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 |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 2,719,426 | T→C | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 3,877,923 | A→G | Q24R (CAG→CGG) | rnpA → | protein C5 component of RNase P |
| RA | 4,019,993 | Δ1 bp | coding (107/702 nt) | fre → | NAD(P)H‑flavin reductase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 463842 | 464276 | 435 | 3 [0] | [1] 7 | ybaO | putative DNA‑binding transcriptional regulator |
| * | * | ÷ | CP009273 | 578973 | 579034 | 62 | 2 [0] | [0] 4 | tfaX/appY | pseudogene, DLP12 prophage;Phage or Prophage Related/global transcriptional activator; DLP12 prophage |
| * | * | ÷ | CP009273 | 2027291 | 2027378 | 88 | 2 [0] | [0] 2 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein |
| * | * | ÷ | CP009273 | 2051019 | 2051066 | 48 | 5 [1] | [1] 2 | [yeeN] | [yeeN] |
| * | * | ÷ | CP009273 | 2622970 | 2623016 | 47 | 3 [1] | [1] 2 | yfgG/yfgH | uncharacterized protein/outer membrane integrity lipoprotein |
| * | * | ÷ | CP009273 | 3448782 | 3448837 | 56 | 2 [1] | [0] 2 | gspA/gspC | general secretory pathway component, cryptic/general secretory pathway component, cryptic |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 142981 = | 32 (0.540) | 11 (0.190) | 3/268 | 2.6 | 27.2% | coding (201/381 nt) | panD | aspartate 1‑decarboxylase |
| ? | CP009273 | = 188163 | 27 (0.460) | coding (820/852 nt) | tsf | translation elongation factor EF‑Ts | |||||
| * | ? | CP009273 | 360104 = | 106 (1.790) | 131 (2.210) | 51/268 | 0.0 | 55.3% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | NA (NA) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | 1203246 = | 21 (0.350) | 14 (0.270) | 11/236 | 1.1 | 49.6% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 10 (0.190) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 21 (0.350) | 15 (0.290) | 13/236 | 0.9 | 51.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 10 (0.190) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1972769 = | 6 (0.100) | 37 (0.630) | 21/266 | 0.5 | 86.1% | intergenic (‑315/‑465) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | 3576788 = | NA (NA) | intergenic (+10/‑55) | yrhA/insA | pseudogene, interrupted by IS1E/IS1 repressor TnpA | |||||
| * | ? | CP009273 | = 1972777 | 6 (0.100) | 30 (0.510) | 22/268 | 0.5 | 83.3% | intergenic (‑323/‑457) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E | |||||