mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 37.7% | 580.2 / 66.6 | 301 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 341,377 | 0 | T | G | 35.8% | 215.0 / 32.3 | 134 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 3,938,887 | 0 | C | T | 31.2% | 361.2 / 131.2 | 199 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 644,417 | 0 | G | A | 30.0% | 845.3 / inf | 524 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,944,288 | 0 | A | C | 29.8% | 509.0 / 49.3 | 218 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,182,861 | 0 | A | C | 29.8% | 309.2 / 24.9 | 131 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 1,854,851 | 0 | A | C | 29.6% | 766.6 / 89.8 | 325 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 935,054 | 0 | G | T | 27.9% | 208.3 / 50.0 | 79 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 2,758,909 | 0 | T | G | 27.4% | 591.7 / 29.2 | 237 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 3,412,049 | 0 | T | G | 26.5% | 842.4 / 36.8 | 352 | intergenic (+25/‑122) | proM/aslB | tRNA‑Pro/predicted regulator of arylsulfatase activity |
| * | AP012306 | 3,527,368 | 0 | A | C | 26.2% | 1205.0 / 97.9 | 469 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 1,421,147 | 0 | T | G | 25.1% | 507.5 / 11.2 | 231 | T79P (ACC→CCC) | ydhB | predicted DNA‑binding transcriptional regulator |
| * | AP012306 | 2,212,753 | 0 | A | C | 24.7% | 413.7 / 34.7 | 154 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 1,128,412 | 0 | T | G | 24.5% | 755.7 / 64.7 | 299 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 2,714,555 | 0 | T | G | 24.1% | 686.2 / 28.1 | 291 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 202,417 | 0 | T | G | 23.8% | 839.3 / 37.8 | 328 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 800,675 | 0 | A | C | 23.4% | 752.3 / 19.8 | 278 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 1,226,557 | 0 | A | G | 23.3% | 450.6 / 66.6 | 193 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 1,074,619 | 0 | T | C | 23.2% | 351.1 / 88.3 | 185 | S29G (AGC→GGC) | ldrA | toxic polypeptide, small |
| * | AP012306 | 472,868 | 0 | T | G | 22.5% | 547.6 / 11.1 | 200 | D435A (GAC→GCC) | cusS | sensory histidine kinase in two‑component regulatory system with CusR, senses copper ions |
| Marginal new junction evidence (lowest skew 10 of 174 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 1092512 | 374 (1.190) | 17 (0.060) | 11/258 | 19.0 | 5.3% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 278 (1.020) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 997497 | 271 (0.860) | 11 (0.040) | 10/268 | 19.8 | 4.2% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 259 (0.920) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 1092334 | 324 (1.030) | 10 (0.040) | 9/258 | 20.0 | 3.5% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 278 (1.020) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 643749 | 440 (1.400) | 74 (0.350) +48 bp |
3/202 | 21.7 | 22.8% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | AP012306 | 2073667 = | 301 (0.960) | noncoding (1/76 nt) | lysV | tRNA‑Lys | |||||
| * | ? | AP012306 | = 643749 | 440 (1.400) | 74 (0.350) +48 bp |
3/202 | 21.7 | 21.1% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | AP012306 | 644310 = | 379 (1.200) | noncoding (1/76 nt) | lysQ | tRNA‑Lys | |||||
| * | ? | AP012306 | = 643749 | 440 (1.400) | 67 (0.310) +48 bp |
3/202 | 21.7 | 22.8% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | AP012306 | 643880 = | 231 (0.730) | noncoding (1/76 nt) | lysY | tRNA‑Lys | |||||
| * | ? | AP012306 | 643576 = | 302 (0.960) | 64 (0.300) +48 bp |
3/202 | 21.7 | 20.3% | noncoding (1/76 nt) | lysW | tRNA‑Lys |
| ? | AP012306 | = 643749 | 440 (1.400) | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | AP012306 | 643286 = | 379 (1.200) | 71 (0.330) +47 bp |
3/204 | 21.8 | 20.3% | intergenic (+164/‑1) | ybgF/lysT | predicted protein/tRNA‑Lys |
| ? | AP012306 | = 643749 | 440 (1.400) | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | AP012306 | = 2524628 | 318 (1.010) | 6 (0.020) | 6/290 | 22.8 | 1.9% | coding (1911/3099 nt) | ygfK | predicted oxidoreductase, Fe‑S subunit |
| ? | AP012306 | = 2524656 | 305 (1.000) | coding (1939/3099 nt) | ygfK | predicted oxidoreductase, Fe‑S subunit | |||||
| * | ? | AP012306 | 2517709 = | 292 (0.930) | 6 (0.020) | 6/292 | 22.8 | 2.0% | coding (1024/1386 nt) | hyuA | D‑stereospecific phenylhydantoinase |
| ? | AP012306 | 2517723 = | 290 (0.940) | coding (1038/1386 nt) | hyuA | D‑stereospecific phenylhydantoinase | |||||