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 70 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,509,586 | 0 | A | C | 52.4% | 27.5 / 197.5 | 164 | pseudogene (108/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,487 | 0 | A | G | 48.5% | 5.7 / 231.2 | 164 | pseudogene (9/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,537 | 0 | G | A | 46.9% | 40.8 / 209.9 | 160 | pseudogene (59/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,478 | 1 | . | C | 46.7% | 292.9 / inf | 165 | pseudogene (470/471 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,524 | 0 | C | T | 46.3% | 44.0 / 213.0 | 164 | pseudogene (46/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,544 | 0 | G | A | 46.2% | 46.6 / 203.3 | 156 | pseudogene (66/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,463 | 0 | T | G | 46.0% | 28.4 / 252.3 | 174 | pseudogene (455/471 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,428 | 0 | A | G | 45.1% | 49.6 / 224.2 | 173 | pseudogene (420/471 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,037,496 | 0 | A | T | 45.1% | 97.6 / 278.8 | 163 | intergenic (+161/‑23) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA |
| * | NC_000913 | 4,509,416 | 0 | T | C | 44.5% | 47.2 / 227.8 | 173 | pseudogene (408/471 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,556 | 0 | T | C | 44.0% | 51.8 / 202.7 | 157 | pseudogene (78/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,562 | 0 | T | C | 43.7% | 66.6 / 192.2 | 158 | pseudogene (84/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,592 | 0 | G | A | 40.0% | 130.6 / 166.0 | 160 | pseudogene (114/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 2,477,265 | 0 | A | C | 39.0% | 152.4 / 22.5 | 95 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 2,767,445 | 0 | C | A | 35.3% | 161.7 / 22.9 | 102 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 4,509,623 | 0 | G | A | 34.4% | 151.5 / 117.3 | 131 | pseudogene (145/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,637 | 0 | C | T | 32.6% | 157.4 / 108.1 | 129 | pseudogene (159/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,655 | 0 | T | G | 32.5% | 140.8 / 119.9 | 126 | pseudogene (177/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,628 | 0 | A | G | 32.3% | 159.6 / 109.8 | 130 | pseudogene (150/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,630 | 0 | C | T | 32.3% | 164.5 / 106.3 | 130 | pseudogene (152/315 nt) | insO | IS911B regulator fragment |
| Marginal new junction evidence (lowest skew 10 of 25 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 2578481 | 86 (0.770) | 20 (0.180) | 18/598 | 5.1 | 18.9% | intergenic (‑104/‑185) | maeB/talA | malate dehydrogenase (oxaloacetate‑decarboxylating) (NADP(+))/transaldolase A |
| ? | NC_000913 | = 2997691 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4606166 | 90 (0.810) | 9 (0.120) | 8/420 | 6.2 | 12.8% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 60 (0.770) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 2653419 | 89 (0.800) | 10 (0.100) | 9/548 | 7.4 | 10.8% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 83 (0.820) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | = 1287084 | 58 (0.520) | 8 (0.080) | 7/558 | 8.3 | 10.3% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 85 (0.820) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 1096961 = | 150 (1.350) | 5 (0.060) | 4/438 | 8.5 | 4.4% | intergenic (+132/+604) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| ? | NC_000913 | = 1097503 | 107 (1.320) | intergenic (+674/+62) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 780918 | 110 (0.990) | 5 (0.060) | 4/446 | 8.6 | 5.3% | noncoding (76/76 nt) | lysW | tRNA‑Lys |
| ? | NC_000913 | 781653 = | 96 (1.160) | intergenic (+1/‑432) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | = 4295864 | 79 (0.710) | 10 (0.090) +A |
7/596 | 8.8 | 12.4% | intergenic (+70/+572) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| ? | NC_000913 | 4296429 = | 63 (0.570) | intergenic (+635/+7) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO | |||||
| * | ? | NC_000913 | = 1287131 | 68 (0.610) | 7 (0.060) | 6/584 | 9.1 | 8.7% | noncoding (106/171 nt) coding (46/90 nt) |
rttR tpr |
small RNA RttR protamine‑like protein |
| ? | NC_000913 | 1287429 = | 81 (0.750) | intergenic (‑101/+109) | tyrV/tyrT | tRNA‑Tyr/tRNA‑Tyr | |||||
| * | ? | NC_000913 | 2817783 = | 111 (1.000) | 5 (0.050) | 5/558 | 9.4 | 5.7% | intergenic (‑280/+1) | yqaB/argQ | fructose‑1‑phosphate phosphatase YqaB/tRNA‑Arg |
| ? | NC_000913 | = 2817922 | 63 (0.610) | intergenic (‑62/+137) | argQ/argZ | tRNA‑Arg/tRNA‑Arg | |||||
| * | ? | NC_000913 | = 781322 | 128 (1.150) | 5 (0.050) | 4/520 | 9.5 | 3.7% | intergenic (+100/‑47) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 781811 = | 147 (1.520) | intergenic (+159/‑274) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||