mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 164 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | 1 | 2,156,752 | 0 | T | C | 72.5% | 70.4 / 33.3 | 51 | I20T (ATC→ACC) | unknown | Mobile element protein |
| * | 1 | 2,152,721 | 0 | A | C | 57.4% | 28.3 / 66.8 | 54 | T1108P (ACC→CCC) | unknown | Chromosome partition protein MukB |
| * | 1 | 31,302 | 0 | G | T | 53.3% | ‑3.6 / 21.2 | 15 | C66F (TGC→TTC) | unknown | TonB‑dependent receptor |
| * | 1 | 266,854 | 0 | A | C | 48.5% | 72.9 / 26.7 | 66 | L54V (TTG→GTG) | unknown | N‑acetylmannosamine‑6‑phosphate 2‑epimerase (EC 5.1.3.9) |
| * | 1 | 445,706 | 0 | C | G | 44.8% | 21.6 / 12.7 | 30 | intergenic (+69/‑66) | unknown/unknown | Hydrogenase‑4 component I/Hydrogenase‑4 maturation protease |
| * | 1 | 1,465,775 | 0 | G | A | 43.8% | 42.9 / 22.3 | 48 | intergenic (‑41/‑98) | unknown/unknown | hypothetical protein/Phosphoenolpyruvate carboxykinase [ATP] (EC 4.1.1.49) |
| * | 1 | 188,080 | 0 | A | C | 43.3% | 92.5 / 14.9 | 68 | V80G (GTC→GGC) | unknown | 4‑hydroxy‑2‑oxoglutarate aldolase (EC 4.1.3.16) @ 2‑dehydro‑3‑deoxyphosphogluconate aldolase (EC 4.1.2.14) |
| * | 1 | 1,748,634 | 0 | A | C | 42.7% | 121.2 / 11.9 | 75 | V366G (GTC→GGC) | unknown | Phosphoglucosamine mutase (EC 5.4.2.10) |
| * | 1 | 2,020,887 | 0 | T | G | 41.5% | 105.0 / 10.7 | 65 | T88P (ACC→CCC) | unknown | Tyrosyl‑tRNA synthetase (EC 6.1.1.1) |
| * | 1 | 506,687 | 0 | T | A | 41.0% | 120.3 / 37.0 | 78 | N388K (AAT→AAA) | unknown | Uncharacterized protease YegQ |
| * | 1 | 1,325,521 | 0 | T | G | 40.2% | 157.9 / 18.6 | 92 | T149P (ACC→CCC) | unknown | FIG138576: 3‑oxoacyl‑[ACP] synthase (EC 2.3.1.41) |
| * | 1 | 476,575 | 0 | C | T | 39.3% | 53.8 / 16.9 | 57 | E402K (GAA→AAA) | unknown | Replication‑associated recombination protein RarA |
| * | 1 | 2,127,604 | 0 | C | A | 38.9% | 44.4 / 25.5 | 36 | V23L (GTA→TTA) | unknown | Macrolide‑specific efflux protein MacA |
| * | 1 | 1,916,828 | 0 | C | T | 38.8% | 100.1 / 27.2 | 81 | L102L (TTG→TTA) | unknown | 23S rRNA (cytidine(2498)‑2'‑O)‑methyltransferase (EC 2.1.1.186) |
| * | 1 | 1,693,140 | 0 | C | G | 38.7% | 48.7 / 11.9 | 32 | P256P (CCG→CCC) | unknown | putative membrane protein |
| * | 1 | 1,636,160 | 0 | C | T | 38.3% | 84.8 / 31.7 | 81 | L208F (CTT→TTT) | unknown | Magnesium and cobalt efflux protein CorC |
| * | 1 | 641,384 | 0 | C | A | 37.7% | 105.5 / 27.3 | 69 | V90F (GTT→TTT) | unknown | Probable 3‑phenylpropionic acid transporter |
| * | 1 | 833,495 | 0 | G | T | 37.5% | 161.8 / 34.8 | 96 | C609F (TGC→TTC) | unknown | Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
| * | 1 | 662,564 | 0 | A | C | 37.4% | 188.2 / 16.2 | 99 | N311T (AAC→ACC) | unknown | 23S rRNA (uracil(747)‑C(5))‑methyltransferase (EC 2.1.1.189) |
| * | 1 | 525,132 | 0 | T | A | 36.7% | 46.8 / 11.8 | 30 | intergenic (‑141/+160) | unknown/unknown | Inositol transport system sugar‑binding protein/Myo‑inositol 2‑dehydrogenase 2 (EC 1.1.1.18) |
