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 | 4,296,060 | 0 | C | T | 40.8% | 77.1 / 171.0 | 156 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 422,429 | 0 | T | G | 25.7% | 181.2 / 10.3 | 102 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 225,465 | 0 | A | C | 25.0% | 35.4 / 15.5 | 36 | intergenic (+8/‑35) | ileV/alaV | tRNA‑Ile/tRNA‑Ala |
| * | NC_000913 | 1,286,965 | 0 | A | G | 24.1% | 27.9 / 11.3 | 34 | intergenic (+439/+101) | narI/rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| * | NC_000913 | 225,466 | 0 | C | G | 22.2% | 54.8 / 18.1 | 37 | intergenic (+9/‑34) | ileV/alaV | tRNA‑Ile/tRNA‑Ala |
| * | NC_000913 | 225,467 | 0 | G | T | 21.6% | 50.4 / 16.1 | 37 | intergenic (+10/‑33) | ileV/alaV | tRNA‑Ile/tRNA‑Ala |
| Marginal new junction evidence (lowest skew 10 of 299 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 68 (0.490) | 20 (0.160) | 19/266 | 6.0 | 21.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 85 (0.690) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 75 (0.540) | 15 (0.120) | 15/266 | 7.0 | 16.4% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 86 (0.700) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4542690 | 158 (1.150) | 12 (0.090) | 11/280 | 8.5 | 7.5% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 148 (1.140) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 162 (1.180) | 11 (0.090) | 9/280 | 9.2 | 6.8% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 149 (1.150) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 316201 | NA (NA) | 10 (0.080) | 8/280 | 9.6 | NA | noncoding (973/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 316220 | NA (NA) | noncoding (992/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 3943624 | NA (NA) | 14 (0.110) | 8/284 | 9.7 | 14.9% | intergenic (+114/‑80) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037457 | 84 (0.610) | intergenic (+122/‑62) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2788660 = | 115 (0.840) | 8 (0.060) | 7/276 | 10.0 | 6.9% | intergenic (+11/‑325) | ygaQ/csiD | uncharacterized protein; putative enzyme/carbon starvation protein |
| ? | NC_000913 | 2788688 = | 109 (0.860) | intergenic (+39/‑297) | ygaQ/csiD | uncharacterized protein; putative enzyme/carbon starvation protein | |||||
| * | ? | NC_000913 | 3453931 = | 164 (1.190) | 8 (0.060) | 7/282 | 10.1 | 5.0% | coding (1468/1470 nt) | gspA | general secretory pathway component, cryptic |
| ? | NC_000913 | 3453962 = | 152 (1.170) | coding (1437/1470 nt) | gspA | general secretory pathway component, cryptic | |||||
| * | ? | NC_000913 | = 331646 | 158 (1.150) | 7 (0.050) | 7/280 | 10.1 | 4.6% | intergenic (+150/‑725) | betT/yahA | choline transporter of high affinity/c‑di‑GMP‑specific phosphodiesterase |
| ? | NC_000913 | = 331653 | 141 (1.090) | intergenic (+157/‑718) | betT/yahA | choline transporter of high affinity/c‑di‑GMP‑specific phosphodiesterase | |||||
| * | ? | NC_000913 | = 3943624 | NA (NA) | 13 (0.100) | 7/284 | 10.2 | 15.4% | intergenic (+114/‑80) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 3943642 | 75 (0.540) | intergenic (+132/‑62) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||