mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
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 | 926,182 | 0 | C | A | 46.6% | 94.9 / inf | 206 | intergenic (‑211/+43) | serW/infA | tRNA‑Ser/translation initiation factor IF‑1 |
| * | NC_000913 | 4,296,268 | 0 | T | C | 24.4% | 209.5 / 62.9 | 125 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,781,120 | 0 | T | C | 20.9% | 257.7 / 27.1 | 111 | intergenic (+103/‑95) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,781,138 | 0 | A | G | 20.8% | 304.7 / 15.5 | 122 | intergenic (+121/‑77) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,781,152 | 0 | A | G | 20.5% | 320.2 / 24.6 | 129 | intergenic (+135/‑63) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| Marginal new junction evidence (lowest skew 10 of 52 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 221 (1.030) | 29 (0.140) | 22/416 | 8.2 | 12.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 208 (1.040) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 227 (1.050) | 19 (0.090) | 16/416 | 10.1 | 8.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 205 (1.020) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 696506 | 220 (1.020) | 5 (0.040) | 4/294 | 13.0 | 3.0% | intergenic (‑2/+36) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | 696619 = | 174 (1.230) | intergenic (‑3/+45) | glnV/metU | tRNA‑Gln/tRNA‑Met | |||||
| * | ? | NC_000913 | 225456 = | 46 (0.210) | 13 (0.060) | 9/430 | 13.3 | 15.8% | noncoding (76/77 nt) | ileV | tRNA‑Ile |
| ? | NC_000913 | 4037237 = | 94 (0.450) | intergenic (+20/‑23) | ileT/alaT | tRNA‑Ile/tRNA‑Ala | |||||
| * | ? | NC_000913 | 225456 = | 46 (0.210) | 13 (0.060) | 9/430 | 13.3 | 37.1% | noncoding (76/77 nt) | ileV | tRNA‑Ile |
| ? | NC_000913 | = 3427056 | 0 (0.000) | intergenic (‑23/+20) | alaU/ileU | tRNA‑Ala/tRNA‑Ile | |||||
| * | ? | NC_000913 | 225456 = | 46 (0.210) | 13 (0.060) | 9/430 | 13.3 | 21.5% | noncoding (76/77 nt) | ileV | tRNA‑Ile |
| ? | NC_000913 | 225477 = | 51 (0.250) | intergenic (+20/‑23) | ileV/alaV | tRNA‑Ile/tRNA‑Ala | |||||
| * | ? | NC_000913 | 2765420 = | 151 (0.700) | 6 (0.030) | 6/360 | 13.4 | 4.9% | intergenic (‑267/+93) | yfjL/yfjM | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein |
| ? | NC_000913 | = 2765411 | 113 (0.650) | intergenic (‑258/+102) | yfjL/yfjM | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein | |||||
| * | ? | NC_000913 | 1096961 = | 142 (0.660) | 79 (0.570) | 3/288 | 13.6 | 46.8% | intergenic (+132/+604) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | = 1097503 | 88 (0.640) | intergenic (+674/+62) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 4295832 = | NA (NA) | 23 (0.130) | 6/370 | 13.7 | NA | intergenic (+38/+604) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| ? | NC_000913 | = 4296394 | NA (NA) | noncoding (560/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913 | = 2347239 | 214 (0.990) | 5 (0.030) | 4/370 | 15.1 | 2.9% | noncoding (80/203 nt) | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences |
| ? | NC_000913 | 2347328 = | 160 (0.900) | noncoding (169/203 nt) | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | |||||