mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 442 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 599,576 | 0 | T | G | 52.9% | 49.8 / 75.6 | 52 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 3,177,748 | 0 | C | A | 50.0% | 47.8 / 50.5 | 72 | E55* (GAG→TAG) | nudF | ADP‑ribose pyrophosphatase |
| * | NC_000913 | 4,457,105 | 0 | A | G | 47.4% | 51.2 / 31.7 | 57 | I441V (ATC→GTC) | mpl | UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase |
| * | NC_000913 | 1,261,842 | 0 | T | G | 46.7% | 91.6 / 12.0 | 60 | T12P (ACC→CCC) | prs | phosphoribosylpyrophosphate synthase |
| * | NC_000913 | 4,512,048 | 0 | A | C | 46.6% | 79.9 / 11.4 | 58 | L123V (TTG→GTG) | fecD | ferric citrate ABC transporter permease |
| * | NC_000913 | 1,153,573 | 0 | T | G | 46.4% | 78.1 / 27.1 | 56 | Y92D (TAC→GAC) | pabC | 4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex |
| * | NC_000913 | 3,585,086 | 0 | A | C | 46.1% | 122.8 / 22.0 | 76 | Y580D (TAC→GAC) | ggt | gamma‑glutamyltranspeptidase |
| * | NC_000913 | 1,621,118 | 0 | A | C | 46.0% | 66.8 / 13.9 | 50 | V7G (GTG→GGG) | eamA | cysteine and O‑acetyl‑L‑serine efflux system |
| * | NC_000913 | 3,508,657 | 0 | A | G | 45.6% | 76.2 / 15.8 | 59 | F386S (TTC→TCC) | yhfW | phosphopentomutase‑related metalloenzyme superfamily protein |
| * | NC_000913 | 4,287,719 | 0 | T | A | 45.5% | 78.8 / 40.8 | 66 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome |
| * | NC_000913 | 1,478,324 | 0 | T | G | 43.9% | 66.7 / 10.0 | 41 | G33G (GGT→GGG) | ynbB | putative CDP‑diglyceride synthase |
| * | NC_000913 | 3,671,415 | 0 | C | T | 43.8% | 56.7 / 26.6 | 48 | K160K (AAG→AAA) | yhjB | putative DNA‑binding transcriptional response regulator |
| * | NC_000913 | 4,287,710 | 0 | G | A | 43.8% | 55.2 / 41.6 | 64 | intergenic (‑339/‑54) | acs/nrfA | acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome |
| * | NC_000913 | 1,684,749 | 0 | A | C | 43.6% | 85.9 / 14.3 | 55 | D164A (GAC→GCC) | tus | inhibitor of replication at Ter, DNA‑binding protein |
| * | NC_000913 | 354,288 | 0 | T | G | 43.1% | 91.3 / 13.6 | 51 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 1,222,233 | 0 | G | A | 42.9% | 75.9 / 21.3 | 56 | pseudogene (60/75 nt) | ycgH | pseudogene; putative ATP‑binding component of a transport system |
| * | NC_000913 | 2,903,692 | 0 | C | A | 42.9% | 101.2 / 58.4 | 70 | intergenic (+318/+1055) | ygcE/queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| * | NC_000913 | 1,079,468 | 0 | A | G | 42.6% | 78.8 / 14.0 | 55 | D55G (GAT→GGT) | putP | proline:sodium symporter |
| * | NC_000913 | 1,097,581 | 0 | A | G | 42.4% | 97.0 / 18.7 | 61 | noncoding (72/88 nt) | serX | tRNA‑Ser |
| * | NC_000913 | 2,001,911 | 0 | G | A | 42.2% | 76.9 / 35.3 | 64 | intergenic (‑122/+199) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein (flagellin) |
| 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 | 59 (0.880) | 13 (0.220) | 13/266 | 6.4 | 21.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 42 (0.700) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 57 (0.850) | 13 (0.220) | 13/266 | 6.4 | 21.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 46 (0.770) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 925901 = | 64 (0.960) | 12 (0.180) +C |
12/296 | 7.7 | 20.1% | noncoding (71/88 nt) | serW | tRNA‑Ser |
| ? | NC_000913 | = 1097399 | 32 (0.480) | intergenic (+570/+166) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 4542690 | 90 (1.340) | 4 (0.060) | 4/280 | 11.7 | 4.7% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 77 (1.220) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1209618 | 49 (0.730) | 12 (0.200) | 3/268 | 12.1 | 17.4% | pseudogene (2/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |
| ? | NC_000913 | 2471897 = | 70 (1.160) | pseudogene (226/579 nt) | yfdL | pseudogene, CPS‑53 (KpLE1) prophage;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 925901 = | 64 (0.960) | 6 (0.090) +C |
3/296 | 13.0 | 10.9% | noncoding (71/88 nt) | serW | tRNA‑Ser |
| ? | NC_000913 | = 1097218 | 35 (0.520) | intergenic (+389/+347) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||