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 | 2,399,955 | C→A | E56* (GAA→TAA) | lrhA ← | transcriptional repressor of flagellar, motility and chemotaxis genes |
| RA | 4,177,142 | A→G | D622G (GAC→GGC) | rpoC → | RNA polymerase, beta prime subunit |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 1205059 | 1205074 | 16 | 48 [0] | [0] 47 | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |
| * | * | ÷ | CP009273 | 2027310 | 2027418 | 109 | 7 [5] | [5] 6 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein |
| * | * | ÷ | CP009273 | 2050977 | 2051112 | 136 | 8 [3] | [3] 7 | [yeeN] | [yeeN] |
| * | * | ÷ | CP009273 | 2208341 | 2209104 | 764 | 6 [2] | [5] 8 | mlrA | mlrA |
| * | * | ÷ | CP009273 | 3745182 | 3745366 | 185 | 7 [5] | [5] 6 | [yiaT]–[yiaU] | [yiaT],[yiaU] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 270027 | NA (NA) | 3 (0.090) +C |
3/268 | 2.9 | NA | noncoding (834/1195 nt) | IS5 | repeat region |
| ? | CP009273 | 270044 = | NA (NA) | noncoding (817/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 360104 = | 23 (0.680) | 37 (1.100) | 22/270 | 0.2 | 61.7% | 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 | 370378 = | NA (NA) | 3 (0.090) | 3/254 | 2.8 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | CP009273 | 372785 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | 1203246 = | 3 (0.090) | 37 (1.250) | 24/238 | 0.1 | 96.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 0 (0.000) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 3 (0.090) | 46 (1.550) | 25/238 | 0.1 | 97.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 0 (0.000) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 4363113 = | 39 (1.240) | 14 (0.450) | 3/250 | 2.7 | 26.6% | intergenic (+134/+69) | yjeI/yjeJ | DUF4156 family lipoprotein/uncharacterized protein |
| ? | CP009273 | 4364315 = | NA (NA) | noncoding (1/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||