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 29 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 | 37.5% | 524.5 / 69.2 | 292 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 3,938,887 | 0 | C | T | 34.4% | 335.2 / 184.1 | 224 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 341,377 | 0 | T | G | 32.8% | 211.7 / 18.3 | 129 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 644,417 | 0 | G | A | 31.1% | 828.5 / inf | 557 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,944,288 | 0 | A | C | 30.4% | 472.5 / 51.7 | 224 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 935,054 | 0 | G | T | 29.3% | 202.7 / 41.7 | 82 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 3,182,861 | 0 | A | C | 29.0% | 285.1 / 31.2 | 131 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 3,020,670 | 0 | T | G | 28.7% | 343.9 / 12.2 | 181 | K195N (AAA→AAC) | glgC | glucose‑1‑phosphate adenylyltransferase |
| * | AP012306 | 3,527,368 | 0 | A | C | 27.4% | 613.6 / 58.0 | 253 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 800,675 | 0 | A | C | 26.9% | 541.5 / 39.8 | 245 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 1,181,369 | 0 | A | C | 26.6% | 351.4 / 27.2 | 143 | K103N (AAA→AAC) | ycjS | predicted oxidoreductase, NADH‑binding |
| * | AP012306 | 1,226,557 | 0 | A | G | 26.1% | 392.8 / 74.5 | 180 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 3,903,791 | 0 | A | G | 25.8% | 523.1 / 68.4 | 233 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 1,854,851 | 0 | A | C | 25.7% | 733.7 / 87.3 | 319 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 2,558,071 | 0 | A | C | 25.7% | 593.9 / 34.2 | 249 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 2,680,345 | 0 | A | C | 24.4% | 445.2 / 44.7 | 214 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| * | AP012306 | 3,012,885 | 0 | A | C | 23.2% | 545.6 / 17.3 | 224 | V165G (GTG→GGG) | glpG | predicted intramembrane serine protease |
| * | AP012306 | 2,212,753 | 0 | A | C | 22.8% | 389.2 / 25.7 | 149 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 3,590,367 | 0 | A | C | 22.4% | 657.7 / 22.1 | 246 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| * | AP012306 | 1,393,379 | 0 | A | C | 21.8% | 749.2 / 40.6 | 284 | T92P (ACC→CCC) | nth | DNA glycosylase and apyrimidinic (AP) lyase |
| Marginal new junction evidence (lowest skew 10 of 222 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 215364 | NA (NA) | 18 (0.060) | 17/288 | 14.6 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 3600650 | NA (NA) | 60 (0.200) +AAAGG |
13/288 | 16.0 | NA | noncoding (2797/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642048 | NA (NA) | noncoding (2793/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | = 3600658 | NA (NA) | 34 (0.110) | 13/292 | 16.1 | NA | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA (rrlB) |
| ? | AP012306 | = 3642045 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA (rrlE) | |||||
| * | ? | AP012306 | = 997500 | 316 (1.000) | 12 (0.040) | 12/294 | 16.5 | 3.8% | coding (44/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997996 = | 289 (0.920) | coding (540/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 1092512 | 401 (1.260) | 13 (0.050) | 8/258 | 17.3 | 4.0% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 283 (1.030) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 1092334 | 366 (1.150) | 9 (0.030) | 8/258 | 17.3 | 2.9% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 283 (1.030) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | 213952 = | NA (NA) | 10 (0.030) | 10/298 | 17.4 | NA | noncoding (1321/1542 nt) | rrsH | 16S ribosomal RNA (rrsH) |
| ? | AP012306 | 213970 = | NA (NA) | noncoding (1339/1542 nt) | rrsH | 16S ribosomal RNA (rrsH) | |||||
| * | ? | AP012306 | 3372707 = | NA (NA) | 9 (0.030) | 8/274 | 17.7 | NA | noncoding (60/76 nt) | gltU | tRNA‑Glu |
| ? | AP012306 | 3372719 = | NA (NA) | noncoding (72/76 nt) | gltU | tRNA‑Glu | |||||
| * | ? | AP012306 | = 152555 | 316 (1.000) | 11 (0.040) | 9/292 | 17.7 | 3.5% | coding (3/480 nt) coding (1397/1398 nt) |
folK pcnB |
2‑amino‑4‑hydroxy‑6‑hydroxymethyldihyropteridine pyrophosphokinase poly(A) polymerase I |
| ? | AP012306 | = 152570 | 305 (0.980) | coding (1382/1398 nt) | pcnB | poly(A) polymerase I | |||||
| * | ? | AP012306 | 3597694 = | 343 (1.080) | 8 (0.030) | 8/276 | 17.8 | 2.4% | intergenic (+34/‑160) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA (rrlB) |
| ? | AP012306 | 3597734 = | 327 (1.110) | intergenic (+74/‑120) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA (rrlB) | |||||