breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
Marginal read alignment evidence (highest frequency 20 of 403 shown, sorted by frequency from high to low) | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NZ_CP009273 | 2,145,111 | 0 | C | A | 53.4% | 58.9 / 107.5 | 61 | A149E (GCA→GAA) | yegJ | DUF2314 domain‑containing protein |
* | NZ_CP009273 | 4,036,353 | 0 | C | T | 50.0% | 25.7 / 26.7 | 56 | F193F (TTC→TTT) | srkA | stress response kinase SrkA |
* | NZ_CP009273 | 4,036,390 | 0 | A | G | 47.2% | 53.2 / 17.3 | 53 | N206D (AAT→GAT) | srkA | stress response kinase SrkA |
* | NZ_CP009273 | 383,643 | 0 | T | G | 45.5% | 106.1 / 16.2 | 79 | G131G (GGT→GGG) | tauD | taurine dioxygenase |
* | NZ_CP009273 | 1,995,399 | 0 | A | C | 42.9% | 152.7 / 22.1 | 91 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
* | NZ_CP009273 | 2,145,146 | 0 | G | T | 41.9% | 88.4 / 23.3 | 63 | intergenic (+19/+46) | yegJ/pphC | DUF2314 domain‑containing protein/protein‑serine/threonine phosphatase PphC |
* | NZ_CP009273 | 107,682 | 0 | T | G | 41.0% | 120.7 / 16.4 | 78 | V51G (GTG→GGG) | mutT | 8‑oxo‑dGTP diphosphatase MutT |
* | NZ_CP009273 | 2,221,754 | 0 | T | C | 40.9% | 64.9 / 15.6 | 67 | pseudogene (484/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
* | NZ_CP009273 | 4,594,161 | 0 | C | T | 39.8% | 114.8 / 42.9 | 89 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
* | NZ_CP009273 | 2,145,084 | 0 | C | A | 39.7% | 95.4 / 34.9 | 58 | P140Q (CCA→CAA) | yegJ | DUF2314 domain‑containing protein |
* | NZ_CP009273 | 3,199,794 | 0 | C | T | 39.2% | 97.9 / 35.4 | 79 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
* | NZ_CP009273 | 2,145,167 | 0 | G | T | 38.7% | 53.4 / 16.9 | 63 | intergenic (+40/+25) | yegJ/pphC | DUF2314 domain‑containing protein/protein‑serine/threonine phosphatase PphC |
* | NZ_CP009273 | 2,476,733 | 0 | G | A | 38.5% | 197.4 / 49.4 | 123 | S29L (TCA→TTA) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
* | NZ_CP009273 | 2,145,134 | 0 | G | T | 37.7% | 92.9 / 18.3 | 61 | intergenic (+7/+58) | yegJ/pphC | DUF2314 domain‑containing protein/protein‑serine/threonine phosphatase PphC |
* | NZ_CP009273 | 4,594,167 | 0 | C | T | 37.5% | 124.8 / 34.2 | 89 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
* | NZ_CP009273 | 2,145,143 | 0 | A | T | 37.3% | 79.0 / 22.3 | 60 | intergenic (+16/+49) | yegJ/pphC | DUF2314 domain‑containing protein/protein‑serine/threonine phosphatase PphC |
* | NZ_CP009273 | 2,089,571 | 0 | A | G | 37.1% | 117.3 / 22.2 | 70 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase subunit HisF |
* | NZ_CP009273 | 2,145,154 | 0 | T | G | 37.1% | 81.3 / 13.0 | 65 | intergenic (+27/+38) | yegJ/pphC | DUF2314 domain‑containing protein/protein‑serine/threonine phosphatase PphC |
* | NZ_CP009273 | 2,145,105 | 0 | T | A | 36.4% | 88.5 / 17.5 | 59 | L147Q (CTA→CAA) | yegJ | DUF2314 domain‑containing protein |
* | NZ_CP009273 | 1,819,313 | 0 | G | A | 36.2% | 140.7 / 30.5 | 80 | intergenic (‑119/+84) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
Marginal new junction evidence (sorted from low to high skew) | |||||||||||
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seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | NZ_CP009273 | = 3541908 | 75 (0.740) | 9 (0.100) +23 bp |
9/448 | 13.0 | 11.3% | coding (1522/2085 nt) | malQ | 4‑alpha‑glucanotransferase |
? | NZ_CP009273 | 3541932 = | 81 (0.800) | coding (1498/2085 nt) | malQ | 4‑alpha‑glucanotransferase | |||||
* | ? | NZ_CP009273 | 4532499 = | 125 (1.230) | 5 (0.050) | 5/478 | 16.3 | 4.1% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
? | NZ_CP009273 | 4532813 = | 114 (1.170) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |