mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,355,035 | 0 | G | A | 56.2% | 36.5 / 112.0 | 96 | R146C (CGT→TGT) | sapB | antimicrobial peptide transport ABC transporter permease |
| * | NC_000913 | 3,815,810 | 0 | G | T | 53.3% | 7.3 / 132.0 | 92 | intergenic (‑42/+24) | pyrE/rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| * | NC_000913 | 3,965,547 | 0 | C | . | 50.0% | 130.4 / 171.3 | 83 | coding (84/1266 nt) | rhlB | ATP‑dependent RNA helicase |
| * | NC_000913 | 3,815,809 | 0 | G | . | 42.7% | 163.4 / 152.5 | 90 | intergenic (‑41/+25) | pyrE/rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| * | NC_000913 | 2,650,307 | 0 | C | A | 39.5% | 68.9 / 94.9 | 87 | A661S (GCC→TCC) | yfhM | bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein |
| * | NC_000913 | 3,802,236 | 0 | C | A | 38.1% | 93.2 / 87.7 | 85 | D275Y (GAT→TAT) | waaO | UDP‑D‑galactose:(glucosyl)lipopolysaccharide‑ alpha‑1,3‑D‑galactosyltransferase |
| * | NC_000913 | 2,966,573 | 0 | T | G | 34.6% | 62.2 / 80.7 | 79 | D621A (GAT→GCT) | ptsP | PEP‑protein phosphotransferase enzyme I; GAF domain containing protein |
| * | NC_000913 | 4,296,268 | 0 | T | C | 33.3% | 61.2 / 38.4 | 51 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,296,190 | 0 | A | G | 28.6% | 48.9 / 25.7 | 50 | intergenic (+396/+246) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,296,191 | 0 | A | C | 26.5% | 46.3 / 31.5 | 50 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,296,286 | 0 | C | T | 21.6% | 93.1 / 22.3 | 53 | intergenic (+492/+150) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat 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 | 1096961 = | 58 (0.720) | 25 (0.420) | 8/440 | 6.8 | 36.6% | intergenic (+132/+604) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | = 1097503 | 44 (0.740) | intergenic (+674/+62) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 1207790 = | 70 (0.860) | 11 (0.140) | 11/568 | 7.4 | 15.4% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 55 (0.720) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 73 (0.900) | 10 (0.130) | 10/568 | 7.8 | 14.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 54 (0.700) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4542690 | 108 (1.330) | 6 (0.080) | 6/582 | 10.0 | 5.5% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 101 (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 = | 108 (1.330) | 7 (0.090) | 6/582 | 10.0 | 6.4% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 101 (1.290) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||