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 28 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 | 43.3% | 418.3 / 89.4 | 283 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 40.5% | 364.7 / 74.8 | 233 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 341,377 | 0 | T | G | 38.4% | 192.8 / 37.1 | 133 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 3,938,887 | 0 | C | T | 32.4% | 422.5 / 176.6 | 244 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 1,226,557 | 0 | A | G | 30.5% | 352.8 / 101.2 | 190 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 3,527,368 | 0 | A | C | 30.3% | 613.0 / 53.4 | 261 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 800,675 | 0 | A | C | 29.7% | 576.8 / 24.1 | 259 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 1,128,412 | 0 | T | G | 28.7% | 735.6 / 62.4 | 324 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 1,181,369 | 0 | A | C | 27.6% | 278.8 / 28.3 | 116 | K103N (AAA→AAC) | ycjS | predicted oxidoreductase, NADH‑binding |
| * | AP012306 | 406,677 | 0 | A | G | 27.5% | 453.5 / 31.1 | 193 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 644,417 | 0 | G | A | 27.1% | 960.5 / inf | 527 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 2,758,909 | 0 | T | G | 26.2% | 616.0 / 15.0 | 240 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 935,054 | 0 | G | T | 24.0% | 293.6 / 39.6 | 100 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 1,854,851 | 0 | A | C | 24.0% | 743.6 / 59.1 | 297 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 2,212,753 | 0 | A | C | 23.9% | 361.5 / 38.4 | 142 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 2,714,555 | 0 | T | G | 23.2% | 680.4 / 13.1 | 268 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 2,857,911 | 0 | A | C | 22.8% | 527.9 / 11.5 | 193 | K180N (AAA→AAC) | aaeR | predicted DNA‑binding transcriptional regulator, efflux system |
| * | AP012306 | 2,558,071 | 0 | A | C | 22.8% | 592.5 / 21.8 | 233 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 3,324,433 | 0 | T | A | 22.6% | 607.4 / 86.2 | 239 | intergenic (+2/+52) | yieF/yieG | chromate reductase, Class I, flavoprotein/predicted inner membrane protein |
| * | AP012306 | 3,268,851 | 0 | G | A | 22.6% | 783.1 / 74.3 | 306 | S119F (TCC→TTC) | nlpA | cytoplasmic membrane lipoprotein‑28 |
| Marginal new junction evidence (lowest skew 10 of 151 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 1092512 | 397 (1.260) | 19 (0.070) | 14/258 | 14.2 | 5.8% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 279 (1.020) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | 1017395 = | 385 (1.220) | 10 (0.030) | 10/284 | 16.4 | 2.6% | coding (180/1227 nt) | pepT | peptidase T |
| ? | AP012306 | 1017414 = | 377 (1.250) | coding (199/1227 nt) | pepT | peptidase T | |||||
| * | ? | AP012306 | = 3306264 | 374 (1.180) | 8 (0.030) | 8/270 | 16.9 | 2.3% | intergenic (‑99/+16) | yidA/yidB | predicted hydrolase/conserved protein |
| ? | AP012306 | = 3306250 | 335 (1.170) | intergenic (‑85/+30) | yidA/yidB | predicted hydrolase/conserved protein | |||||
| * | ? | AP012306 | = 3600658 | NA (NA) | 32 (0.100) | 9/292 | 17.0 | NA | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642045 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | 3597644 = | 216 (0.680) | 7 (0.020) | 7/274 | 17.5 | 3.4% | noncoding (60/76 nt) | gltT | tRNA‑Glu |
| ? | AP012306 | 3639058 = | NA (NA) | noncoding (72/76 nt) | gltV | tRNA‑Glu | |||||
| * | ? | AP012306 | = 1325578 | 288 (0.910) | 7 (0.020) | 7/274 | 17.5 | 2.6% | coding (158/666 nt) | marC | predicted transporter |
| ? | AP012306 | = 1325566 | 262 (0.900) | coding (170/666 nt) | marC | predicted transporter | |||||
| * | ? | AP012306 | 61331 = | 288 (0.910) | 5 (0.020) +31 bp |
5/236 | 17.5 | 2.4% | coding (45/696 nt) | araD | L‑ribulose‑5‑phosphate 4‑epimerase |
| ? | AP012306 | 61559 = | 230 (0.730) | intergenic (‑184/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase | |||||
| * | ? | AP012306 | = 2152234 | 260 (0.820) | 7 (0.020) | 7/280 | 17.6 | 2.9% | coding (346/651 nt) | hyfE | hydrogenase 4, membrane subunit |
| ? | AP012306 | = 2152253 | 230 (0.780) | coding (365/651 nt) | hyfE | hydrogenase 4, membrane subunit | |||||
| * | ? | AP012306 | = 643749 | 406 (1.290) | 6 (0.020) | 6/262 | 17.7 | 2.0% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | AP012306 | 2073743 = | 225 (0.810) | intergenic (+1/+267) | lysV/xapR | tRNA‑Lys/DNA‑binding transcriptional activator | |||||
| * | ? | AP012306 | = 643749 | 406 (1.290) | 6 (0.020) | 6/262 | 17.7 | 1.6% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | AP012306 | 644386 = | 372 (1.340) | intergenic (+1/‑432) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||