mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 156 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 580,115 | 0 | C | T | 65.9% | 398.1 / 305.5 | 308 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,457 | 0 | A | G | 65.2% | 442.7 / inf | 426 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 580,119 | 0 | A | G | 64.3% | 310.9 / inf | 306 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,671 | 0 | T | C | 63.9% | 402.2 / inf | 427 | intergenic (‑77/‑209) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 580,020 | 0 | G | A | 63.8% | 390.2 / inf | 339 | R47R (AGG→AGA) | ybcW | uncharacterized protein YbcW |
| * | NC_000913 | 580,120 | 0 | C | T | 63.3% | 356.4 / inf | 311 | intergenic (+34/+131) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,651 | 0 | C | T | 63.3% | 496.3 / inf | 454 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,717 | 0 | A | C | 62.8% | 469.5 / inf | 465 | intergenic (‑123/‑163) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 566,651 | 0 | T | C | 62.7% | 242.8 / 300.1 | 256 | intergenic (‑673/‑33) | intD/renD | putative integrase/protein RenD |
| * | NC_000913 | 579,502 | 0 | A | G | 62.7% | 416.3 / inf | 489 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,571 | 0 | C | T | 62.5% | 338.6 / inf | 332 | intergenic (+3/+29) | rzpD/borD | putative prophage endopeptidase RzpD/prophage lipoprotein BorD |
| * | NC_000913 | 579,811 | 0 | C | T | 62.4% | 358.5 / inf | 363 | intergenic (‑217/‑69) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,540 | 0 | T | C | 62.3% | 444.7 / inf | 471 | N19D (AAC→GAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,099 | 0 | A | . | 62.2% | 332.7 / inf | 354 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,729 | 0 | A | G | 61.9% | 295.8 / inf | 333 | A55A (GCT→GCC) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,574 | 0 | A | C | 61.9% | 344.2 / inf | 336 | intergenic (+6/+26) | rzpD/borD | putative prophage endopeptidase RzpD/prophage lipoprotein BorD |
| * | NC_000913 | 579,127 | 0 | T | C | 61.6% | 274.9 / inf | 336 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,605 | 0 | T | G | 61.3% | 354.6 / inf | 349 | K97Q (AAA→CAA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 579,134 | 0 | T | C | 61.3% | 260.6 / inf | 333 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,146 | 0 | A | G | 61.1% | 281.3 / inf | 353 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| Marginal new junction evidence (lowest skew 10 of 22 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3437349 = | 96 (0.910) | 28 (0.260) | 22/598 | 3.6 | 22.6% | coding (832/1377 nt) | trkA | NAD‑binding component of Trk potassium transporters |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 3670670 | 75 (0.710) | 28 (0.260) | 21/598 | 3.8 | 27.2% | coding (1079/1650 nt) | treF | cytoplasmic trehalase |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 3437350 | 91 (0.860) | 18 (0.170) | 16/598 | 4.8 | 16.5% | coding (833/1377 nt) | trkA | NAD‑binding component of Trk potassium transporters |
| ? | NC_000913 | = 4508679 | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 2947467 | 93 (0.880) | 9 (0.120) | 9/432 | 5.2 | 11.5% | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| ? | NC_000913 | 2947688 = | 71 (0.930) | intergenic (+5/+69) | metV/amiC | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase C | |||||
| * | ? | NC_000913 | 3670669 = | 79 (0.750) | 15 (0.140) | 14/598 | 5.3 | 16.0% | coding (1078/1650 nt) | treF | cytoplasmic trehalase |
| ? | NC_000913 | = 4508679 | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 696741 | 72 (0.680) | 8 (0.100) | 7/442 | 6.1 | 12.1% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 63 (0.810) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 4606166 | 105 (0.990) | 5 (0.070) | 5/420 | 6.7 | 6.6% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 68 (0.910) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 2653549 | 96 (0.910) | 8 (0.080) | 8/566 | 7.0 | 8.6% | intergenic (‑94/‑306) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA |
| ? | NC_000913 | 2653872 = | 80 (0.800) | noncoding (18/304 nt) | ryfA | small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | = 1286906 | 52 (0.490) | 8 (0.080) | 7/558 | 7.3 | 14.6% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 45 (0.460) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 4542690 | 173 (1.630) | 7 (0.070) | 7/580 | 7.5 | 4.2% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 148 (1.440) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||