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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 440,322 | 0 | C | T | 64.4% | 40.1 / 39.7 | 45 | R260R (CGG→CGA) | ispA | geranyl diphosphate/farnesyl diphosphate synthase |
| * | NC_000913 | 3,914,220 | 0 | G | A | 55.8% | 12.0 / 50.5 | 43 | G327G (GGC→GGT) | glmU | fused N‑acetylglucosamine‑1‑phosphate uridyltransferase and glucosamine‑1‑phosphate acetyltransferase |
| * | NC_000913 | 277,158 | 0 | G | A | 52.4% | 4.5 / 50.7 | 42 | A148A (GCG→GCA) | mmuM | homocysteine S‑methyltransferase |
| * | NC_000913 | 3,653,641 | 1 | . | G | 52.0% | 122.8 / 135.1 | 73 | pseudogene (406/478 nt) | yhiS | putative uncharacterized protein YhiS |
| * | NC_000913 | 3,365,410 | 0 | A | G | 51.0% | 5.5 / 215.0 | 149 | pseudogene (226/371 nt) | yhcE | putative uncharacterized protein YhcE |
| * | NC_000913 | 255,968 | 0 | A | G | 50.0% | ‑6.4 / 61.7 | 44 | intergenic (‑252/‑9) | pepD/gpt | peptidase D/xanthine‑guanine phsophoribosyltransferase |
| * | NC_000913 | 1,825,061 | 0 | G | A | 40.7% | 26.0 / 11.9 | 27 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,111,747 | 0 | G | T | 40.0% | 42.7 / 13.7 | 25 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,604,344 | 0 | C | T | 36.8% | 59.8 / 34.8 | 57 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,001,918 | 0 | A | C | 36.6% | 61.0 / 14.3 | 42 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,206,435 | 0 | C | T | 34.8% | 21.6 / 12.3 | 23 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 753,125 | 0 | T | A | 34.3% | 61.9 / 14.9 | 35 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 30.6% | 56.2 / 18.5 | 36 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,580,095 | 0 | A | C | 24.4% | 95.4 / 10.4 | 45 | G456G (GGT→GGG) | hsdS | type I restriction enzyme EcoKI specificity protein |
| Marginal new junction evidence (lowest skew 10 of 20 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 375064 | NA (NA) | 9 (0.250) | 6/192 | 3.0 | NA | noncoding (33/34 nt) | other | REP31c |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 375023 = | NA (NA) | 5 (0.140) | 5/192 | 3.4 | NA | intergenic (+142/‑436) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | NA (NA) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 4542690 | 40 (0.780) | 7 (0.150) | 7/258 | 3.6 | 13.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 56 (1.170) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 375124 = | NA (NA) | 7 (0.200) | 4/192 | 3.8 | NA | intergenic (+243/‑335) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | NA (NA) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 4373295 = | NA (NA) | 17 (0.360) | 6/256 | 3.9 | NA | noncoding (2/34 nt) | other | REP328b |
| ? | NC_000913 | 4374499 = | NA (NA) | noncoding (1/34 nt) | other | REP329a | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 8 (0.190) | 5/224 | 3.9 | 15.7% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 43 (1.040) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | = 375160 | NA (NA) | 8 (0.160) +T |
6/274 | 4.2 | NA | noncoding (28/34 nt) | other | REP31e |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 4542682 = | 45 (0.880) | 5 (0.100) | 5/258 | 4.3 | 9.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 56 (1.170) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 375248 = | NA (NA) | 4 (0.090) | 4/238 | 4.5 | NA | noncoding (15/34 nt) | other | REP31g |
| ? | NC_000913 | 377507 = | NA (NA) | noncoding (16/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | = 555833 | 48 (0.940) | 8 (0.180) | 4/244 | 4.6 | 14.1% | coding (1223/1386 nt) | cysS | cysteine‑‑tRNA ligase |
| ? | NC_000913 | = 556784 | 55 (1.220) | coding (90/213 nt) | ybcJ | putative RNA‑binding protein YbcJ | |||||