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 34 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 | 38.6% | 476.9 / 75.5 | 267 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 36.8% | 387.9 / 45.7 | 212 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 341,377 | 0 | T | G | 35.1% | 196.6 / 29.9 | 131 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 644,417 | 0 | G | A | 33.9% | 592.1 / inf | 458 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 3,182,861 | 0 | A | C | 32.2% | 245.6 / 32.8 | 121 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 3,527,368 | 0 | A | C | 30.7% | 599.4 / 54.5 | 264 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 800,675 | 0 | A | C | 29.5% | 577.2 / 40.4 | 268 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 2,714,555 | 0 | T | G | 28.4% | 614.8 / 29.7 | 279 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 3,938,887 | 0 | C | T | 27.9% | 425.4 / 121.8 | 208 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 1,226,557 | 0 | A | G | 27.8% | 417.8 / 68.8 | 191 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 1,854,851 | 0 | A | C | 27.0% | 644.1 / 82.5 | 285 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 202,417 | 0 | T | G | 25.8% | 586.9 / 29.9 | 256 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 2,758,909 | 0 | T | G | 25.8% | 483.7 / 11.2 | 194 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 1,066,323 | 0 | A | C | 25.6% | 610.1 / 14.8 | 234 | intergenic (‑92/+33) | ychM/prsA | predicted transporter/phosphoribosylpyrophosphate synthase |
| * | AP012306 | 1,128,412 | 0 | T | G | 25.4% | 555.1 / 43.9 | 232 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 935,054 | 0 | G | T | 25.0% | 273.3 / 42.9 | 96 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 3,903,791 | 0 | A | G | 24.2% | 631.3 / 59.0 | 260 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 406,677 | 0 | A | G | 24.1% | 512.7 / 21.8 | 208 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 1,393,379 | 0 | A | C | 24.0% | 644.4 / 30.3 | 246 | T92P (ACC→CCC) | nth | DNA glycosylase and apyrimidinic (AP) lyase |
| * | AP012306 | 3,590,367 | 0 | A | C | 23.6% | 659.5 / 19.3 | 246 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 204 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | 644102 = | 389 (1.290) | 25 (0.080) +G |
13/296 | 19.5 | 6.7% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | AP012306 | = 2073541 | 309 (1.030) | intergenic (+1/‑46) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | AP012306 | 644102 = | 389 (1.290) | 24 (0.080) +GG |
12/294 | 19.8 | 6.5% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 310 (1.030) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 10 (0.030) | 10/288 | 20.6 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 2659620 | 297 (0.990) | 8 (0.030) | 8/274 | 21.2 | 2.9% | coding (1257/1482 nt) | tolC | transport channel |
| ? | AP012306 | = 2659608 | 271 (0.980) | coding (1245/1482 nt) | tolC | transport channel | |||||
| * | ? | AP012306 | 2982024 = | 306 (1.020) | 11 (0.040) | 9/294 | 21.3 | 3.5% | coding (325/879 nt) | hslO | heat shock protein Hsp33 |
| ? | AP012306 | 2982054 = | 303 (1.020) | coding (355/879 nt) | hslO | heat shock protein Hsp33 | |||||
| * | ? | AP012306 | = 995974 | 295 (0.980) | 8 (0.030) | 8/284 | 21.5 | 2.8% | coding (508/1026 nt) | nagZ | beta N‑acetyl‑glucosaminidase |
| ? | AP012306 | = 996001 | 284 (0.990) | coding (535/1026 nt) | nagZ | beta N‑acetyl‑glucosaminidase | |||||
| * | ? | AP012306 | 3889988 = | 195 (0.650) | 8 (0.030) | 8/288 | 21.7 | 3.9% | coding (1775/2139 nt) | nrdD | anaerobic ribonucleoside‑triphosphate reductase |
| ? | AP012306 | 3890028 = | 204 (0.700) | coding (1735/2139 nt) | nrdD | anaerobic ribonucleoside‑triphosphate reductase | |||||
| * | ? | AP012306 | 72198 = | 368 (1.220) | 8 (0.030) | 8/292 | 21.8 | 2.2% | intergenic (‑74/‑248) | sgrR/setA | DNA‑binding transcriptional regulator/broad specificity sugar efflux system |
| ? | AP012306 | 72217 = | 366 (1.240) | intergenic (‑93/‑229) | sgrR/setA | DNA‑binding transcriptional regulator/broad specificity sugar efflux system | |||||
| * | ? | AP012306 | 447616 = | 330 (1.100) | 6 (0.020) | 6/274 | 22.4 | 1.9% | coding (482/1668 nt) | fdrA | predicted acyl‑CoA synthetase with NAD(P)‑binding Rossmann‑fold domain |
| ? | AP012306 | 447628 = | 310 (1.120) | coding (494/1668 nt) | fdrA | predicted acyl‑CoA synthetase with NAD(P)‑binding Rossmann‑fold domain | |||||
| * | ? | AP012306 | = 1244760 | 220 (0.730) | 6 (0.020) | 6/278 | 22.5 | 2.9% | coding (921/1545 nt) | narY | nitrate reductase 2 (NRZ), beta subunit |
| ? | AP012306 | = 1244776 | 202 (0.720) | coding (905/1545 nt) | narY | nitrate reductase 2 (NRZ), beta subunit | |||||