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 (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 | ||
| * | AP012306 | 1,091,992 | 0 | T | G | 38.2% | 497.4 / 82.1 | 284 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 3,938,887 | 0 | C | T | 37.5% | 361.1 / 220.3 | 264 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 1,944,288 | 0 | A | C | 33.5% | 407.2 / 41.7 | 206 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,020,670 | 0 | T | G | 31.7% | 281.7 / 11.5 | 163 | K195N (AAA→AAC) | glgC | glucose‑1‑phosphate adenylyltransferase |
| * | AP012306 | 3,527,368 | 0 | A | C | 31.7% | 495.1 / 72.0 | 240 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 644,417 | 0 | G | A | 31.5% | 781.6 / inf | 537 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 800,675 | 0 | A | C | 28.8% | 536.3 / 62.8 | 264 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 341,377 | 0 | T | G | 28.3% | 235.4 / 18.4 | 127 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 1,226,557 | 0 | A | G | 27.8% | 386.7 / 97.1 | 192 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 1,854,851 | 0 | A | C | 26.2% | 679.7 / 75.1 | 282 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 935,054 | 0 | G | T | 26.0% | 276.0 / 42.5 | 96 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 3,182,861 | 0 | A | C | 25.4% | 278.3 / 15.0 | 114 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 3,590,367 | 0 | A | C | 24.6% | 639.0 / 33.3 | 253 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| * | AP012306 | 1,309,914 | 0 | A | C | 24.1% | 302.9 / 12.9 | 143 | L23F (TTA→TTC) | lsrC | AI2 transporter |
| * | AP012306 | 202,417 | 0 | T | G | 23.7% | 710.6 / 29.3 | 278 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 2,758,909 | 0 | T | G | 23.6% | 614.6 / 13.4 | 233 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 1,128,412 | 0 | T | G | 22.8% | 766.9 / 44.2 | 298 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 3,903,791 | 0 | A | G | 22.3% | 653.0 / 57.5 | 256 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 2,680,345 | 0 | A | C | 21.9% | 489.4 / 32.4 | 202 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| * | AP012306 | 3,590,361 | 0 | G | A | 21.6% | 679.5 / 99.4 | 269 | E28K (GAA→AAA) | fabR | DNA‑binding transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 144 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 1092512 | 416 (1.340) | 17 (0.060) | 14/258 | 14.6 | 5.0% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 289 (1.080) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 1092334 | 347 (1.120) | 11 (0.040) | 11/258 | 15.7 | 3.6% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 289 (1.080) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 2743199 | 377 (1.220) | 6 (0.030) +58 bp |
4/182 | 16.8 | 2.3% | intergenic (+264/+350) | yhaC/rnpB | predicted protein/RNase P, RNA component precursor RnpB |
| ? | AP012306 | 3838241 = | 455 (1.470) | intergenic (+44/‑136) | rnr/rlmB | exoribonuclease R, RNase R/23S rRNA (Gm2251)‑methyltransferase | |||||
| * | ? | AP012306 | = 2743199 | 377 (1.220) | 6 (0.030) +56 bp |
4/186 | 17.0 | 2.7% | intergenic (+264/+350) | yhaC/rnpB | predicted protein/RNase P, RNA component precursor RnpB |
| ? | AP012306 | 3080522 = | 315 (1.020) | intergenic (+52/+192) | pitA/yhiO | phosphate transporter, low‑affinity/predicted universal stress (ethanol tolerance) protein B | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 10 (0.030) | 10/288 | 17.0 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 3600658 | NA (NA) | 28 (0.090) | 9/292 | 17.5 | NA | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642045 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | 1097204 = | 329 (1.060) | 8 (0.030) | 8/290 | 18.0 | 2.5% | coding (320/909 nt) | galU | glucose‑1‑phosphate uridylyltransferase |
| ? | AP012306 | 1097223 = | 310 (1.030) | coding (339/909 nt) | galU | glucose‑1‑phosphate uridylyltransferase | |||||
| * | ? | AP012306 | = 2275835 | NA (NA) | 7 (0.020) | 7/290 | 18.5 | NA | noncoding (950/1542 nt) | rrsG | 16S ribosomal RNA (rrnG) |
| ? | AP012306 | = 2275847 | NA (NA) | noncoding (938/1542 nt) | rrsG | 16S ribosomal RNA (rrnG) | |||||
| * | ? | AP012306 | 3375391 = | 203 (0.660) | 8 (0.030) | 7/296 | 18.6 | 3.8% | noncoding (2475/2904 nt) | rrlC | 23S ribosomal RNA (rrlC) |
| ? | AP012306 | 3469170 = | NA (NA) | noncoding (2439/2905 nt) | rrlA | 23S ribosomal RNA (rrlA) | |||||
| * | ? | AP012306 | 217057 = | NA (NA) | 8 (0.030) | 7/296 | 18.6 | NA | noncoding (2438/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | 217096 = | NA (NA) | noncoding (2477/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||