mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 344 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 226,307 | 0 | G | T | 68.8% | 41.4 / 250.1 | 215 | noncoding (549/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,309 | 0 | G | A | 68.7% | 35.3 / 209.7 | 214 | noncoding (551/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,310 | 0 | T | G | 68.7% | 39.2 / 231.9 | 214 | noncoding (552/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,308 | 0 | C | T | 68.4% | 37.4 / 209.3 | 215 | noncoding (550/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,305 | 0 | A | . | 67.7% | 235.9 / inf | 217 | noncoding (547/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,301 | 0 | G | A | 67.0% | 60.9 / 244.8 | 221 | noncoding (543/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,392 | 0 | C | G | 66.2% | 46.7 / 81.6 | 74 | noncoding (634/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,299 | 0 | A | C | 66.1% | 66.7 / 256.8 | 224 | noncoding (541/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,381 | 0 | C | G | 65.8% | 55.4 / 100.2 | 82 | noncoding (623/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,280 | 0 | A | G | 65.1% | 51.9 / 215.0 | 198 | noncoding (522/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,378 | 0 | G | T | 65.1% | 55.4 / 99.6 | 83 | noncoding (620/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,278 | 0 | G | A | 64.6% | 52.5 / 230.6 | 198 | noncoding (520/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,262 | 0 | A | T | 64.5% | 40.5 / 211.5 | 169 | noncoding (504/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,354 | 0 | T | A | 64.1% | 73.3 / 166.6 | 131 | noncoding (596/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,384 | 0 | A | T | 64.1% | 58.9 / 93.8 | 78 | noncoding (626/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,387 | 0 | G | C | 64.1% | 56.9 / 94.7 | 78 | noncoding (629/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,371 | 0 | A | T | 62.8% | 71.4 / 111.9 | 87 | noncoding (613/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,404 | 0 | T | A | 62.7% | 36.0 / 61.6 | 51 | noncoding (646/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,248 | 0 | C | A | 62.0% | 40.1 / 190.0 | 142 | noncoding (490/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 4,038,817 | 0 | G | A | 61.5% | 49.0 / 62.0 | 52 | noncoding (1299/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 50 (0.800) | 12 (0.220) | 11/266 | 6.7 | 22.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 37 (0.660) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 49 (0.790) | 9 (0.160) | 9/266 | 7.6 | 18.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 38 (0.680) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4542690 | 83 (1.330) | 3 (0.050) | 3/280 | 11.8 | 3.8% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 72 (1.230) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 80 (1.280) | 3 (0.050) | 3/280 | 11.8 | 3.9% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 73 (1.240) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4038589 = | 24 (0.380) | 4 (0.070) +AAA |
3/292 | 12.2 | 14.5% | noncoding (1071/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon |
| ? | NC_000913 | 4038886 = | NA (NA) | noncoding (1368/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 3944774 = | NA (NA) | 4 (0.070) +AAA |
3/292 | 12.2 | NA | noncoding (1071/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | 3945072 = | NA (NA) | noncoding (1369/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | 226829 = | 3 (0.050) | 4 (0.070) +AAA |
3/292 | 12.2 | 57.6% | noncoding (1071/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 227127 = | NA (NA) | noncoding (1369/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||