mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 25 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,171,857 | 0 | A | T | 25.1% | 308.4 / 124.5 | 175 | intergenic (+24/+22) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 3,171,863 | 0 | A | G | 25.1% | 282.9 / 112.2 | 180 | intergenic (+30/+16) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 3,946,246 | 0 | G | A | 25.0% | 277.4 / 90.4 | 160 | noncoding (2543/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| * | NC_000913 | 3,171,858 | 0 | A | T | 24.7% | 318.1 / 124.4 | 175 | intergenic (+25/+21) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 3,171,852 | 0 | C | T | 24.3% | 318.8 / 103.7 | 181 | intergenic (+19/+27) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 4,520,504 | 1 | . | T | 24.2% | 398.7 / 179.6 | 161 | intergenic (‑180/+167) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 24.0% | 531.8 / 161.7 | 294 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,674,958 | 0 | A | T | 23.9% | 321.3 / 104.3 | 163 | intergenic (+11/+14) | tqsA/pntB | pheromone AI‑2 transporter/pyridine nucleotide transhydrogenase, beta subunit |
| * | NC_000913 | 1,674,955 | 0 | A | T | 23.3% | 310.1 / 101.7 | 163 | intergenic (+8/+17) | tqsA/pntB | pheromone AI‑2 transporter/pyridine nucleotide transhydrogenase, beta subunit |
| * | NC_000913 | 4,520,500 | 0 | A | . | 23.3% | 427.2 / 138.0 | 166 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 1,764,687 | 0 | T | C | 23.0% | 282.1 / 86.8 | 162 | intergenic (‑301/+26) | sufA/rydB | Fe‑S cluster assembly protein/novel sRNA, function unknown |
| * | NC_000913 | 1,764,701 | 0 | G | A | 21.9% | 298.2 / 82.2 | 160 | intergenic (‑315/+12) | sufA/rydB | Fe‑S cluster assembly protein/novel sRNA, function unknown |
| * | NC_000913 | 3,407,293 | 0 | T | A | 21.4% | 368.2 / 95.9 | 173 | intergenic (+27/‑82) | accC/yhdT | acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein |
| * | NC_000913 | 3,181,298 | 0 | A | T | 21.0% | 329.6 / 83.4 | 157 | H293L (CAT→CTT) | ygiC | ATP‑Grasp family ATPase |
| * | NC_000913 | 3,407,295 | 0 | T | A | 20.9% | 371.9 / 95.2 | 173 | intergenic (+29/‑80) | accC/yhdT | acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein |
| * | NC_000913 | 2,081,688 | 0 | A | T | 20.9% | 327.6 / 88.2 | 158 | I287N (ATT→AAT) | dacD | D‑alanyl‑D‑alanine carboxypeptidase; penicillin‑binding protein 6b |
| * | NC_000913 | 2,032,336 | 0 | G | C | 20.9% | 367.8 / 91.6 | 163 | intergenic (‑19/+48) | dcm/yedJ | DNA cytosine methyltransferase/putative HD superfamily phosphohydrolase |
| * | NC_000913 | 2,142,505 | 0 | G | C | 20.8% | 380.3 / 98.2 | 168 | R148R (CGC→CGG) | udk | uridine/cytidine kinase |
| * | NC_000913 | 3,407,294 | 0 | T | A | 20.8% | 379.7 / 94.9 | 173 | intergenic (+28/‑81) | accC/yhdT | acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein |
| * | NC_000913 | 4,472,437 | 0 | T | C | 20.8% | 295.4 / 76.0 | 159 | N33D (AAT→GAT) | pyrL | pyrBI operon leader peptide |
| Marginal new junction evidence (lowest skew 10 of 1290 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1468681 | NA (NA) | 111 (1.350) +44 bp |
12/108 | 9.2 | NA | noncoding (560/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 1650843 = | NA (NA) | noncoding (1/706 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4171607 | 33 (0.220) | 112 (0.800) | 21/184 | 11.9 | 78.3% | intergenic (+63/‑30) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4213022 | NA (NA) | intergenic (+76/‑18) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | = 3946688 | 149 (1.000) | 111 (0.790) | 21/184 | 11.9 | 44.2% | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4171601 | NA (NA) | intergenic (+57/‑36) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | 2726200 = | NA (NA) | 111 (0.790) | 21/184 | 11.9 | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 228744 | 58 (0.390) | 111 (0.790) | 21/184 | 11.9 | 67.1% | intergenic (+82/‑12) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 2304902 | NA (NA) | 36 (0.360) +33 bp |
11/130 | 12.2 | NA | noncoding (486/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | = 2305065 | NA (NA) | noncoding (649/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | 225078 = | NA (NA) | 76 (0.550) | 17/182 | 13.6 | NA | noncoding (1308/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225100 = | NA (NA) | noncoding (1330/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 2066832 | 0 (0.000) | 52 (0.380) | 16/178 | 13.8 | 100% | noncoding (522/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 2066857 | NA (NA) | noncoding (497/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 3941442 = | 153 (1.020) | 24 (0.280) +41 bp |
6/114 | 13.9 | 21.3% | intergenic (‑115/‑366) | yieP/rrsC | putative transcriptional regulator/16S ribosomal RNA of rrnC operon |
| ? | NC_000913 | 4035099 = | 152 (1.020) | coding (492/546 nt) | hemG | protoporphyrin oxidase, flavoprotein | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 76 (0.540) | 17/186 | 13.9 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||