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 | 2,185,429 | 0 | T | G | 32.9% | 79.4 / 22.0 | 70 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | NC_000913 | 3,908,514 | 0 | A | T | 28.7% | 154.0 / 15.8 | 95 | intergenic (‑148/+35) | pstB/pstA | phosphate ABC transporter ATPase/phosphate ABC transporter permease |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.6% | 243.7 / 118.0 | 140 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 624,598 | 0 | A | T | 26.0% | 108.9 / 12.7 | 74 | intergenic (‑88/‑287) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| * | NC_000913 | 2,411,250 | 0 | C | A | 25.3% | 321.2 / 16.1 | 146 | V35F (GTC→TTC) | yfbS | putative transporter |
| * | NC_000913 | 915,213 | 0 | A | T | 24.0% | 164.5 / 16.7 | 107 | intergenic (‑356/+139) | ybjE/aqpZ | putative transporter/aquaporin Z |
| * | NC_000913 | 3,624,845 | 0 | A | T | 22.6% | 46.0 / 13.8 | 31 | P156P (CCA→CCT) | yhhI | putative transposase |
| * | NC_000913 | 767,956 | 0 | C | A | 21.2% | 364.7 / 16.1 | 213 | P658Q (CCA→CAA) | mngA | fused 2‑O‑a‑mannosyl‑D‑glycerate specific PTS enzymes: IIA component/IIB component/IIC component |
| * | NC_000913 | 915,199 | 0 | A | T | 20.0% | 213.9 / 10.5 | 112 | intergenic (‑342/+153) | ybjE/aqpZ | putative transporter/aquaporin Z |
| Marginal new junction evidence (lowest skew 10 of 12 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 566098 = | 98 (1.070) | 14 (0.170) +GAGAGGAGGATTACAAA |
8/242 | 3.4 | 12.5% | pseudogene (279/279 nt) | exoD | pseudogene, DLP12 prophage; phage‑type exonuclease family;Phage or Prophage Related |
| ? | NC_000913 | 4397412 = | 125 (1.360) | coding (1/1848 nt) | mutL | methyl‑directed mismatch repair protein | |||||
| * | ? | NC_000913 | 375124 = | 122 (1.330) | 13 (0.200) | 4/192 | 4.0 | 14.5% | 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 = | 68 (1.060) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | NC_000913 | 4373296 = | 90 (1.050) | 99 (1.160) | 6/256 | 4.2 | 52.6% | 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 | 375248 = | 130 (1.410) | 16 (0.200) | 5/238 | 4.3 | 14.1% | 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 (1.050) | noncoding (173/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 14 (0.160) | 6/260 | 4.3 | 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 | 375023 = | 83 (0.900) | 8 (0.130) | 3/192 | 4.5 | 11.4% | 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 = | 67 (1.050) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | NC_000913 | = 374958 | 93 (1.010) | 5 (0.070) | 3/202 | 4.7 | 6.5% | 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 | 76 (1.130) | noncoding (58/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | NC_000913 | = 3481827 | 113 (1.230) | 3 (0.040) | 3/214 | 4.9 | 4.1% | coding (539/1914 nt) | yheS | ABC‑F family protein predicted regulatory ATPase |
| ? | NC_000913 | 3482671 = | 52 (0.730) | coding (1383/1914 nt) | yheS | ABC‑F family protein predicted regulatory ATPase | |||||
| * | ? | NC_000913 | 4373286 = | 82 (1.090) | 53 (0.700) | 3/226 | 5.1 | 39.3% | 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 | = 286130 | 475 (5.160) | 3 (0.030) | 3/260 | 5.6 | 0.46% | coding (736/1383 nt) | yagG | CP4‑6 prophage; putative sugar transporter |
| ? | NC_000913 | 287432 = | 844 (9.740) | coding (644/1611 nt) | yagH | CP4‑6 prophage; putative xylosidase/arabinosidase | |||||