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 | 37.6% | 447.2 / 62.7 | 258 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 36.5% | 372.7 / 59.2 | 211 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 800,675 | 0 | A | C | 33.0% | 529.9 / 56.7 | 274 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 3,020,670 | 0 | T | G | 32.8% | 339.9 / 18.3 | 189 | K195N (AAA→AAC) | glgC | glucose‑1‑phosphate adenylyltransferase |
| * | AP012306 | 644,417 | 0 | G | A | 32.8% | 876.2 / inf | 627 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,309,914 | 0 | A | C | 32.7% | 289.4 / 11.1 | 150 | L23F (TTA→TTC) | lsrC | AI2 transporter |
| * | AP012306 | 341,377 | 0 | T | G | 31.2% | 218.9 / 27.0 | 125 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 257,137 | 0 | T | G | 28.8% | 406.0 / 13.4 | 206 | L496V (TTG→GTG) | betT | choline transporter of high affinity |
| * | AP012306 | 2,714,555 | 0 | T | G | 27.0% | 624.5 / 21.5 | 273 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 3,527,368 | 0 | A | C | 26.4% | 736.3 / 55.5 | 308 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 2,758,909 | 0 | T | G | 26.2% | 565.6 / 23.0 | 233 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 1,066,323 | 0 | A | C | 25.8% | 623.2 / 25.9 | 245 | intergenic (‑92/+33) | ychM/prsA | predicted transporter/phosphoribosylpyrophosphate synthase |
| * | AP012306 | 202,417 | 0 | T | G | 24.6% | 676.7 / 37.5 | 302 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 935,054 | 0 | G | T | 24.5% | 264.4 / 49.6 | 98 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 3,938,887 | 0 | C | T | 24.4% | 674.4 / 148.6 | 295 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 3,282,076 | 0 | T | G | 24.2% | 637.5 / 25.1 | 286 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| * | AP012306 | 3,903,791 | 0 | A | G | 23.0% | 661.1 / 78.6 | 278 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 2,558,071 | 0 | A | C | 22.8% | 645.9 / 38.9 | 265 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 1,226,557 | 0 | A | G | 22.8% | 503.9 / 79.6 | 215 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 2,560,243 | 0 | T | G | 22.3% | 525.4 / 18.0 | 212 | N419T (AAC→ACC) | pepP | proline aminopeptidase P II |
| Marginal new junction evidence (lowest skew 10 of 342 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 1092512 | 398 (1.150) | 17 (0.060) | 13/258 | 9.9 | 4.9% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 316 (1.050) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 997497 | 321 (0.920) | 12 (0.040) | 12/268 | 10.3 | 4.0% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 283 (0.910) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | 3923390 = | 454 (1.310) | 10 (0.030) | 10/288 | 11.2 | 2.2% | coding (119/1032 nt) | idnD | L‑idonate 5‑dehydrogenase, NAD‑binding |
| ? | AP012306 | 3923413 = | 447 (1.330) | coding (96/1032 nt) | idnD | L‑idonate 5‑dehydrogenase, NAD‑binding | |||||
| * | ? | AP012306 | = 3600658 | NA (NA) | 33 (0.100) | 10/292 | 11.2 | NA | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642045 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | = 3600650 | NA (NA) | 57 (0.170) +AAAGG |
10/288 | 11.2 | 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) | 10 (0.030) | 10/288 | 11.2 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | 3021636 = | 317 (0.910) | 9 (0.030) | 9/290 | 11.5 | 2.8% | coding (1610/1974 nt) | glgX | glycogen debranching enzyme |
| ? | AP012306 | 3021656 = | 313 (0.930) | coding (1590/1974 nt) | glgX | glycogen debranching enzyme | |||||
| * | ? | AP012306 | = 2094536 | 262 (0.750) | 8 (0.030) | 8/274 | 11.6 | 3.2% | coding (394/834 nt) | cysU | sulfate/thiosulfate transporter subunit |
| ? | AP012306 | = 2094524 | 241 (0.750) | coding (406/834 nt) | cysU | sulfate/thiosulfate transporter subunit | |||||
| * | ? | AP012306 | = 96920 | 334 (0.960) | 8 (0.030) | 8/274 | 11.6 | 2.5% | coding (1331/1476 nt) | murC | UDP‑N‑acetylmuramate:L‑alanine ligase |
| ? | AP012306 | = 96908 | 305 (0.960) | coding (1319/1476 nt) | murC | UDP‑N‑acetylmuramate:L‑alanine ligase | |||||
| * | ? | AP012306 | = 1092334 | 304 (0.870) | 7 (0.020) | 7/258 | 11.7 | 2.4% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 316 (1.050) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||