mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 27 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,245,234 | 0 | G | T | 41.7% | 13.2 / 11.0 | 24 | L25F (TTG→TTT) | ycgY | uncharacterized protein YcgY |
| * | NC_000913 | 766,716 | 0 | G | T | 40.0% | 7.5 / 10.6 | 25 | A245S (GCG→TCG) | mngA | 2‑O‑alpha‑mannosyl‑D‑glycerate specific PTS enzyme II |
| * | NC_000913 | 4,075,877 | 0 | A | C | 36.1% | 75.9 / 12.7 | 61 | T109P (ACC→CCC) | yihX | alpha‑D‑glucose‑1‑phosphate phosphatase YihX |
| * | NC_000913 | 4,256,061 | 0 | C | T | 33.3% | 27.1 / 10.3 | 30 | E136K (GAA→AAA) | plsB | glycerol‑3‑phosphate 1‑O‑acyltransferase |
| * | NC_000913 | 1,550,663 | 0 | A | C | 31.7% | 109.7 / 11.1 | 82 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 729,710 | 0 | T | G | 30.9% | 46.6 / 12.0 | 42 | V43G (GTG→GGG) | rhsC | rhs element protein RhsC |
| * | NC_000913 | 1,445,981 | 0 | T | G | 30.9% | 86.6 / 10.9 | 55 | G34G (GGT→GGG) | ydbL | DUF1318 domain‑containing protein YdbL |
| * | NC_000913 | 332,991 | 0 | G | T | 30.2% | 75.9 / 11.9 | 44 | L207F (TTG→TTT) | pdeL | DNA‑binding transcriptional regulator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 385,797 | 0 | T | G | 29.8% | 116.4 / 13.1 | 69 | V189G (GTG→GGG) | tauA | taurine ABC transporter periplasmic binding protein |
| * | NC_000913 | 4,098,391 | 0 | A | C | 29.3% | 103.9 / 10.9 | 78 | Y219S (TAC→TCC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 3,177,748 | 0 | C | A | 29.3% | 38.6 / 13.8 | 41 | E55* (GAG→TAG) | nudF | ADP‑sugar pyrophosphatase |
| * | NC_000913 | 3,486,386 | 0 | G | A | 28.3% | 79.5 / 11.1 | 46 | A89A (GCG→GCA) | crp | DNA‑binding transcriptional dual regulator CRP |
| * | NC_000913 | 1,455,940 | 0 | A | C | 27.2% | 119.6 / 13.2 | 85 | T6P (ACC→CCC) | paaD | phenylacetate degradation protein |
| * | NC_000913 | 1,876,015 | 0 | A | G | 27.0% | 123.6 / 11.7 | 65 | I115V (ATT→GTT) | nimT | 2‑nitroimidazole exporter |
| * | NC_000913 | 691,883 | 0 | C | T | 26.5% | 88.2 / 11.0 | 50 | E153E (GAG→GAA) | ybeY | endoribonuclease YbeY |
| * | NC_000913 | 1,383,722 | 0 | G | A | 26.1% | 87.4 / 15.9 | 46 | F80F (TTC→TTT) | ycjW | DNA‑binding transcriptional repressor YcjW |
| * | NC_000913 | 3,497,728 | 0 | A | G | 25.7% | 160.2 / 11.7 | 74 | G242G (GGA→GGG) | nirC | nitrite transporter NirC |
| * | NC_000913 | 2,296,764 | 0 | T | G | 25.4% | 217.7 / 10.5 | 111 | L87F (TTA→TTC) | ccmB | cytochrome c maturation protein B |
| * | NC_000913 | 119,396 | 0 | C | T | 24.6% | 128.1 / 14.5 | 69 | S39F (TCT→TTT) | ampE | protein AmpE |
| * | NC_000913 | 1,260,888 | 0 | C | A | 23.2% | 90.7 / 10.2 | 57 | intergenic (‑85/+40) | dauA/prs | aerobic C4‑dicarboxylate transporter DauA/ribose‑phosphate diphosphokinase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3052561 | 111 (1.680) | 3 (0.050) | 3/486 | 5.0 | 3.3% | coding (958/1179 nt) | ubiH | 2‑octaprenyl‑6‑methoxyphenol 4‑hydroxylase |
| ? | NC_000913 | = 4232178 | 66 (1.010) | coding (1056/1350 nt) | lysC | aspartate kinase III | |||||
| * | ? | NC_000913 | = 972141 | 77 (1.170) | 3 (0.050) | 3/486 | 5.0 | 4.0% | coding (390/894 nt) | ycbJ | putative phosphotransferase YcbJ |
| ? | NC_000913 | = 2795844 | 69 (1.050) | coding (171/663 nt) | glaR | DNA‑binding transcriptional repressor GlaR | |||||
| * | ? | NC_000913 | = 798949 | 105 (1.590) | 3 (0.050) +A |
3/486 | 5.0 | 3.4% | coding (364/996 nt) | pgl | 6‑phosphogluconolactonase |
| ? | NC_000913 | = 4422834 | 68 (1.030) | coding (649/651 nt) | ulaD | 3‑keto‑L‑gulonate‑6‑phosphate decarboxylase UlaD | |||||