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 |
| Marginal read alignment evidence (highest frequency 20 of 106 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,999,337 | 0 | C | A | 66.7% | ‑2.3 / 14.5 | 18 | intergenic (‑192/‑287) | ygeV/ygeW | sigma‑54‑dependent Fis family transcriptional regulator/knotted carbamoyltransferase YgeW |
| * | NZ_CP009273 | 1,819,313 | 0 | G | A | 64.3% | ‑4.8 / 11.2 | 14 | intergenic (‑119/+84) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 822,963 | 0 | T | G | 63.2% | 6.0 / 41.8 | 38 | D492A (GAC→GCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 228,181 | 0 | C | T | 60.6% | 7.6 / 36.4 | 33 | F191F (TTC→TTT) | yafD | endonuclease/exonuclease/phosphatase family protein |
| * | NZ_CP009273 | 1,254,452 | 0 | T | G | 60.0% | ‑0.5 / 10.3 | 20 | V69G (GTG→GGG) | ychH | stress‑induced protein YchH |
| * | NZ_CP009273 | 2,001,832 | 0 | T | G | 60.0% | 7.9 / 18.6 | 20 | G25G (GGT→GGG) | yedE | selenium metabolism membrane protein YedE/FdhT |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 58.8% | 14.1 / 17.7 | 17 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 970,379 | 0 | C | T | 58.3% | 10.4 / 25.5 | 24 | S202F (TCC→TTC) | mukF | chromosome partition protein MukF |
| * | NZ_CP009273 | 2,999,333 | 0 | C | T | 57.9% | 1.8 / 14.4 | 19 | intergenic (‑188/‑291) | ygeV/ygeW | sigma‑54‑dependent Fis family transcriptional regulator/knotted carbamoyltransferase YgeW |
| * | NZ_CP009273 | 1,819,318 | 0 | G | A | 57.1% | 1.7 / 14.1 | 14 | intergenic (‑124/+79) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 760,181 | 0 | G | C | 55.6% | 13.0 / 24.5 | 18 | P182P (CCG→CCC) | sucD | succinate‑‑CoA ligase subunit alpha |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 55.3% | 35.4 / 49.1 | 38 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 1,152,727 | 0 | T | G | 55.0% | 13.7 / 25.2 | 21 | G165G (GGT→GGG) | ycfH | metal‑dependent hydrolase |
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 55.0% | 14.0 / 16.8 | 20 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| * | NZ_CP009273 | 5,159 | 0 | G | A | 54.5% | 5.0 / 27.6 | 22 | intergenic (+139/‑75) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein |
| * | NZ_CP009273 | 2,155,570 | 0 | T | G | 54.2% | 29.2 / 34.6 | 24 | V209G (GTA→GGA) | mdtD | MFS transporter |
| * | NZ_CP009273 | 1,620,602 | 0 | G | C | 53.8% | 2.5 / 13.4 | 13 | R346G (CGG→GGG) | dcp | peptidyl‑dipeptidase Dcp |
| * | NZ_CP009273 | 1,074,943 | 0 | A | T | 53.3% | 9.8 / 21.0 | 15 | L61F (TTA→TTT) | putP | sodium/proline symporter PutP |
| * | NZ_CP009273 | 2,775,868 | 0 | A | C | 53.3% | 22.6 / 39.9 | 30 | V73G (GTA→GGA) | ypjA | adhesin‑like autotransporter YpjA/EhaD |
| * | NZ_CP009273 | 1,906,007 | 0 | T | G | 52.9% | 13.4 / 19.1 | 17 | H276P (CAC→CCC) | htpX | protease HtpX |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 353455 | 119 (2.830) | 3 (0.080) | 3/152 | 2.8 | 2.4% | intergenic (+290/+47) | codA/cynR | cytosine/isoguanine deaminase/transcriptional regulator CynR |
| ? | NZ_CP009273 | = 353466 | 134 (3.490) | intergenic (+301/+36) | codA/cynR | cytosine/isoguanine deaminase/transcriptional regulator CynR | |||||