mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 204 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | 1 | 140,086 | 0 | G | T | 77.0% | 303.1 / 101.4 | 178 | intergenic (+6775/+122145) | unknown/unknown | tRNA‑Val‑TAC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 351,540 | 0 | T | C | 64.9% | 48.6 / 47.0 | 74 | intergenic (‑6617/+60336) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 351,543 | 0 | T | . | 62.3% | 24.1 / 118.9 | 77 | intergenic (‑6620/+60333) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 1,006,252 | 0 | T | . | 60.5% | 20.6 / 141.6 | 86 | intergenic (‑12/+41) | unknown/unknown | tRNA‑Lys‑TTT/tRNA‑Leu‑TAA |
| * | 1 | 1,006,253 | 0 | C | . | 60.5% | 12.9 / 156.6 | 86 | intergenic (‑13/+40) | unknown/unknown | tRNA‑Lys‑TTT/tRNA‑Leu‑TAA |
| * | 1 | 1,006,026 | 0 | G | T | 58.8% | 28.6 / 57.5 | 51 | intergenic (+55452/+139) | unknown/unknown | tRNA‑Leu‑CAG/tRNA‑Lys‑TTT |
| * | 1 | 1,275,683 | 0 | T | G | 57.4% | 19.5 / 55.7 | 54 | intergenic (+116103/+145254) | unknown/unknown | tRNA‑Val‑GAC/tRNA‑Met‑CAT |
| * | 1 | 593,508 | 0 | T | C | 51.5% | ‑0.5 / 29.1 | 33 | intergenic (+95955/‑105835) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 351,492 | 0 | G | A | 50.0% | 4.0 / 29.6 | 30 | intergenic (‑6569/+60384) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 351,493 | 0 | T | . | 50.0% | 35.7 / 52.0 | 30 | intergenic (‑6570/+60383) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 351,494 | 0 | T | . | 50.0% | 36.0 / 52.0 | 30 | intergenic (‑6571/+60382) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 1,006,163 | 1 | . | T | 50.0% | 50.3 / 232.6 | 108 | intergenic (+55589/+2) | unknown/unknown | tRNA‑Leu‑CAG/tRNA‑Lys‑TTT |
| * | 1 | 1,006,163 | 2 | . | C | 50.0% | 54.2 / 261.4 | 108 | intergenic (+55589/+2) | unknown/unknown | tRNA‑Leu‑CAG/tRNA‑Lys‑TTT |
| * | 1 | 1,006,100 | 0 | A | G | 48.9% | 4.7 / 98.9 | 94 | intergenic (+55526/+65) | unknown/unknown | tRNA‑Leu‑CAG/tRNA‑Lys‑TTT |
| * | 1 | 593,521 | 0 | A | G | 48.5% | ‑2.0 / 33.5 | 33 | intergenic (+95968/‑105822) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 593,525 | 0 | C | T | 48.5% | ‑0.3 / 27.9 | 33 | intergenic (+95972/‑105818) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 593,571 | 0 | G | T | 48.5% | ‑0.8 / 38.3 | 33 | intergenic (+96018/‑105772) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 593,572 | 0 | A | G | 48.5% | ‑0.6 / 31.0 | 33 | intergenic (+96019/‑105771) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 1,709,179 | 0 | A | C | 48.5% | 57.8 / 24.9 | 66 | intergenic (‑39231/‑10704) | unknown/unknown | tRNA‑Arg‑CCG/tRNA‑Asn‑GTT |
| * | 1 | 1,006,135 | 0 | T | C | 48.1% | 17.1 / 109.7 | 104 | intergenic (+55561/+30) | unknown/unknown | tRNA‑Leu‑CAG/tRNA‑Lys‑TTT |
| Marginal new junction evidence (lowest skew 10 of 74 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | 1 | 1330313 = | 0 (0.000) | 22 (0.290) | 15/376 | 3.1 | 100% | intergenic (+170733/+90624) | unknown/unknown | tRNA‑Val‑GAC/tRNA‑Met‑CAT |
| ? | 1 | = 1330302 | 0 (0.000) | intergenic (+170722/+90635) | unknown/unknown | tRNA‑Val‑GAC/tRNA‑Met‑CAT | |||||
| * | ? | 1 | 519634 = | 139 (1.580) | 11 (0.220) +92 bp |
8/246 | 3.2 | 14.4% | intergenic (+22081/‑179709) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| ? | 1 | 1029309 = | 90 (1.020) | intergenic (‑22853/‑5910) | unknown/unknown | tRNA‑Gly‑GCC/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA | |||||
| * | ? | 1 | 497805 = | NA (NA) | 24 (0.290) +TGTCC |
15/408 | 3.4 | 60.6% | intergenic (+252/‑201538) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| ? | 1 | = 593468 | 16 (0.190) | intergenic (+95915/‑105875) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA | |||||
| * | ? | 1 | 1645858 = | 0 (0.000) | 15 (0.190) | 14/392 | 3.5 | 100% | intergenic (+4019/+18517) | unknown/unknown | tRNA‑Gly‑GCC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | = 1645853 | 0 (0.000) | intergenic (+4014/+18522) | unknown/unknown | tRNA‑Gly‑GCC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA | |||||
| * | ? | 1 | 351470 = | 0 (0.000) | 26 (0.300) | 11/428 | 4.5 | 34.2% | intergenic (‑6547/+60406) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | 438664 = | 100 (1.140) | intergenic (‑21842/‑58799) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA | |||||
| * | ? | 1 | = 1137513 | NA (NA) | 14 (0.160) +C |
10/428 | 4.7 | 17.8% | intergenic (+464/‑21991) | unknown/unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA/tRNA‑Val‑GAC |
| ? | 1 | = 1715996 | 65 (0.740) | intergenic (‑46048/‑3887) | unknown/unknown | tRNA‑Arg‑CCG/tRNA‑Asn‑GTT | |||||
| * | ? | 1 | = 263967 | NA (NA) | 12 (0.150) | 9/396 | 4.7 | NA | noncoding (1287/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | = 264072 | NA (NA) | noncoding (1182/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA | |||||
| * | ? | 1 | = 286401 | 0 (0.000) | 22 (0.280) +22 bp |
8/386 | 4.9 | 32.5% | intergenic (‑19041/+58204) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Arg‑ACG |
| ? | 1 | = 286784 | 102 (1.160) | intergenic (‑19424/+57821) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Arg‑ACG | |||||
| * | ? | 1 | 682049 = | 17 (0.190) | 19 (0.260) +36 bp |
7/358 | 5.0 | 32.9% | intergenic (+184496/‑17294) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| ? | 1 | = 1040560 | 76 (0.860) | intergenic (+395/‑177) | unknown/unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA/tRNA‑Asp‑GTC | |||||
| * | ? | 1 | 593469 = | NA (NA) | 12 (0.140) | 7/430 | 5.7 | 17.6% | intergenic (+95916/‑105874) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| ? | 1 | 1104284 = | 56 (0.630) | intergenic (‑44731/‑27819) | unknown/unknown | tRNA‑Ser‑GGA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA | |||||