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 31 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 | 48.2% | 305.2 / 110.5 | 255 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 38.8% | 348.7 / 79.1 | 227 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,527,368 | 0 | A | C | 31.5% | 635.8 / 105.9 | 308 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 3,020,670 | 0 | T | G | 31.3% | 334.5 / 21.8 | 198 | K195N (AAA→AAC) | glgC | glucose‑1‑phosphate adenylyltransferase |
| * | AP012306 | 800,675 | 0 | A | C | 30.7% | 595.7 / 55.2 | 287 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 644,417 | 0 | G | A | 29.2% | 1006.9 / inf | 606 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 3,938,887 | 0 | C | T | 28.1% | 612.6 / 184.8 | 302 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 202,417 | 0 | T | G | 27.9% | 603.4 / 55.5 | 290 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 1,309,914 | 0 | A | C | 27.9% | 267.0 / 14.9 | 140 | L23F (TTA→TTC) | lsrC | AI2 transporter |
| * | AP012306 | 2,714,555 | 0 | T | G | 26.3% | 713.4 / 33.8 | 328 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 935,054 | 0 | G | T | 26.0% | 211.4 / 28.3 | 77 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 1,226,557 | 0 | A | G | 25.9% | 440.8 / 107.9 | 212 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 2,558,071 | 0 | A | C | 25.8% | 727.1 / 44.4 | 306 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 3,188,080 | 0 | T | G | 25.8% | 426.0 / 20.5 | 183 | G177G (GGT→GGG) | sgbE | L‑ribulose‑5‑phosphate 4‑epimerase |
| * | AP012306 | 2,680,345 | 0 | A | C | 25.7% | 416.0 / 40.1 | 202 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| * | AP012306 | 2,758,909 | 0 | T | G | 25.6% | 671.4 / 21.3 | 274 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 3,282,076 | 0 | T | G | 25.4% | 605.9 / 18.2 | 272 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| * | AP012306 | 341,377 | 0 | T | G | 25.2% | 248.7 / 11.9 | 119 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 3,639,040 | 0 | T | G | 24.4% | 165.0 / 15.3 | 78 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | AP012306 | 1,854,851 | 0 | A | C | 23.8% | 750.5 / 60.4 | 298 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| Marginal new junction evidence (lowest skew 10 of 624 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 3600650 | NA (NA) | 58 (0.170) +AAAGG |
17/288 | 6.6 | NA | noncoding (2797/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642048 | NA (NA) | noncoding (2793/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 20 (0.060) | 17/288 | 6.6 | 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) | 40 (0.110) | 17/292 | 6.7 | NA | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642045 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | = 1092512 | 385 (1.070) | 17 (0.050) | 12/258 | 7.1 | 5.0% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 314 (1.010) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 1092334 | 280 (0.780) | 12 (0.040) | 10/258 | 7.5 | 4.1% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 314 (1.010) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 913279 | 341 (0.950) | 11 (0.030) | 11/274 | 7.5 | 3.4% | coding (979/1173 nt) | torC | trimethylamine N‑oxide (TMAO) reductase I, cytochrome c‑type subunit |
| ? | AP012306 | = 913267 | 308 (0.930) | coding (967/1173 nt) | torC | trimethylamine N‑oxide (TMAO) reductase I, cytochrome c‑type subunit | |||||
| * | ? | AP012306 | 3561599 = | 382 (1.060) | 11 (0.030) | 11/290 | 7.7 | 2.8% | intergenic (+119/‑230) | metL/metF | fused aspartokinase II/homoserine dehydrogenase II/5,10‑methylenetetrahydrofolate reductase |
| ? | AP012306 | 3561629 = | 391 (1.120) | intergenic (+149/‑200) | metL/metF | fused aspartokinase II/homoserine dehydrogenase II/5,10‑methylenetetrahydrofolate reductase | |||||
| * | ? | AP012306 | = 2659620 | 317 (0.880) | 10 (0.030) | 10/274 | 7.7 | 3.3% | coding (1257/1482 nt) | tolC | transport channel |
| ? | AP012306 | = 2659608 | 290 (0.880) | coding (1245/1482 nt) | tolC | transport channel | |||||
| * | ? | AP012306 | = 2049432 | 502 (1.400) | 10 (0.030) | 10/274 | 7.7 | 2.1% | coding (470/1146 nt) | yfdE | predicted CoA‑transferase, NAD(P)‑binding |
| ? | AP012306 | = 2049420 | 464 (1.410) | coding (482/1146 nt) | yfdE | predicted CoA‑transferase, NAD(P)‑binding | |||||
| * | ? | AP012306 | = 1883833 | 518 (1.440) | 10 (0.030) | 10/274 | 7.7 | 2.0% | intergenic (‑717/‑22) | ompC/rcsD | outer membrane porin protein C/phosphotransfer intermediate protein in two‑component regulatory system with RcsBC |
| ? | AP012306 | = 1883821 | 488 (1.480) | intergenic (‑705/‑34) | ompC/rcsD | outer membrane porin protein C/phosphotransfer intermediate protein in two‑component regulatory system with RcsBC | |||||