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 mutation | |||||
|---|---|---|---|---|---|
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 1494295 | 1494386 | 92 | 3 [1] | [2] 3 | ydcK | uncharacterized protein |
| * | * | ÷ | CP009273 | 2027296 | 2027378 | 83 | 4 [1] | [2] 3 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein |
| * | * | ÷ | CP009273 | 2623000 | 2623029 | 30 | 7 [0] | [2] 3 | yfgG/yfgH | uncharacterized protein/outer membrane integrity lipoprotein |
| * | * | ÷ | CP009273 | 3432085 | 3432510 | 426 | 6 [0] | [2] 3 | [zntR]–[yhdN] | [zntR],[yhdN] |
| * | * | ÷ | CP009273 | 3448800 | 3448839 | 40 | 4 [0] | [2] 4 | gspA/gspC | general secretory pathway component, cryptic/general secretory pathway component, cryptic |
| * | * | ÷ | CP009273 | 3649836 | 3649887 | 52 | 3 [0] | [2] 4 | hdeA | stress response protein acid‑resistance protein |
| * | * | ÷ | CP009273 | 3745314 | 3745341 | 28 | 3 [2] | [2] 3 | yiaT/yiaU | putative outer membrane protein/putative DNA‑binding transcriptional regulator |
| * | * | ÷ | CP009273 | 3763056 | 3763194 | 139 | 4 [2] | [2] 3 | [yibV] | [yibV] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 266559 = | NA (NA) | 3 (0.090) | 3/268 | 2.2 | NA | coding (246/1152 nt) | insI1 | IS30 transposase |
| ? | CP009273 | 266621 = | NA (NA) | coding (308/1152 nt) | insI1 | IS30 transposase | |||||
| * | ? | CP009273 | 360104 = | 29 (0.920) | 24 (0.760) | 15/268 | 0.4 | 45.3% | 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 | 370386 = | NA (NA) | 7 (0.310) | 4/194 | 1.4 | 26.5% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372878 = | 21 (0.850) | noncoding (88/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 370386 = | NA (NA) | 13 (0.610) | 6/182 | 0.9 | 33.8% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372978 = | 28 (1.190) | intergenic (+211/+13) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | = 1046001 | 41 (1.300) | 17 (0.540) | 14/268 | 0.5 | 42.5% | intergenic (+15/+418) | insB1/cspH | IS1 transposase B/stress protein, member of the CspA‑family |
| ? | CP009273 | = 1972861 | 5 (0.160) | intergenic (‑407/‑373) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | 1203246 = | 7 (0.220) | 9 (0.320) | 8/236 | 0.9 | 52.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 10 (0.360) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 7 (0.220) | 11 (0.400) | 8/236 | 0.9 | 57.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 10 (0.360) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1972854 = | 3 (0.090) | 18 (0.570) | 11/268 | 0.7 | 85.7% | intergenic (‑400/‑380) | 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 | 4363113 = | 42 (1.420) | 21 (0.720) | 3/248 | 2.1 | 33.5% | 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 | |||||