mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | 1,239,823 | 0 | T | G | 34.7% | 82.5 / 12.0 | 50 | G315G (GGT→GGG) | dadX | alanine racemase, catabolic, PLP‑binding |
| * | NC_000913 | 3,499,616 | 0 | G | A | 34.2% | 56.7 / 12.9 | 38 | intergenic (+1/‑294) | yhfL/frlA | small lipoprotein/putative fructoselysine transporter |
| * | NC_000913 | 4,004,132 | 0 | G | A | 31.9% | 71.5 / 18.6 | 47 | A16V (GCT→GTT) | rarD | putative chloramphenical resistance permease |
| * | NC_000913 | 458,201 | 0 | C | T | 27.5% | 90.1 / 12.4 | 51 | S259F (TCC→TTC) | clpX | ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease |
| * | NC_000913 | 3,177,748 | 0 | C | A | 26.8% | 65.7 / 10.3 | 41 | E55* (GAG→TAG) | nudF | ADP‑ribose pyrophosphatase |
| * | NC_000913 | 4,101,514 | 0 | G | T | 25.5% | 79.4 / 16.3 | 47 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase, Mn/2‑keto‑3‑deoxy‑D‑gluconate transporter |
| * | NC_000913 | 1,383,722 | 0 | G | A | 24.0% | 97.4 / 11.7 | 50 | F80F (TTC→TTT) | ycjW | LacI family putative transcriptional repressor |
| * | NC_000913 | 1,972,741 | 0 | G | A | 21.6% | 112.7 / 11.5 | 51 | intergenic (‑50/+95) | tar/cheW | methyl‑accepting chemotaxis protein II/purine‑binding chemotaxis protein |
| * | NC_000913 | 3,759,227 | 0 | A | T | 20.9% | 97.6 / 10.8 | 43 | V212E (GTA→GAA) | selB | selenocysteinyl‑tRNA‑specific translation factor |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 86 (1.290) | 9 (0.150) | 9/394 | 4.4 | 11.9% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 54 (0.870) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 3484544 = | 80 (1.200) | 4 (0.060) | 4/406 | 6.6 | 4.9% | coding (55/870 nt) | prkB | putative phosphoribulokinase |
| ? | NC_000913 | = 3484540 | 78 (1.230) | coding (51/870 nt) | prkB | putative phosphoribulokinase | |||||
| * | ? | NC_000913 | 4338781 = | 76 (1.140) | 4 (0.060) | 4/414 | 6.7 | 5.4% | coding (1741/2268 nt) | adiA | arginine decarboxylase |
| ? | NC_000913 | 4339087 = | 66 (1.020) | coding (1435/2268 nt) | adiA | arginine decarboxylase | |||||
| * | ? | NC_000913 | = 3478530 | 69 (1.030) | 5 (0.080) | 4/412 | 6.7 | 7.5% | intergenic (‑33/+62) | slyD/yheV | FKBP‑type peptidyl prolyl cis‑trans isomerase (rotamase)/DUF2387 family putative metal‑binding protein |
| ? | NC_000913 | = 3478714 | 57 (0.880) | coding (79/201 nt) | yheV | DUF2387 family putative metal‑binding protein | |||||
| * | ? | NC_000913 | = 1588542 | 72 (1.080) | 4 (0.060) | 4/418 | 6.7 | 5.8% | coding (298/531 nt) | ydeS | putative fimbrial‑like adhesin protein |
| ? | NC_000913 | = 1588828 | 59 (0.900) | coding (12/531 nt) | ydeS | putative fimbrial‑like adhesin protein | |||||
| * | ? | NC_000913 | = 4481575 | 74 (1.110) | 3 (0.050) | 3/410 | 7.2 | 4.4% | coding (2263/2856 nt) | valS | valyl‑tRNA synthetase |
| ? | NC_000913 | = 4481660 | 58 (0.900) | coding (2178/2856 nt) | valS | valyl‑tRNA synthetase | |||||
| * | ? | NC_000913 | = 4150547 | 71 (1.060) | 4 (0.060) | 3/412 | 7.2 | 4.8% | coding (2552/2652 nt) | ppc | phosphoenolpyruvate carboxylase |
| ? | NC_000913 | = 4150904 | 91 (1.410) | coding (2195/2652 nt) | ppc | phosphoenolpyruvate carboxylase | |||||
| * | ? | NC_000913 | = 3926523 | 58 (0.870) | 3 (0.050) | 3/412 | 7.2 | 4.7% | intergenic (‑68/+22) | mioC/asnC | FMN‑binding protein MioC/transcriptional activator of asnA; autorepressor |
| ? | NC_000913 | = 3926995 | 65 (1.010) | coding (9/459 nt) | asnC | transcriptional activator of asnA; autorepressor | |||||
| * | ? | NC_000913 | = 3282481 | 70 (1.050) | 4 (0.060) | 3/414 | 7.2 | 6.0% | coding (506/1155 nt) | agaS | tagatose‑6‑phosphate ketose/aldose isomerase |
| ? | NC_000913 | = 3282565 | 57 (0.880) | coding (590/1155 nt) | agaS | tagatose‑6‑phosphate ketose/aldose isomerase | |||||
| * | ? | NC_000913 | = 1387098 | 100 (1.500) | 4 (0.060) | 3/414 | 7.2 | 4.6% | coding (379/1542 nt) | tyrR | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase |
| ? | NC_000913 | = 1387248 | 68 (1.050) | coding (529/1542 nt) | tyrR | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase | |||||