mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
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 | 3,781,140 | 0 | A | G | 24.7% | 145.6 / 10.9 | 73 | intergenic (+123/‑75) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,781,152 | 0 | A | G | 22.7% | 139.9 / 14.3 | 76 | intergenic (+135/‑63) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| Marginal new junction evidence (lowest skew 10 of 93 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 225685 | 105 (1.150) | 10 (0.120) | 10/186 | 8.6 | 9.2% | intergenic (+110/‑74) | alaV/rrlH | tRNA‑Ala/23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 3943636 | NA (NA) | intergenic (+126/‑68) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | 1207790 = | 83 (0.910) | 8 (0.100) | 7/166 | 9.2 | 8.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 103 (1.340) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 225685 | 105 (1.150) | 8 (0.090) | 8/186 | 9.5 | 7.5% | intergenic (+110/‑74) | alaV/rrlH | tRNA‑Ala/23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 3426842 = | NA (NA) | intergenic (‑59/+116) | rrlD/alaU | 23S ribosomal RNA of rrnD operon/tRNA‑Ala | |||||
| * | ? | NC_000913 | = 2464223 | 109 (1.190) | 6 (0.080) | 6/172 | 10.0 | 6.0% | intergenic (+153/+29) | yfdF/mlaA | uncharacterized protein/ABC transporter maintaining OM lipid asymmetry, OM lipoprotein component |
| ? | NC_000913 | = 2464229 | 94 (1.180) | intergenic (+159/+23) | yfdF/mlaA | uncharacterized protein/ABC transporter maintaining OM lipid asymmetry, OM lipoprotein component | |||||
| * | ? | NC_000913 | 474269 = | NA (NA) | 7 (0.080) | 7/186 | 10.1 | NA | intergenic (+17/+32) | amtB/tesB | ammonium transporter/acyl‑CoA thioesterase 2 |
| ? | NC_000913 | 474296 = | NA (NA) | intergenic (+44/+5) | amtB/tesB | ammonium transporter/acyl‑CoA thioesterase 2 | |||||
| * | ? | NC_000913 | = 182326 | 80 (0.870) | 6 (0.070) | 6/178 | 10.3 | 7.5% | intergenic (+18/‑137) | degP/cdaR | serine endoprotease (protease Do), membrane‑associated/carbohydrate diacid regulon transcriptional regulator; autoregulator |
| ? | NC_000913 | = 182334 | 76 (0.920) | intergenic (+26/‑129) | degP/cdaR | serine endoprotease (protease Do), membrane‑associated/carbohydrate diacid regulon transcriptional regulator; autoregulator | |||||
| * | ? | NC_000913 | 1453108 = | 94 (1.030) | 6 (0.070) | 6/184 | 10.5 | 6.4% | coding (535/2046 nt) | paaZ | oxepin‑CoA hydrolase and 3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase |
| ? | NC_000913 | 1453130 = | 89 (1.050) | coding (513/2046 nt) | paaZ | oxepin‑CoA hydrolase and 3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase | |||||
| * | ? | NC_000913 | = 3377767 | 86 (0.940) | 6 (0.070) | 5/176 | 10.8 | 7.7% | intergenic (‑347/+48) | sspA/rpsI | stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog/30S ribosomal subunit protein S9 |
| ? | NC_000913 | = 3377771 | 68 (0.840) | intergenic (‑351/+44) | sspA/rpsI | stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog/30S ribosomal subunit protein S9 | |||||
| * | ? | NC_000913 | = 375319 | NA (NA) | 5 (0.070) +CTACAAATTCCCGCGCCAT |
4/160 | 10.8 | 7.5% | noncoding (390/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 508782 = | 76 (0.830) | noncoding (201/236 nt) | REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences | |||||
| * | ? | NC_000913 | = 375218 | 63 (0.690) | 5 (0.070) +CTACAAATTCCCGCGCCAT |
4/160 | 10.8 | 8.2% | noncoding (289/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 508782 = | 76 (0.830) | noncoding (201/236 nt) | REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences | |||||