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 25 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,637,430 | 0 | G | A | 67.2% | 101.2 / 49.7 | 68 | intergenic (‑74/+44) | der/bamB | 50S ribosomal subunit stability factor/outer membrane protein assembly factor BamB |
| * | NC_000913 | 1,401,094 | 0 | A | G | 64.2% | 44.4 / 73.5 | 67 | V227A (GTT→GCT) | abgT | p‑aminobenzoyl glutamate:H(+) symporter |
| * | NC_000913 | 3,947,649 | 0 | A | G | 61.5% | 26.6 / 39.3 | 39 | W107R (TGG→CGG) | hdfR | DNA‑binding transcriptional dual regulator HdfR |
| * | NC_000913 | 2,673,745 | 1 | . | G | 56.0% | 44.3 / 40.7 | 25 | coding (400/423 nt) | yphA | putative inner membrane protein |
| * | NC_000913 | 1,466,090 | 0 | C | T | 53.2% | 17.9 / 83.0 | 62 | pseudogene (699/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| * | NC_000913 | 1,687,520 | 0 | A | G | 49.1% | 4.1 / 79.6 | 60 | G286G (GGT→GGC) | fumA | fumarase A |
| * | NC_000913 | 3,781,031 | 0 | C | . | 47.5% | 59.6 / 72.7 | 40 | intergenic (+14/‑184) | lldD/trmL | L‑lactate dehydrogenase/tRNA (cytidine/uridine‑2'‑O)‑ribose methyltransferase |
| * | NC_000913 | 3,068,171 | 0 | G | A | 47.1% | 7.1 / 66.3 | 51 | intergenic (‑91/+2) | yggE/argO | DUF541 domain‑containing protein YggE/L‑arginine exporter |
| * | NC_000913 | 1,374,084 | 0 | A | G | 41.0% | 36.5 / 67.5 | 64 | N288S (AAC→AGC) | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 99,256 | 0 | T | C | 38.6% | 29.2 / 42.5 | 44 | V285A (GTA→GCA) | ftsW | peptidoglycan glycosyltransferase FtsW |
| * | NC_000913 | 1,298,514 | 0 | A | . | 37.9% | 64.2 / 40.6 | 29 | coding (1/54 nt) | ychT | protein YchT |
| * | NC_000913 | 4,638,332 | 0 | C | T | 37.2% | 28.7 / 41.0 | 44 | P52L (CCG→CTG) | creD | putative inner membrane protein CreD |
| * | NC_000913 | 1,185,056 | 0 | T | C | 35.9% | 61.0 / 64.8 | 64 | Y180C (TAC→TGC) | potA | spermidine preferential ABC transporter ATP binding subunit |
| * | NC_000913 | 2,249,359 | 0 | T | C | 32.3% | 63.8 / 52.1 | 62 | D87G (GAC→GGC) | yeiE | DNA‑binding transcriptional regulator YeiE |
| * | NC_000913 | 1,906,776 | 0 | A | C | 29.6% | 104.1 / 12.3 | 71 | G95G (GGT→GGG) | rlmA | 23S rRNA m(1)G745 methyltransferase |
| * | NC_000913 | 3,492,843 | 0 | C | T | 28.9% | 60.2 / 10.6 | 45 | F92F (TTC→TTT) | tsgA | putative transporter TsgA |
| * | NC_000913 | 4,379,638 | 0 | G | A | 28.6% | 76.2 / 10.2 | 43 | F45F (TTC→TTT) | frdC | fumarate reductase membrane protein FrdC |
| * | NC_000913 | 4,381,720 | 0 | T | A | 26.6% | 133.0 / 17.7 | 64 | Y200F (TAT→TTT) | frdA | fumarate reductase flavoprotein subunit |
| * | NC_000913 | 343,444 | 0 | A | G | 25.5% | 99.1 / 10.7 | 47 | G187G (GGA→GGG) | yahK | aldehyde reductase, NADPH‑dependent |
| * | NC_000913 | 3,135,781 | 0 | G | T | 25.0% | 79.3 / 21.5 | 60 | R197R (CGC→CGA) | pitB | metal phosphate:H(+) symporter PitB |
| 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 | 1136588 = | 81 (1.440) | 4 (0.070) | 4/484 | 3.5 | 5.6% | coding (315/1098 nt) | flgI | flagellar P‑ring protein |
| ? | NC_000913 | = 3515037 | 55 (0.990) | coding (23/678 nt) | rpe | ribulose‑phosphate 3‑epimerase | |||||
| * | ? | NC_000913 | 4084182 = | 77 (1.370) | 3 (0.050) | 3/486 | 3.9 | 4.0% | coding (1641/3051 nt) | fdoG | formate dehydrogenase O subunit alpha |
| ? | NC_000913 | = 4627030 | 68 (1.210) | coding (1119/1383 nt) | radA | DNA recombination protein | |||||
| * | ? | NC_000913 | = 3495085 | 109 (1.940) | 3 (0.050) | 3/488 | 3.9 | 4.3% | coding (1075/2544 nt) | nirB | nitrite reductase (NADH) large subunit |
| ? | NC_000913 | = 3803485 | 26 (0.460) | coding (653/1080 nt) | waaB | UDP‑D‑galactose:(glucosyl)lipopolysaccharide‑1, 6‑D‑galactosyltransferase | |||||
| * | ? | NC_000913 | 3173439 = | 48 (0.850) | 3 (0.050) +G |
3/486 | 3.9 | 4.7% | coding (298/315 nt) | ygiN | putative quinol monooxygenase YgiN |
| ? | NC_000913 | = 3829517 | 73 (1.300) | coding (573/1392 nt) | xanP | xanthine:H(+) symporter XanP | |||||
| * | ? | NC_000913 | 917372 = | 46 (0.820) | 3 (0.050) | 3/488 | 3.9 | 7.1% | coding (900/1659 nt) | ybjD | DUF2813 domain‑containing protein YbjD |
| ? | NC_000913 | 2052198 = | 32 (0.570) | intergenic (+184/‑1445) | yeeJ/shiA | inverse autotransporter adhesin/shikimate:H(+) symporter | |||||
| * | ? | NC_000913 | 53297 = | 61 (1.080) | 3 (0.050) | 3/486 | 3.9 | 4.0% | coding (120/990 nt) | pdxA | 4‑hydroxythreonine‑4‑phosphate dehydrogenase |
| ? | NC_000913 | 4273269 = | 84 (1.500) | coding (603/2823 nt) | uvrA | UvrABC excision nuclease subunit A | |||||