| Marginal new junction evidence (lowest skew 10 of 65 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | 1 | = 126196 | NA (NA) | 12 (0.150) | 9/396 | 4.7 | NA | noncoding (1287/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | = 126301 | NA (NA) | noncoding (1182/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA | |||||
| * | ? | 1 | = 1542185 | 89 (1.020) | 10 (0.120) | 9/406 | 4.8 | 10.9% | coding (642/1923 nt) | unknown | tRNA cytosine(34) acetyltransferase (EC 2.3.1.193) |
| ? | 1 | = 1542431 | 80 (0.970) | coding (888/1923 nt) | unknown | tRNA cytosine(34) acetyltransferase (EC 2.3.1.193) | |||||
| * | ? | 1 | 1925441 = | 101 (1.150) | 6 (0.070) | 5/412 | 6.2 | 5.7% | coding (734/1953 nt) | unknown | Electron transport complex protein RnfC |
| ? | 1 | 1925828 = | 100 (1.190) | coding (1121/1953 nt) | unknown | Electron transport complex protein RnfC | |||||
| * | ? | 1 | = 1553645 | 115 (1.310) | 5 (0.060) | 5/418 | 6.2 | 4.4% | intergenic (+260/‑4) | unknown/unknown | Carbon starvation protein A/Transcriptional regulator MraZ |
| ? | 1 | = 1553779 | 106 (1.240) | coding (131/459 nt) | unknown | Transcriptional regulator MraZ | |||||
| * | ? | 1 | 1408553 = | 79 (0.900) | 6 (0.070) | 5/410 | 6.2 | 6.1% | coding (39/1140 nt) | unknown | A/G‑specific adenine glycosylase (EC 3.2.2.‑) |
| ? | 1 | 1408896 = | 111 (1.330) | coding (382/1140 nt) | unknown | A/G‑specific adenine glycosylase (EC 3.2.2.‑) | |||||
| * | ? | 1 | = 1922779 | 89 (1.020) | 5 (0.060) | 5/422 | 6.3 | 5.3% | coding (322/888 nt) | unknown | Cell division inhibitor Slr1223 (YfcH in EC), contains epimerase/dehydratase and DUF1731 domains |
| ? | 1 | = 1923031 | 92 (1.070) | coding (574/888 nt) | unknown | Cell division inhibitor Slr1223 (YfcH in EC), contains epimerase/dehydratase and DUF1731 domains | |||||
| * | ? | 1 | = 682299 | NA (NA) | 6 (0.070) | 5/420 | 6.3 | 10.1% | coding (220/762 nt) | unknown | Mobile element protein |
| ? | 1 | = 2156748 | 55 (0.630) | coding (55/243 nt) | unknown | Mobile element protein | |||||
| * | ? | 1 | = 157668 | NA (NA) | 6 (0.070) | 5/420 | 6.3 | NA | coding (10/762 nt) | unknown | Mobile element protein |
| ? | 1 | = 157878 | NA (NA) | coding (220/762 nt) | unknown | Mobile element protein | |||||
| * | ? | 1 | = 2033224 | 76 (0.870) | 4 (0.050) | 4/386 | 6.4 | 5.3% | intergenic (‑34/+162) | unknown/unknown | Autoinducer 2 (AI‑2) ABC transporter, substrate‑binding protein/Excinuclease ABC subunit C |
| ? | 1 | = 2033274 | 74 (0.940) | intergenic (‑84/+112) | unknown/unknown | Autoinducer 2 (AI‑2) ABC transporter, substrate‑binding protein/Excinuclease ABC subunit C | |||||
| * | ? | 1 | 787675 = | 129 (1.470) | 5 (0.060) | 4/400 | 6.5 | 3.5% | coding (1144/1437 nt) | unknown | Pantothenate:Na+ symporter (TC 2.A.21.1.1) |
| ? | 1 | 788185 = | 157 (1.930) | coding (634/1437 nt) | unknown | Pantothenate:Na+ symporter (TC 2.A.21.1.1) | |||||