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 548 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,097,030 | 1 | . | G | 78.3% | 85.1 / 24.7 | 46 | intergenic (+201/+535) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| * | NC_000913 | 357,890 | 0 | C | A | 55.0% | 7.3 / 52.6 | 40 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 3,585,086 | 0 | A | C | 53.2% | 46.8 / 73.0 | 47 | Y580D (TAC→GAC) | ggt | gamma‑glutamyltranspeptidase |
| * | NC_000913 | 925,900 | 0 | A | G | 50.0% | 78.8 / 21.1 | 64 | noncoding (72/88 nt) | serW | tRNA‑Ser |
| * | NC_000913 | 3,261,055 | 0 | A | C | 46.8% | 92.5 / 13.3 | 62 | V455G (GTG→GGG) | tdcE | pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase |
| * | NC_000913 | 993,917 | 0 | A | C | 45.8% | 74.5 / 14.0 | 48 | V43G (GTG→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| * | NC_000913 | 786,855 | 0 | A | C | 45.8% | 95.1 / 11.4 | 60 | G247G (GGT→GGG) | gpmA | phosphoglyceromutase 1 |
| * | NC_000913 | 3,508,662 | 0 | T | A | 45.8% | 90.0 / 26.1 | 59 | E384D (GAA→GAT) | yhfW | phosphopentomutase‑related metalloenzyme superfamily protein |
| * | NC_000913 | 213,341 | 0 | A | G | 44.7% | 103.7 / 28.8 | 76 | G337G (GGA→GGG) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | NC_000913 | 2,678,039 | 0 | T | G | 44.7% | 62.8 / 11.4 | 47 | N108T (AAC→ACC) | yphE | putative sugar ABC transporter ATPase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 44.1% | 89.6 / 46.3 | 68 | N156K (AAC→AAA) | yiiQ | DUF1454 family putative periplasmic protein |
| * | NC_000913 | 2,984,441 | 0 | A | C | 44.1% | 86.9 / 23.6 | 59 | G384G (GGT→GGG) | yqeF | short chain acyltransferase |
| * | NC_000913 | 2,678,043 | 0 | C | T | 43.8% | 44.6 / 25.5 | 48 | E107K (GAA→AAA) | yphE | putative sugar ABC transporter ATPase |
| * | NC_000913 | 357,880 | 0 | T | C | 43.6% | 39.8 / 14.8 | 40 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 3,508,657 | 0 | A | G | 43.1% | 92.1 / 11.4 | 58 | F386S (TTC→TCC) | yhfW | phosphopentomutase‑related metalloenzyme superfamily protein |
| * | NC_000913 | 5,159 | 0 | G | A | 42.9% | 73.3 / 41.3 | 70 | intergenic (+139/‑75) | thrC/yaaX | L‑threonine synthase/DUF2502 family putative periplasmic protein |
| * | NC_000913 | 357,873 | 0 | C | T | 42.9% | 38.2 / 20.7 | 43 | S273N (AGC→AAC) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 3,206,435 | 0 | C | T | 42.9% | 65.6 / 44.2 | 63 | intergenic (‑179/‑28) | ttdR/ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| * | NC_000913 | 3,585,078 | 0 | A | C | 42.9% | 65.7 / 15.9 | 49 | intergenic (+35/+3) | yrhB/ggt | stable heat shock chaperone/gamma‑glutamyltranspeptidase |
| * | NC_000913 | 3,665,702 | 0 | C | A | 42.4% | 85.3 / 37.1 | 67 | A37S (GCG→TCG) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| 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 | 62 (0.830) | 21 (0.320) | 19/266 | 5.3 | 27.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 57 (0.860) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 2521046 = | 63 (0.840) | 4 (0.070) +38 bp |
4/222 | 10.8 | 7.1% | intergenic (+40/‑5) | valU/valX | tRNA‑Val/tRNA‑Val |
| ? | NC_000913 | = 2521251 | 78 (1.050) | intergenic (+3/‑2) | valY/lysV | tRNA‑Val/tRNA‑Lys | |||||
| * | ? | NC_000913 | 925901 = | 63 (0.840) | 10 (0.130) +C |
8/296 | 10.9 | 16.1% | noncoding (71/88 nt) | serW | tRNA‑Ser |
| ? | NC_000913 | = 1097399 | 42 (0.560) | intergenic (+570/+166) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 1207790 = | 59 (0.790) | 8 (0.120) | 6/266 | 11.1 | 12.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 59 (0.890) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 2521006 | 59 (0.790) | 4 (0.070) +41 bp |
3/216 | 11.4 | 8.3% | noncoding (76/76 nt) | valU | tRNA‑Val |
| ? | NC_000913 | 2521046 = | 63 (0.840) | intergenic (+40/‑5) | valU/valX | tRNA‑Val/tRNA‑Val | |||||
| * | ? | NC_000913 | = 781145 | 88 (1.180) | 4 (0.070) +39 bp |
3/220 | 11.5 | 6.7% | intergenic (+2/‑2) | valZ/lysY | tRNA‑Val/tRNA‑Lys |
| ? | NC_000913 | 2521046 = | 63 (0.840) | intergenic (+40/‑5) | valU/valX | tRNA‑Val/tRNA‑Val | |||||
| * | ? | NC_000913 | = 780841 | 75 (1.010) | 4 (0.070) +40 bp |
3/218 | 11.5 | 7.3% | intergenic (+1/‑2) | valT/lysW | tRNA‑Val/tRNA‑Lys |
| ? | NC_000913 | 2521046 = | 63 (0.840) | intergenic (+40/‑5) | valU/valX | tRNA‑Val/tRNA‑Val | |||||
| * | ? | NC_000913 | 925901 = | 63 (0.840) | 7 (0.090) +C |
3/296 | 14.4 | 13.3% | noncoding (71/88 nt) | serW | tRNA‑Ser |
| ? | NC_000913 | = 1097218 | 29 (0.390) | intergenic (+389/+347) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||