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 | 757,280 | 0 | G | T | 27.3% | 31.2 / 12.2 | 22 | A458A (GCG→GCT) | sdhA | succinate dehydrogenase, flavoprotein subunit |
| * | NC_000913 | 4,283,231 | 0 | G | T | 25.0% | 55.8 / 14.0 | 28 | intergenic (‑156/+22) | yjcF/actP | pentapeptide repeats protein/acetate transporter |
| * | NC_000913 | 4,283,232 | 0 | A | C | 25.0% | 36.3 / 15.4 | 28 | intergenic (‑157/+21) | yjcF/actP | pentapeptide repeats protein/acetate transporter |
| * | NC_000913 | 4,283,233 | 0 | C | T | 25.0% | 44.3 / 14.2 | 28 | intergenic (‑158/+20) | yjcF/actP | pentapeptide repeats protein/acetate transporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 23.5% | 61.8 / 15.6 | 34 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,283,230 | 0 | A | G | 23.3% | 51.3 / 13.6 | 30 | intergenic (‑155/+23) | yjcF/actP | pentapeptide repeats protein/acetate transporter |
| * | NC_000913 | 1,799,370 | 0 | A | . | 23.1% | 99.2 / 28.0 | 40 | intergenic (‑100/+23) | pheM/rplT | phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20 |
| * | NC_000913 | 1,799,374 | 1 | . | T | 22.5% | 87.4 / 38.2 | 40 | intergenic (‑104/+19) | pheM/rplT | phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20 |
| * | NC_000913 | 2,960,926 | 0 | G | C | 21.4% | 64.3 / 12.1 | 28 | G501G (GGC→GGG) ‡ | recC | exonuclease V (RecBCD complex), gamma chain |
| * | NC_000913 | 2,960,928 | 0 | C | G | 21.4% | 63.2 / 12.4 | 28 | G501R (GGC→CGC) ‡ | recC | exonuclease V (RecBCD complex), gamma chain |
| * | NC_000913 | 2,960,930 | 0 | G | C | 20.7% | 67.0 / 13.5 | 29 | S500C (TCC→TGC) | recC | exonuclease V (RecBCD complex), gamma chain |
| * | NC_000913 | 2,497,024 | 0 | T | G | 20.6% | 60.8 / 16.4 | 34 | intergenic (+32/+33) | ypdK/alaC | inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase |
| * | NC_000913 | 2,497,025 | 0 | C | A | 20.6% | 77.8 / 12.5 | 34 | intergenic (+33/+32) | ypdK/alaC | inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase |
| * | NC_000913 | 508,745 | 0 | T | G | 20.0% | 61.7 / 10.7 | 30 | intergenic (+186/+130) | ybaQ/copA | putative DNA‑binding transcriptional regulator/copper transporter |
| Marginal new junction evidence (lowest skew 10 of 45 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4542682 = | 49 (1.340) | 10 (0.290) | 10/244 | 2.1 | 14.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 75 (2.200) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 4542690 | 49 (1.340) | 8 (0.230) | 8/244 | 2.6 | 11.7% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 75 (2.200) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 2171428 | NA (NA) | 6 (0.160) | 6/262 | 3.3 | 13.3% | noncoding (1258/1258 nt) | IS3 | repeat region |
| ? | NC_000913 | = 3771711 | 39 (1.060) | coding (34/363 nt) | yibI | DUF3302 family inner membrane protein | |||||
| * | ? | NC_000913 | 4555361 = | 72 (1.960) | 6 (0.180) | 5/242 | 3.4 | 8.0% | intergenic (+12/+129) | uxuR/yjiC | fructuronate‑inducible hexuronate regulon transcriptional repressor; autorepressor/uncharacterized protein |
| ? | NC_000913 | 4555390 = | 71 (2.100) | intergenic (+41/+100) | uxuR/yjiC | fructuronate‑inducible hexuronate regulon transcriptional repressor; autorepressor/uncharacterized protein | |||||
| * | ? | NC_000913 | 292971 = | 70 (1.910) | 5 (0.150) | 5/246 | 3.4 | 7.1% | intergenic (‑23/+249) | yagK/yagL | CP4‑6 prophage; conserved protein/CP4‑6 prophage; DNA‑binding protein |
| ? | NC_000913 | 292992 = | 66 (1.920) | intergenic (‑44/+228) | yagK/yagL | CP4‑6 prophage; conserved protein/CP4‑6 prophage; DNA‑binding protein | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 8 (0.230) | 5/244 | 3.4 | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 4551591 | 68 (1.850) | 5 (0.140) | 5/248 | 3.5 | 6.9% | intergenic (‑295/‑45) | gntP/uxuA | fructuronate transporter/mannonate hydrolase |
| ? | NC_000913 | = 4551606 | 71 (2.050) | intergenic (‑310/‑30) | gntP/uxuA | fructuronate transporter/mannonate hydrolase | |||||
| * | ? | NC_000913 | = 4524333 | 62 (1.690) | 5 (0.140) | 5/250 | 3.5 | 8.3% | coding (678/906 nt) | yjhH | putative lyase/synthase |
| ? | NC_000913 | = 4524375 | 51 (1.460) | coding (636/906 nt) | yjhH | putative lyase/synthase | |||||
| * | ? | NC_000913 | = 379963 | 36 (0.980) | 5 (0.140) | 5/256 | 3.6 | 14.2% | intergenic (‑82/+106) | frmR/yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| ? | NC_000913 | = 379983 | 25 (0.700) | intergenic (‑102/+86) | frmR/yaiO | regulator protein that represses frmRAB operon/outer membrane protein | |||||
| * | ? | NC_000913 | = 4198886 | 38 (1.040) | 4 (0.120) | 4/248 | 3.8 | 11.3% | coding (97/672 nt) | nfi | endonuclease V; deoxyinosine 3' endonuclease |
| ? | NC_000913 | = 4198928 | 27 (0.780) | coding (139/672 nt) | nfi | endonuclease V; deoxyinosine 3' endonuclease | |||||