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 31 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 996,185 | 0 | T | . | 67.2% | 444.5 / inf | 302 | coding (760/960 nt) | ssuA | aliphatic sulfonate ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,092,956 | 0 | T | C | 66.6% | 548.4 / inf | 410 | F7S (TTT→TCT) | yqgE | DUF179 domain‑containing protein YqgE |
| * | NC_000913 | 3,907,457 | 0 | G | A | 66.1% | 563.3 / inf | 398 | T41I (ACC→ATC) | phoU | negative regulator of the pho regulon |
| * | NC_000913 | 2,704,402 | 0 | C | T | 65.0% | 424.5 / inf | 329 | S303N (AGC→AAC) | lepB | signal peptidase I |
| * | NC_000913 | 2,738,866 | 0 | T | C | 64.4% | 415.5 / inf | 360 | C374C (TGT→TGC) | pheA | fused chorismate mutase/prephenate dehydratase |
| * | NC_000913 | 3,450,245 | 0 | A | G | 62.6% | 403.2 / inf | 364 | intergenic (‑12/+3) | rplV/rpsS | 50S ribosomal subunit protein L22/30S ribosomal subunit protein S19 |
| * | NC_000913 | 2,577,054 | 0 | G | A | 62.5% | 366.9 / inf | 352 | P442S (CCG→TCG) | maeB | malate dehydrogenase |
| * | NC_000913 | 4,573,209 | 1 | . | A | 60.0% | inf / inf | 387 | coding (796/1518 nt) | yjiT | putative uncharacterized protein YjiT |
| * | NC_000913 | 1,594,124 | 1 | . | C | 58.8% | 595.1 / inf | 250 | pseudogene (3963/5422 nt) | yneO | AIDA‑I family autotransporter YneO |
| * | NC_000913 | 4,556,760 | 1 | . | T | 45.4% | ‑0.7 / inf | 326 | coding (107/144 nt) | ytiD | protein YtiD |
| * | NC_000913 | 3,430,330 | 0 | G | A | 35.2% | 397.7 / inf | 324 | A170V (GCG→GTG) | aroE | shikimate dehydrogenase |
| * | NC_000913 | 4,561,617 | 0 | A | G | 34.4% | 526.5 / inf | 392 | S353S (AGT→AGC) | yjiJ | putative transporter YjiJ |
| * | NC_000913 | 2,463,535 | 0 | A | G | 33.7% | 654.8 / inf | 457 | Y175C (TAC→TGC) | yfdF | protein YfdF |
| * | NC_000913 | 3,437,626 | 0 | T | C | 32.9% | 581.2 / inf | 383 | V370A (GTT→GCT) | trkA | NAD‑binding component of Trk potassium transporters |
| * | NC_000913 | 2,431,236 | 0 | G | A | 32.8% | 509.9 / inf | 366 | A150V (GCG→GTG) | dedD | cell division protein DedD |
| * | NC_000913 | 1,103,739 | 0 | T | . | 32.7% | 1200.3 / inf | 398 | intergenic (‑543/‑212) | csgD/csgB | DNA‑binding transcriptional dual regulator CsgD/curlin, minor subunit |
| * | NC_000913 | 3,127,582 | 0 | T | C | 32.6% | 490.1 / inf | 344 | D147G (GAC→GGC) | glcD | glycolate dehydrogenase, putative FAD‑linked subunit |
| * | NC_000913 | 1,799,032 | 0 | G | A | 32.2% | 469.8 / inf | 326 | intergenic (‑90/+194) | pheS/pheM | phenylalanine‑‑tRNA ligase subunit alpha/pheST‑ihfA operon leader peptide |
| * | NC_000913 | 2,821,424 | 0 | G | C | 32.1% | 424.8 / inf | 271 | G196G (GGC→GGG) | alaS | alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor |
| * | NC_000913 | 1,380,800 | 0 | A | G | 30.7% | 579.9 / inf | 339 | N218S (AAC→AGC) | ycjU | beta‑phosphoglucomutase |
| 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 | 116 (0.310) | 176 (0.560) | 108/164 | 3.3 | 62.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 119 (0.380) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 71350 | 413 (1.090) | 164 (0.450) | 61/190 | 18.9 | 45.0% | intergenic (+85/‑1) | araC/yabI | DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI |
| ? | NC_000913 | = 2857042 | 0 (0.000) | intergenic (‑236/‑51) | ygbA/mutS | protein YgbA/DNA mismatch repair protein MutS | |||||
| * | ? | NC_000913 | = 4542690 | 496 (1.310) | 25 (0.070) | 21/178 | 35.1 | 5.4% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 423 (1.230) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1209618 | 119 (0.310) | 30 (0.090) | 18/166 | 35.3 | 11.7% | pseudogene (38/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment |
| ? | NC_000913 | 2471897 = | 354 (1.100) | pseudogene (166/519 nt) | yfdL | CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL | |||||
| * | ? | NC_000913 | 4542682 = | 498 (1.310) | 20 (0.060) | 18/178 | 37.0 | 4.4% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 425 (1.230) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||