mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | 1,209,420 | 0 | C | G | 56.0% | ‑0.7 / 22.4 | 26 | pseudogene (200/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |
| * | NC_000913 | 1,527,602 | 0 | G | C | 40.9% | 26.8 / 16.6 | 22 | intergenic (+450/‑300) | yncH/rhsE | IPR020099 family protein/pseudogene, Rhs family |
| * | NC_000913 | 86,365 | 0 | G | C | 40.0% | 13.8 / 11.1 | 20 | A246P (GCG→CCG) | ilvI | acetolactate synthase 3 large subunit |
| * | NC_000913 | 2,253,023 | 0 | C | G | 38.1% | 27.4 / 12.6 | 21 | A375P (GCG→CCG) | nupX | nucleoside permease |
| * | NC_000913 | 2,879,536 | 0 | C | G | 37.0% | 43.6 / 12.8 | 28 | G79G (GGG→GGC) | ygbT | multifunctional endonuclease Cas1, CRISPR adaptation protein; DNA repair enzyme |
| * | NC_000913 | 1,135,975 | 0 | G | C | 36.0% | 28.8 / 18.8 | 25 | A138P (GCC→CCC) | flgH | flagellar protein of basal‑body outer‑membrane L ring |
| * | NC_000913 | 1,041,386 | 0 | G | C | 35.7% | 41.5 / 11.6 | 28 | G257A (GGA→GCA) | appA | phosphoanhydride phosphorylase |
| * | NC_000913 | 1,984,188 | 0 | C | G | 33.3% | 37.9 / 13.0 | 24 | G294G (GGG→GGC) | araG | L‑arabinose ABC transporter ATPase |
| * | NC_000913 | 4,338,130 | 0 | G | C | 33.3% | 12.9 / 10.3 | 12 | intergenic (‑201/+124) | adiY/adiA | adi system transcriptional activator/arginine decarboxylase |
| * | NC_000913 | 1,081,353 | 0 | G | C | 32.1% | 47.9 / 10.6 | 28 | intergenic (+540/‑3) | putP/efeU | proline:sodium symporter/ferrous iron permease (pseudogene) |
| * | NC_000913 | 3,593,309 | 0 | C | G | 30.8% | 48.7 / 10.9 | 26 | G43G (GGG→GGC) | livF | branched‑chain amino acid ABC transporter ATPase |
| * | NC_000913 | 516,893 | 0 | G | C | 30.3% | 53.3 / 16.1 | 34 | G104A (GGA→GCA) | fetB | iron export ABC transporter permease; peroxide resistance protein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 30.0% | 74.0 / 40.9 | 51 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,164,132 | 0 | G | C | 29.4% | 38.3 / 15.4 | 35 | G165A (GGA→GCA) | btuB | vitamin B12/cobalamin outer membrane transporter |
| * | NC_000913 | 391,701 | 0 | G | C | 28.9% | 81.1 / 11.2 | 39 | pseudogene (1451/1458 nt) | yaiT | pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein |
| * | NC_000913 | 1,618,075 | 0 | G | C | 28.1% | 60.8 / 10.3 | 32 | A350P (GCG→CCG) | ydeA | arabinose efflux transporter, arabinose‑inducible |
| * | NC_000913 | 34,508 | 0 | G | C | 27.3% | 39.6 / 10.5 | 22 | G70A (GGA→GCA) | caiF | cai operon transcriptional activator |
| 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 | 1207790 = | 28 (0.990) | 4 (0.190) | 4/100 | 1.6 | 14.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 26 (1.220) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1828864 = | 15 (0.530) | 3 (0.120) | 3/114 | 2.2 | 19.4% | coding (871/1479 nt) | astD | succinylglutamic semialdehyde dehydrogenase |
| ? | NC_000913 | 1828903 = | 12 (0.490) | coding (832/1479 nt) | astD | succinylglutamic semialdehyde dehydrogenase | |||||
| * | ? | NC_000913 | 523984 = | 23 (0.810) | 3 (0.120) | 3/116 | 2.3 | 12.2% | coding (724/4281 nt) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 524076 = | 23 (0.930) | coding (816/4281 nt) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||