mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 500 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 599,576 | 0 | T | G | 45.6% | 100.5 / 32.7 | 80 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 1,080,856 | 0 | T | G | 43.4% | 76.7 / 12.1 | 53 | intergenic (+43/‑500) | putP/efeU | proline:sodium symporter/ferrous iron permease (pseudogene) |
| * | NC_000913 | 357,890 | 0 | C | A | 43.2% | 28.6 / 25.5 | 44 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 2,483,268 | 0 | T | A | 41.8% | 95.7 / 47.2 | 79 | L24F (TTA→TTT) | emrK | multidrug resistance efflux pump membrane fusion protein |
| * | NC_000913 | 1,080,837 | 0 | G | T | 40.4% | 53.7 / 29.2 | 57 | intergenic (+24/‑519) | putP/efeU | proline:sodium symporter/ferrous iron permease (pseudogene) |
| * | NC_000913 | 354,288 | 0 | T | G | 40.0% | 125.7 / 13.5 | 70 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 39.8% | 174.2 / 28.8 | 108 | G244G (GGT→GGG) | acuI | putative acryloyl‑CoA reductase |
| * | NC_000913 | 862,559 | 0 | G | T | 38.7% | 103.6 / 41.1 | 75 | H16Q (CAC→CAA) | ybiW | putative pyruvate formate lyase |
| * | NC_000913 | 4,604,350 | 0 | C | T | 38.6% | 81.7 / 36.0 | 71 | S64F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 300,126 | 0 | A | G | 38.5% | 76.1 / 11.4 | 65 | L270P (CTC→CCC) | paoC | PaoABC aldehyde oxidoreductase, Moco‑containing subunit |
| * | NC_000913 | 2,421,443 | 0 | A | C | 38.4% | 138.4 / 12.4 | 73 | Y40S (TAC→TCC) | folX | D‑erythro‑7,8‑dihydroneopterin triphosphate 2'‑epimerase and dihydroneopterin aldolase |
| * | NC_000913 | 3,508,657 | 0 | A | G | 38.2% | 118.5 / 14.8 | 76 | F386S (TTC→TCC) | yhfW | phosphopentomutase‑related metalloenzyme superfamily protein |
| * | NC_000913 | 523,335 | 0 | T | G | 38.1% | 156.0 / 15.0 | 84 | G25G (GGT→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913 | 281,089 | 0 | A | C | 37.9% | 189.9 / 10.8 | 105 | Y299D (TAT→GAT) | yagA | CP4‑6 prophage; putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 753,125 | 0 | T | A | 37.8% | 104.6 / 43.6 | 75 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial‑like adhesin protein/citrate synthase |
| * | NC_000913 | 40,515 | 0 | G | T | 37.8% | 102.3 / 36.5 | 82 | Q473K (CAA→AAA) | caiT | putative transporter |
| * | NC_000913 | 1,489,174 | 0 | G | T | 37.5% | 86.6 / 17.0 | 57 | G315C (GGT→TGT) | aldA | aldehyde dehydrogenase A, NAD‑linked |
| * | NC_000913 | 941,713 | 0 | T | G | 37.3% | 95.9 / 16.1 | 59 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| * | NC_000913 | 40,525 | 0 | C | T | 37.2% | 103.7 / 29.5 | 81 | L469L (CTG→CTA) | caiT | putative transporter |
| * | NC_000913 | 3,508,662 | 0 | T | A | 37.0% | 109.5 / 26.8 | 76 | E384D (GAA→GAT) | yhfW | phosphopentomutase‑related metalloenzyme superfamily protein |
| 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 | = 1207805 | 69 (0.770) | 15 (0.190) | 15/266 | 8.3 | 19.9% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 59 (0.740) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 73 (0.810) | 16 (0.200) | 14/266 | 8.8 | 20.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 59 (0.740) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4542690 | 110 (1.230) | 6 (0.070) | 6/280 | 13.6 | 5.3% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 109 (1.290) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 114 (1.270) | 6 (0.070) | 6/280 | 13.6 | 5.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 110 (1.310) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 105361 = | 100 (1.110) | 3 (0.040) | 3/274 | 15.7 | 3.1% | coding (57/1152 nt) | ftsZ | GTP‑binding tubulin‑like cell division protein |
| ? | NC_000913 | = 105357 | 94 (1.140) | coding (53/1152 nt) | ftsZ | GTP‑binding tubulin‑like cell division protein | |||||