mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
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 | ||
| * | NC_000913 | 624,596 | 0 | A | T | 29.4% | 108.7 / 10.8 | 68 | intergenic (‑86/‑289) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 3,624,845 | 0 | A | T | 26.0% | 72.9 / 38.3 | 50 | P156P (CCA→CCT) | yhhI | putative transposase |
| * | NC_000913 | 843,202 | 0 | G | T | 25.0% | 134.2 / 11.5 | 72 | A291S (GCC→TCC) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | NC_000913 | 915,213 | 0 | A | T | 21.9% | 93.9 / 12.4 | 65 | intergenic (‑356/+139) | ybjE/aqpZ | putative transporter/aquaporin Z |
| * | NC_000913 | 915,205 | 0 | C | G | 21.3% | 134.0 / 10.0 | 61 | intergenic (‑348/+147) | ybjE/aqpZ | putative transporter/aquaporin Z |
| * | NC_000913 | 566,245 | 0 | G | A | 20.0% | 199.9 / 43.6 | 85 | pseudogene (132/279 nt) | exoD | pseudogene, DLP12 prophage; phage‑type exonuclease family;Phage or Prophage Related |
| Marginal new junction evidence (lowest skew 10 of 14 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 566098 = | 95 (1.080) | 14 (0.180) +GAGAGGAGGATTACAAA |
9/242 | 2.7 | 12.9% | pseudogene (279/279 nt) | exoD | pseudogene, DLP12 prophage; phage‑type exonuclease family;Phage or Prophage Related |
| ? | NC_000913 | 4397412 = | 120 (1.370) | coding (1/1848 nt) | mutL | methyl‑directed mismatch repair protein | |||||
| * | ? | NC_000913 | = 1207805 | 52 (0.590) | 12 (0.150) | 7/244 | 3.2 | 25.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 26 (0.340) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 58 (0.660) | 11 (0.140) | 6/244 | 3.5 | 22.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 26 (0.340) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 375124 = | 117 (1.330) | 9 (0.150) | 4/192 | 3.5 | 11.3% | noncoding (195/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 377530 = | 60 (0.990) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 8 (0.100) | 5/260 | 4.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | NC_000913 | = 374958 | 80 (0.910) | 4 (0.060) | 3/202 | 4.1 | 5.1% | noncoding (29/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | = 377392 | 90 (1.410) | noncoding (58/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | 4373296 = | 86 (1.050) | 85 (1.050) | 4/256 | 4.4 | 49.9% | intergenic (+134/+69) | yjeI/yjeJ | DUF4156 family lipoprotein/uncharacterized protein |
| ? | NC_000913 | 4374498 = | NA (NA) | noncoding (1/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 4373286 = | 74 (1.030) | 53 (0.740) | 3/226 | 4.4 | 41.7% | noncoding (90/99 nt) | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4374508 = | NA (NA) | noncoding (11/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 1050545 | NA (NA) | 107 (1.220) | 4/276 | 4.6 | 69.0% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2760086 | 48 (0.550) | coding (1102/1410 nt) | yfjI | CP4‑57 prophage; uncharacterized protein | |||||
| * | ? | NC_000913 | 375248 = | 124 (1.410) | 8 (0.110) | 3/238 | 4.6 | 7.8% | noncoding (319/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 377507 = | 83 (1.100) | noncoding (173/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||