP family putative kinase |
| RA | 2,724,815 | G→T | 40.0% | S311* (TCA→TAA) | kgtP ← | alpha‑ketoglutarate transporter |
| RA | 3,170,255 | T→C | 5.5% | L143P (CTG→CCG) | qseB → | quorum sensing DNA‑binding response regulator in two‑component regulatory system with QseC |
| RA | 3,324,956 | C→T | 5.0% | intergenic (‑45/+45) | folP ← / ← ftsH | 7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo |
| RA | 3,560,455:1 | +G | 100% | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,992,624 | T→G | 65.6% | L491R (CTG→CGG) | cyaA → | adenylate cyclase |
| RA | 3,993,145 | C→A | 31.2% | R665S (CGT→AGT) | cyaA → | adenylate cyclase |
| RA | 4,117,005 | T→A | 66.7% | D73V (GAT→GTT) | glpK ← | glycerol kinase |
| RA | 4,117,047 | G→T | 29.1% | S59Y (TCC→TAC) | glpK ← | glycerol kinase |
| RA | 4,296,060 | C→T | 26.3% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 53 (0.490) | 57 (0.580) | 46/316 | NT | 57.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 37 (0.370) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 50 (0.460) | 45 (0.460) | 35/316 | NT | 52.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 37 (0.370) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 3426836 = | NA (NA) | 7 (0.070) | 7/334 | NT | NA | intergenic (‑53/+122) | rrlD/alaU | 23S ribosomal RNA of rrnD operon/tRNA‑Ala |
| ? | NC_000913 | 3426854 = | NA (NA) | intergenic (‑71/+104) | rrlD/alaU | 23S ribosomal RNA of rrnD operon/tRNA‑Ala | |||||
| * | ? | NC_000913 | 3721045 = | 126 (1.160) | 312 (2.880) | 154/346 | NT | 72.5% | noncoding (413/1443 nt) | IS150 | repeat region |
| ? | NC_000913 | = 3839774 | 112 (1.030) | coding (220/819 nt) | nlpA | cytoplasmic membrane lipoprotein‑28 | |||||
| * | ? | NC_000913 | 3832178 = | NA (NA) | 2 (0.020) | 3/328 | NT | NA | noncoding (1/27 nt) | REP277 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP277 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 3832205 = | NA (NA) | intergenic (+39/+14) | yicH/yicI | putative inner membrane‑anchored periplasmic AsmA family protein/putative alpha‑glucosidase | |||||