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_3_pae_pgi | 526,796 | 0 | C | G | 29.8% | 336.9 / 187.4 | 188 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,792 | 0 | A | C | 29.5% | 278.3 / 175.1 | 193 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 4,295,320 | 0 | C | T | 25.4% | 311.5 / 122.3 | 182 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_pgi | 526,800 | 0 | A | G | 23.7% | 343.2 / 103.0 | 177 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 3,428,678 | 0 | A | T | 20.7% | 56.9 / 14.6 | 29 | noncoding (85/1542 nt) | rrsD | 16S ribosomal RNA of rrnD operon |
| * | NC_000913_3_pae_pgi | 3,428,679 | 0 | A | T | 20.7% | 54.9 / 13.8 | 29 | noncoding (84/1542 nt) | rrsD | 16S ribosomal RNA of rrnD operon |
| Marginal new junction evidence (lowest skew 10 of 302 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | = 4541950 | 165 (1.120) | 32 (0.230) | 30/250 | 9.3 | 16.9% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_pae_pgi | = 4542246 | 161 (1.170) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_pae_pgi | 2726200 = | NA (NA) | 51 (0.360) | 30/256 | 9.6 | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_pae_pgi | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_pae_pgi | = 228744 | 97 (0.660) | 50 (0.360) | 29/256 | 9.9 | 35.1% | intergenic (+82/‑12) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_pgi | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_pae_pgi | = 225281 | NA (NA) | 44 (0.310) | 28/258 | 10.3 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_pgi | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_pgi | 3423823 = | NA (NA) | 48 (0.340) | 27/256 | 10.5 | 24.4% | intergenic (‑36/+57) | rrfD/rrlD | 5S ribosomal RNA of rrnD operon/23S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_pae_pgi | = 3946688 | 156 (1.060) | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913_3_pae_pgi | = 1207805 | 121 (0.820) | 24 (0.190) | 23/236 | 10.9 | 18.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | = 1209602 | 105 (0.810) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | 4541942 = | 151 (1.020) | 28 (0.200) | 24/250 | 11.3 | 15.6% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_pae_pgi | 4542256 = | 162 (1.180) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_pae_pgi | 1207790 = | 124 (0.840) | 24 (0.190) | 20/236 | 12.1 | 18.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | 1209619 = | 108 (0.830) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | 659191 = | 143 (0.970) | 20 (0.150) | 18/242 | 13.3 | 14.3% | intergenic (+41/+60) | tatE/lipA | TatABCE protein translocation system subunit/lipoate synthase |
| ? | NC_000913_3_pae_pgi | 659221 = | 110 (0.830) | intergenic (+71/+30) | tatE/lipA | TatABCE protein translocation system subunit/lipoate synthase | |||||
| * | ? | NC_000913_3_pae_pgi | = 3376260 | 146 (0.990) | 23 (0.170) | 18/244 | 13.4 | 14.9% | intergenic (+24/+19) | dcuD/sspB | putative transporter/ClpXP protease specificity enhancing factor |
| ? | NC_000913_3_pae_pgi | = 3376265 | 130 (0.970) | intergenic (+29/+14) | dcuD/sspB | putative transporter/ClpXP protease specificity enhancing factor | |||||