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 238 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 | 58.7% | 129.8 / 227.7 | 189 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 1,634,404 | 0 | A | G | 57.7% | ‑4.4 / 58.2 | 52 | I161T (ATC→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 580,119 | 0 | A | G | 57.2% | 92.4 / 247.0 | 187 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,020 | 0 | G | A | 56.8% | 104.5 / 244.6 | 193 | R47R (AGG→AGA) | ybcW | uncharacterized protein YbcW |
| * | NC_000913 | 578,831 | 0 | T | C | 56.5% | 121.6 / inf | 255 | T21T (ACA→ACG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 580,120 | 0 | C | T | 56.3% | 114.9 / 234.6 | 191 | intergenic (+34/+131) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 1,429,207 | 0 | T | G | 56.2% | 61.6 / 128.9 | 106 | V53V (GTT→GTG) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 578,809 | 0 | T | C | 56.0% | 98.7 / inf | 234 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,811 | 0 | T | G | 56.0% | 147.8 / 288.8 | 234 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 580,302 | 0 | C | T | 55.1% | 70.8 / 296.2 | 215 | R48R (AGG→AGA) | ylcI | DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 1,429,160 | 0 | C | G | 55.1% | 30.7 / 177.9 | 109 | L38V (CTG→GTG) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 578,729 | 0 | A | G | 55.0% | 91.6 / 310.2 | 235 | A55A (GCT→GCC) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,429,171 | 0 | A | G | 54.9% | 40.4 / 150.3 | 113 | E41E (GAA→GAG) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 579,811 | 0 | C | T | 54.8% | 70.5 / 313.6 | 217 | intergenic (‑217/‑69) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 1,429,204 | 0 | C | T | 54.7% | 49.7 / 132.3 | 106 | D52D (GAC→GAT) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 1,429,164 | 0 | C | G | 54.1% | 29.6 / 182.9 | 110 | A39G (GCC→GGC) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 579,285 | 0 | T | C | 53.2% | 21.3 / inf | 237 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,099 | 0 | A | . | 52.8% | 316.7 / inf | 197 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,271 | 0 | G | A | 52.6% | 47.4 / inf | 228 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,382 | 0 | T | C | 52.5% | 6.0 / 56.8 | 40 | K168K (AAA→AAG) | tfaQ | putative tail fiber assembly protein TfaQ |
| Marginal new junction evidence (lowest skew 10 of 27 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 566774 | 70 (0.880) | 53 (0.670) | 15/584 | 3.5 | 41.0% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 83 (1.050) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 2818275 | 39 (0.490) | 10 (0.170) | 9/430 | 3.8 | 20.5% | intergenic (‑1/+198) | argY/argV | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818551 = | 49 (0.840) | intergenic (‑2/+2) | argV/serV | tRNA‑Arg/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 2518116 | 72 (0.900) | 7 (0.120) | 7/426 | 4.4 | 12.5% | noncoding (1/76 nt) | alaX | tRNA‑Ala |
| ? | NC_000913 | 2518232 = | 46 (0.790) | intergenic (‑1/‑235) | alaW/yfeC | tRNA‑Ala/DNA‑binding transcriptional dual regulator YfeC | |||||
| * | ? | NC_000913 | = 696741 | 59 (0.740) | 7 (0.120) | 6/432 | 4.9 | 12.3% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 56 (0.950) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 696506 | 85 (1.060) | 7 (0.120) | 6/434 | 4.9 | 10.8% | intergenic (‑2/+36) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | 696619 = | 53 (0.900) | intergenic (‑3/+45) | glnV/metU | tRNA‑Gln/tRNA‑Met | |||||
| * | ? | NC_000913 | = 2653419 | 67 (0.840) | 7 (0.100) | 7/538 | 5.4 | 10.1% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 64 (0.880) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | = 3469040 | 77 (0.960) | 8 (0.110) | 7/548 | 5.5 | 9.5% | coding (814/2694 nt) | chiA | endochitinase |
| ? | NC_000913 | 3469344 = | 80 (1.070) | coding (510/2694 nt) | chiA | endochitinase | |||||
| * | ? | NC_000913 | = 1287084 | 45 (0.560) | 7 (0.090) | 7/548 | 5.5 | 15.6% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 34 (0.460) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 1286906 | 50 (0.630) | 7 (0.090) | 7/548 | 5.5 | 14.8% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 34 (0.460) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 696506 | 85 (1.060) | 6 (0.090) +45 bp |
6/498 | 5.5 | 8.1% | intergenic (‑2/+36) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | 697057 = | 75 (0.940) | noncoding (77/77 nt) | metT | tRNA‑Met | |||||