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 39 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,905,093 | 0 | G | C | 50.9% | 0.5 / 305.8 | 166 | G98A (GGT→GCT) | yobD | DUF986 domain‑containing inner membrane protein YobD |
| * | NC_000913 | 1,922,815 | 0 | C | A | 34.2% | 167.0 / 33.5 | 114 | G52V (GGA→GTA) | pphA | phosphoprotein phosphatase 1 |
| * | NC_000913 | 2,477,265 | 0 | A | C | 34.0% | 160.7 / 41.0 | 103 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 2,767,445 | 0 | C | A | 32.4% | 190.4 / 23.5 | 102 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 58,065 | 0 | C | A | 31.2% | 180.0 / 29.5 | 125 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 3,911,533 | 0 | C | A | 31.2% | 266.3 / 13.8 | 138 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 2,990,480 | 0 | C | A | 30.3% | 274.2 / 29.6 | 165 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 4,360,965 | 0 | C | A | 29.9% | 328.2 / 30.9 | 157 | E324* (GAG→TAG) | cadC | DNA‑binding transcriptional activator CadC |
| * | NC_000913 | 3,054,894 | 0 | G | T | 29.7% | 157.0 / 26.0 | 101 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,767,449 | 0 | C | A | 29.5% | 242.1 / 14.3 | 112 | intergenic (+94/‑261) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 4,136,467 | 0 | A | C | 29.0% | 124.1 / 14.0 | 71 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 4,427,822 | 0 | C | A | 29.0% | 328.1 / 18.7 | 169 | intergenic (‑400/+257) | yjfZ/ytfB | DUF2686 domain‑containing protein YjfZ/cell division protein YtfB |
| * | NC_000913 | 1,334,966 | 0 | A | C | 28.9% | 264.3 / 23.2 | 166 | intergenic (+137/‑182) | cysB/ymiA | DNA‑binding transcriptional dual regulator CysB/uncharacterized protein YmiA |
| * | NC_000913 | 1,351,463 | 0 | C | A | 28.8% | 104.5 / 15.2 | 73 | E100* (GAG→TAG) | ycjD | DUF559 domain‑containing protein YcjD |
| * | NC_000913 | 3,054,886 | 0 | G | T | 28.7% | 192.5 / 24.5 | 101 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 847,955 | 0 | G | A | 28.0% | 195.7 / 35.1 | 125 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,401,345 | 0 | G | T | 28.0% | 178.0 / 17.7 | 118 | intergenic (‑258/+47) | mreB/csrD | dynamic cytoskeletal protein MreB/regulator of CsrB and CsrC decay |
| * | NC_000913 | 2,955,988 | 0 | C | A | 27.9% | 257.6 / 13.7 | 136 | E6* (GAG→TAG) | recB | exodeoxyribonuclease V subunit RecB |
| * | NC_000913 | 85,651 | 0 | G | T | 27.5% | 200.2 / 10.9 | 120 | E8* (GAG→TAG) | ilvI | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| * | NC_000913 | 141,849 | 0 | C | A | 27.0% | 236.6 / 10.2 | 115 | P140Q (CCG→CAG) | hpt | hypoxanthine phosphoribosyltransferase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1287329 | 62 (0.610) | 9 (0.120) | 8/424 | 5.5 | 19.2% | intergenic (‑1/+209) | tyrV/tyrT | tRNA‑Tyr/tRNA‑Tyr |
| ? | NC_000913 | 1287624 = | 32 (0.440) | intergenic (‑2/+158) | tyrT/purU | tRNA‑Tyr/formyltetrahydrofolate deformylase | |||||
| * | ? | NC_000913 | = 4606166 | 100 (0.980) | 6 (0.080) | 6/420 | 6.3 | 8.9% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 52 (0.720) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 2818275 | 49 (0.480) | 4 (0.050) | 3/440 | 8.3 | 6.7% | intergenic (‑1/+198) | argY/argV | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818551 = | 76 (1.010) | intergenic (‑2/+2) | argV/serV | tRNA‑Arg/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 1287084 | 43 (0.420) | 4 (0.040) | 4/558 | 9.0 | 8.8% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 43 (0.450) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 696454 | 75 (0.730) | 6 (0.060) | 4/576 | 9.2 | 8.0% | noncoding (51/75 nt) | glnX | tRNA‑Gln |
| ? | NC_000913 | 696890 = | 65 (0.660) | noncoding (50/75 nt) | glnU | tRNA‑Gln | |||||
| * | ? | NC_000913 | = 2357719 | 109 (1.070) | 4 (0.040) +G |
4/596 | 9.4 | 3.5% | coding (816/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357916 = | 115 (1.120) | intergenic (+113/+126) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | 3270072 = | 61 (0.600) | 3 (0.030) +25 bp |
3/548 | 9.5 | 4.1% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 4137788 = | 94 (0.920) | intergenic (‑131/+144) | yijF/gldA | DUF1287 domain‑containing protein YijF/L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase | |||||
| * | ? | NC_000913 | = 2920248 | 95 (0.930) | 3 (0.030) | 3/578 | 9.8 | 3.1% | coding (499/1341 nt) | gudX | glucarate dehydratase‑related protein |
| ? | NC_000913 | 2920614 = | 98 (0.990) | coding (133/1341 nt) | gudX | glucarate dehydratase‑related protein | |||||