mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 101 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,986 | 0 | G | A | 61.0% | 29.9 / 40.0 | 42 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,979 | 0 | G | A | 55.0% | 13.0 / 47.6 | 40 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 1,484,228 | 0 | C | T | 54.4% | 33.1 / 99.5 | 81 | Q390* (CAG→TAG) | hrpA | ATP‑dependent 3'‑>5' RNA helicase HrpA |
| * | NC_000913 | 190,843 | 0 | C | A | 42.7% | 137.7 / 15.8 | 143 | intergenic (+244/‑14) | rpsB/tsf | 30S ribosomal subunit protein S2/protein chain elongation factor EF‑Ts |
| * | NC_000913 | 339,467 | 0 | C | T | 41.2% | 52.2 / 96.0 | 80 | G381G (GGC→GGT) | yahG | DUF1116 domain‑containing protein YahG |
| * | NC_000913 | 1,097,118 | 0 | C | A | 38.8% | 38.2 / 77.3 | 80 | intergenic (+289/+447) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 339,992 | 0 | C | . | 36.6% | 83.1 / 55.0 | 41 | coding (224/321 nt) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 3,911,533 | 0 | C | A | 36.6% | 300.7 / 34.0 | 186 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 4,427,822 | 0 | C | A | 35.1% | 299.3 / 17.9 | 188 | intergenic (‑400/+257) | yjfZ/ytfB | DUF2686 domain‑containing protein YjfZ/cell division protein YtfB |
| * | NC_000913 | 442,471 | 0 | C | A | 32.9% | 214.8 / 18.0 | 140 | S308Y (TCC→TAC) | thiI | tRNA uridine 4‑sulfurtransferase |
| * | NC_000913 | 58,065 | 0 | C | A | 32.7% | 234.7 / 30.3 | 150 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 2,767,445 | 0 | C | A | 31.6% | 277.4 / 32.2 | 139 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 3,401,345 | 0 | G | T | 31.3% | 245.3 / 22.2 | 147 | intergenic (‑258/+47) | mreB/csrD | dynamic cytoskeletal protein MreB/regulator of CsrB and CsrC decay |
| * | NC_000913 | 2,990,480 | 0 | C | A | 31.0% | 306.1 / 14.3 | 200 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 1,427,992 | 0 | G | T | 30.9% | 270.9 / 18.4 | 168 | P245P (CCC→CCA) | insH5 | IS5 family transposase and trans‑activator |
| * | NC_000913 | 2,777,982 | 0 | A | . | 30.4% | 414.2 / 224.2 | 171 | intergenic (+200/+164) | ypjF/ypjA | toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter YpjA |
| * | NC_000913 | 3,032,307 | 0 | C | T | 30.4% | 262.6 / 66.2 | 168 | T314M (ACG→ATG) | uacT | urate:H(+) symporter |
| * | NC_000913 | 2,856,087 | 0 | G | T | 30.3% | 240.4 / 12.6 | 155 | E584* (GAG→TAG) | fhlA | DNA‑binding transcriptional activator FhlA |
| * | NC_000913 | 710,830 | 0 | G | T | 30.2% | 287.8 / 26.8 | 173 | intergenic (‑105/+105) | uof/fldA | RyhB‑regulated fur leader peptide/flavodoxin 1 |
| * | NC_000913 | 1,756,353 | 0 | C | A | 30.0% | 255.5 / 12.1 | 150 | S219Y (TCC→TAC) | pykF | pyruvate kinase 1 |
| Marginal new junction evidence (lowest skew 10 of 108 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 55 (0.380) | 44/590 | 1.8 | 17.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3206583 | 266 (1.860) | coding (121/912 nt) | ttdA | L(+)‑tartrate dehydratase subunit alpha | |||||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 51 (0.360) | 34/590 | 2.8 | 13.7% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3262628 | 321 (2.240) | coding (1033/1209 nt) | tdcD | propionate kinase | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 39 (0.270) | 32/586 | 3.0 | 23.2% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3906168 = | 129 (0.910) | coding (400/837 nt) | bglG | transcriptional antiterminator BglG | |||||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 40 (0.280) | 31/590 | 3.2 | 20.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 4544674 | 151 (1.060) | coding (371/726 nt) | fimC | type 1 fimbriae periplasmic chaperone | |||||
| * | ? | NC_000913 | = 3131340 | NA (NA) | 42 (0.290) | 30/590 | 3.4 | 13.0% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3227781 = | 282 (1.970) | intergenic (+114/‑20) | ygjI/ygjJ | putative transporter YgjI/protein YgjJ | |||||
| * | ? | NC_000913 | = 3131340 | NA (NA) | 44 (0.310) | 30/590 | 3.4 | 19.8% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3138533 = | 178 (1.240) | intergenic (‑11/‑194) | gss/yghU | fused glutathionylspermidine amidase/glutathionylspermidine synthetase/disulfide reductase/organic hydroperoxide reductase | |||||
| * | ? | NC_000913 | = 2102943 | NA (NA) | 40 (0.280) | 28/590 | 3.6 | 23.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2192549 = | 128 (0.900) | coding (248/282 nt) | yehE | DUF2574 domain‑containing protein YehE | |||||
| * | ? | NC_000913 | 3652036 = | NA (NA) | 40 (0.280) | 27/590 | 3.8 | 21.6% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 4544671 = | 145 (1.010) | coding (368/726 nt) | fimC | type 1 fimbriae periplasmic chaperone | |||||
| * | ? | NC_000913 | = 780629 | 146 (1.020) | 22 (0.210) | 18/438 | 3.9 | 19.1% | noncoding (76/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | 780919 = | 78 (0.740) | intergenic (+1/‑149) | lysW/valZ | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 33 (0.230) | 23/590 | 4.5 | 10.9% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3206580 = | 269 (1.880) | coding (118/912 nt) | ttdA | L(+)‑tartrate dehydratase subunit alpha | |||||