mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0b
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 4,297,107 | 0 | T | C | 29.0% | 32.0 / 15.0 | 32 | G170G (GGA→GGG) | alsK | D‑allose kinase |
| * | CP009273 | 4,297,115 | 0 | G | A | 21.9% | 56.4 / 12.7 | 33 | P168S (CCC→TCC) | alsK | D‑allose kinase |
| * | CP009273 | 4,297,111 | 0 | A | T | 21.2% | 51.5 / 13.1 | 33 | L169Q (CTG→CAG) | alsK | D‑allose kinase |
| Marginal new junction evidence (lowest skew 10 of 25 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 895231 | NA (NA) | 5 (0.120) | 5/278 | 5.5 | NA | noncoding (80/98 nt) | RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | = 895242 | NA (NA) | noncoding (91/98 nt) | RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | = 4578925 | 53 (1.220) | 4 (0.100) | 4/276 | 6.0 | 7.3% | intergenic (‑29/+21) | yjiX/yjiY | DUF466 family protein/putative transporter |
| ? | CP009273 | = 4578929 | 51 (1.240) | intergenic (‑33/+17) | yjiX/yjiY | DUF466 family protein/putative transporter | |||||
| * | ? | CP009273 | = 4253154 | 50 (1.150) | 4 (0.100) | 4/274 | 6.0 | 7.8% | intergenic (+144/+22) | pspG/qorA | phage shock protein G/quinone oxidoreductase, NADPH‑dependent |
| ? | CP009273 | = 4253159 | 48 (1.180) | intergenic (+149/+17) | pspG/qorA | phage shock protein G/quinone oxidoreductase, NADPH‑dependent | |||||
| * | ? | CP009273 | 2719559 = | NA (NA) | 8 (0.190) | 4/280 | 6.1 | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | CP009273 | 2719583 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | CP009273 | = 1522721 | 2 (0.050) | 4 (0.100) | 4/282 | 6.1 | 67.4% | pseudogene (563/2037 nt) | rhsE | pseudogene, Rhs family protein |
| ? | CP009273 | = 1522733 | NA (NA) | pseudogene (575/2037 nt) | rhsE | pseudogene, Rhs family protein | |||||
| * | ? | CP009273 | = 521466 | 2 (0.050) | 4 (0.100) | 4/282 | 6.1 | 67.4% | coding (2750/4281 nt) | rhsD | Rhs family putative polymorphic toxin |
| ? | CP009273 | = 521478 | NA (NA) | coding (2762/4281 nt) | rhsD | Rhs family putative polymorphic toxin | |||||
| * | ? | CP009273 | 1706351 = | 37 (0.850) | 4 (0.090) | 4/284 | 6.2 | 9.8% | coding (572/636 nt) | nth | DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) |
| ? | CP009273 | 1706366 = | 38 (0.900) | coding (587/636 nt) | nth | DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) | |||||
| * | ? | CP009273 | 3845483 = | 39 (0.900) | 3 (0.070) | 3/274 | 6.6 | 7.3% | coding (662/1689 nt) | ilvB | acetolactate synthase 2 large subunit |
| ? | CP009273 | 3845574 = | 40 (0.980) | coding (571/1689 nt) | ilvB | acetolactate synthase 2 large subunit | |||||
| * | ? | CP009273 | = 4161535 | 27 (0.620) | 8 (0.190) | 3/280 | 6.7 | 23.6% | intergenic (+63/‑30) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | CP009273 | = 4202950 | NA (NA) | intergenic (+76/‑18) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | CP009273 | = 3940048 | 58 (1.340) | 8 (0.190) | 3/280 | 6.7 | 12.6% | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon |
| ? | CP009273 | = 4161529 | NA (NA) | intergenic (+57/‑36) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon | |||||