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 30 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,558,378 | 0 | A | C | 64.3% | ‑0.8 / 10.4 | 15 | V538G (GTA→GGA) | dosP | oxygen‑sensing cyclic‑di‑GMP phosphodiesterase |
| * | NZ_CP009273 | 2,678,659 | 0 | A | C | 60.0% | 12.7 / 15.0 | 15 | Y70D (TAT→GAT) | glyA | serine hydroxymethyltransferase |
| * | NZ_CP009273 | 3,498,440 | 0 | C | T | 60.0% | ‑0.0 / 12.4 | 15 | E314K (GAA→AAA) | yhfS | aminotransferase class I/II‑fold pyridoxal phosphate‑dependent enzyme |
| * | NZ_CP009273 | 3,126,661 | 0 | T | G | 58.8% | 4.3 / 18.0 | 17 | H219P (CAC→CCC) | yghS | dTMP kinase |
| * | NZ_CP009273 | 381,253 | 0 | T | G | 58.3% | 3.9 / 10.2 | 12 | V189G (GTG→GGG) | tauA | taurine ABC transporter substrate‑binding protein |
| * | NZ_CP009273 | 832,042 | 0 | C | G | 58.3% | 0.5 / 11.5 | 12 | A79G (GCG→GGG) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 1,125,825 | 0 | T | C | 58.3% | 6.2 / 11.8 | 12 | G165G (GGA→GGG) | flgA | flagellar basal body P‑ring formation chaperone FlgA |
| * | NZ_CP009273 | 3,498,447 | 0 | C | T | 57.1% | ‑1.0 / 10.7 | 14 | S311S (TCG→TCA) | yhfS | aminotransferase class I/II‑fold pyridoxal phosphate‑dependent enzyme |
| * | NZ_CP009273 | 2,794,496 | 0 | T | G | 56.5% | 22.5 / 25.1 | 23 | V58G (GTG→GGG) | nrdI | class Ib ribonucleoside‑diphosphate reductase assembly flavoprotein NrdI |
| * | NZ_CP009273 | 3,214,126 | 0 | T | C | 56.2% | 9.2 / 19.2 | 16 | I425T (ATC→ACC) | ygjG | putrescine aminotransferase |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 55.6% | 13.4 / 21.5 | 18 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 2,155,588 | 0 | A | G | 54.5% | 6.1 / 12.0 | 11 | D215G (GAC→GGC) | mdtD | MFS transporter |
| * | NZ_CP009273 | 2,476,740 | 0 | C | A | 54.5% | 10.3 / 17.9 | 11 | A27S (GCG→TCG) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NZ_CP009273 | 2,787,825 | 0 | A | C | 54.5% | 0.3 / 10.0 | 11 | T72P (ACG→CCG) | gabP | GABA permease |
| * | NZ_CP009273 | 3,734,269 | 0 | T | G | 54.5% | 12.4 / 25.8 | 22 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate transaminase |
| * | NZ_CP009273 | 4,195,549 | 0 | G | T | 54.5% | 7.2 / 16.5 | 11 | S104* (TCA→TAA) | purD | phosphoribosylamine‑‑glycine ligase |
| * | NZ_CP009273 | 371,031 | 0 | T | G | 53.8% | 9.6 / 13.3 | 13 | G39G (GGT→GGG) | mhpT | 3‑(3‑hydroxy‑phenyl)propionate transporter |
| * | NZ_CP009273 | 832,048 | 0 | T | G | 53.8% | 9.1 / 12.9 | 14 | V81G (GTC→GGC) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 3,946,904 | 0 | C | G | 53.8% | 9.4 / 15.3 | 13 | R23G (CGC→GGC) | ilvD | dihydroxy‑acid dehydratase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 53.6% | 6.6 / 30.6 | 28 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| 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 | = 3774410 | 29 (1.600) | 3 (0.190) | 3/148 | 1.5 | 10.1% | intergenic (+33/‑165) | lldD/trmL | quinone‑dependent L‑lactate dehydrogenase/tRNA (uridine(34)/cytosine(34)/5‑ carboxymethylaminomethyluridine(34)‑2'‑O)‑ methyltransferase TrmL |
| ? | NZ_CP009273 | = 3774411 | 28 (1.750) | intergenic (+34/‑164) | lldD/trmL | quinone‑dependent L‑lactate dehydrogenase/tRNA (uridine(34)/cytosine(34)/5‑ carboxymethylaminomethyluridine(34)‑2'‑O)‑ methyltransferase TrmL | |||||