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 430 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 226,310 | 0 | T | G | 74.6% | 17.4 / 209.4 | 248 | noncoding (552/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,309 | 0 | G | A | 74.5% | 18.4 / 187.1 | 248 | noncoding (551/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,308 | 0 | C | T | 74.0% | 14.3 / 193.4 | 250 | noncoding (550/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,305 | 0 | A | . | 73.7% | ‑2.9 / inf | 251 | noncoding (547/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,307 | 0 | G | T | 73.7% | 6.4 / 231.5 | 251 | noncoding (549/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,299 | 0 | A | C | 72.9% | ‑0.4 / 221.4 | 255 | noncoding (541/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,301 | 0 | G | A | 72.9% | ‑3.1 / 219.5 | 255 | noncoding (543/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,278 | 0 | G | A | 72.4% | 10.7 / 194.8 | 221 | noncoding (520/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,280 | 0 | A | G | 72.1% | 12.0 / 180.2 | 222 | noncoding (522/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,262 | 0 | A | T | 71.8% | 11.4 / 178.2 | 188 | noncoding (504/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,248 | 0 | C | A | 71.3% | 24.1 / 144.9 | 150 | noncoding (490/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,354 | 0 | T | A | 70.7% | 45.5 / 138.5 | 140 | noncoding (596/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,357 | 0 | A | G | 67.8% | 59.3 / 114.8 | 121 | noncoding (599/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,371 | 0 | A | T | 63.4% | 71.4 / 110.6 | 93 | noncoding (613/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,363 | 0 | G | C | 63.1% | 83.3 / 135.4 | 103 | noncoding (605/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,378 | 0 | G | T | 62.8% | 69.6 / 110.8 | 88 | noncoding (620/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,392 | 0 | C | G | 62.7% | 68.0 / 101.8 | 75 | noncoding (634/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,381 | 0 | C | G | 62.4% | 76.7 / 120.2 | 86 | noncoding (623/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,384 | 0 | A | T | 61.0% | 74.7 / 104.3 | 77 | noncoding (626/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| * | NC_000913 | 226,387 | 0 | G | C | 61.0% | 71.6 / 103.9 | 77 | noncoding (629/2904 nt) | rrlH | 23S ribosomal RNA of rrnH 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 | 34 (0.520) | 21 (0.360) | 20/266 | 4.2 | 41.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 29 (0.490) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 3941911 = | 28 (0.430) | 129 (2.420) +28 bp |
17/242 | 4.3 | 85.0% | noncoding (104/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4035599 | NA (NA) | noncoding (69/1542 nt) | rrsA | 16S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 3941876 | NA (NA) | 129 (2.420) +28 bp |
17/242 | 4.3 | 85.0% | noncoding (69/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon |
| ? | NC_000913 | 3941911 = | 28 (0.430) | noncoding (104/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | = 223839 | 22 (0.330) | 129 (2.420) +28 bp |
17/242 | 4.3 | 86.4% | noncoding (69/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 3941911 = | 28 (0.430) | noncoding (104/1542 nt) | rrsC | 16S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | = 366402 | 87 (1.320) | 8 (0.130) +AATTCGGATCT |
8/276 | 9.1 | 10.4% | intergenic (‑97/+26) | lacZ/lacI | beta‑D‑galactosidase/lactose‑inducible lac operon transcriptional repressor |
| ? | NC_000913 | 2822617 = | 62 (0.940) | coding (23/501 nt) | recX | regulatory protein for RecA | |||||
| * | ? | NC_000913 | 4542682 = | 77 (1.170) | 3 (0.050) | 3/280 | 12.6 | 4.0% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 72 (1.170) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||