mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | 624,604 | 0 | A | T | 32.6% | 148.8 / 11.1 | 96 | intergenic (‑94/‑281) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 4,412,791 | 0 | G | T | 31.1% | 140.2 / 26.9 | 74 | L135F (TTG→TTT) | yjfM | DUF1190 family protein |
| * | NC_000913 | 1,164,546 | 0 | A | T | 30.6% | 110.5 / 10.0 | 72 | D151V (GAT→GTT) | nagZ | beta N‑acetyl‑glucosaminidase |
| * | NC_000913 | 843,202 | 0 | G | T | 29.6% | 122.2 / 11.5 | 71 | A291S (GCC→TCC) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,908,514 | 0 | A | T | 26.4% | 183.4 / 14.9 | 111 | intergenic (‑148/+35) | pstB/pstA | phosphate ABC transporter ATPase/phosphate ABC transporter permease |
| * | NC_000913 | 915,199 | 0 | A | T | 24.8% | 255.7 / 11.0 | 133 | intergenic (‑342/+153) | ybjE/aqpZ | putative transporter/aquaporin Z |
| * | NC_000913 | 3,504,873 | 0 | T | A | 24.5% | 436.1 / 41.8 | 247 | intergenic (+90/+62) | frlR/yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| * | NC_000913 | 4,412,779 | 0 | T | G | 24.2% | 109.0 / 20.1 | 66 | V131V (GTT→GTG) | yjfM | DUF1190 family protein |
| * | NC_000913 | 1,834,430 | 0 | A | T | 23.2% | 132.2 / 12.5 | 69 | A105A (GCA→GCT) | ydjY | putative ferrodoxin‑like lipoprotein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 22.4% | 328.3 / 100.2 | 165 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,504,861 | 0 | T | A | 21.9% | 519.6 / 11.3 | 267 | intergenic (+78/+74) | frlR/yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| * | NC_000913 | 915,190 | 0 | C | G | 20.5% | 326.8 / 29.3 | 127 | intergenic (‑333/+162) | ybjE/aqpZ | putative transporter/aquaporin Z |
| Marginal new junction evidence (lowest skew 10 of 27 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 374930 = | NA (NA) | 14 (0.200) | 6/190 | 3.6 | 12.7% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 377522 = | 105 (1.340) | intergenic (+211/+13) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | NC_000913 | 4373296 = | 76 (0.780) | 94 (0.980) | 8/256 | 4.0 | 55.5% | 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 | 375023 = | 121 (1.170) | 9 (0.120) | 5/192 | 4.0 | 9.1% | noncoding (94/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 377530 = | 96 (1.330) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | NC_000913 | = 283268 | 496 (4.790) | 8 (0.090) | 8/250 | 4.0 | 1.6% | coding (68/1968 nt) | yagF | CP4‑6 prophage; dehydratase family protein |
| ? | NC_000913 | 284172 = | 548 (5.840) | coding (972/1968 nt) | yagF | CP4‑6 prophage; dehydratase family protein | |||||
| * | ? | NC_000913 | = 781016 | 60 (0.580) | 5 (0.070) | 5/202 | 4.2 | 10.2% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | NC_000913 | 781809 = | 44 (0.580) | intergenic (+157/‑276) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | NC_000913 | 566098 = | 113 (1.090) | 12 (0.130) +GAGAGGAGGATTACAAA |
7/242 | 4.2 | 8.8% | pseudogene (279/279 nt) | exoD | pseudogene, DLP12 prophage; phage‑type exonuclease family;Phage or Prophage Related |
| ? | NC_000913 | 4397412 = | 170 (1.640) | coding (1/1848 nt) | mutL | methyl‑directed mismatch repair protein | |||||
| * | ? | NC_000913 | 374930 = | NA (NA) | 10 (0.130) | 5/202 | 4.2 | 9.7% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 377422 = | 100 (1.220) | noncoding (88/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | 375248 = | 97 (0.940) | 12 (0.130) | 6/238 | 4.4 | 10.8% | 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 = | 114 (1.280) | noncoding (173/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | = 781016 | 60 (0.580) | 4 (0.050) | 4/202 | 4.7 | 9.0% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | NC_000913 | 2521485 = | 37 (0.490) | intergenic (+157/+108) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | 375124 = | 105 (1.010) | 4 (0.060) | 3/192 | 5.0 | 4.5% | 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 = | 96 (1.330) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||