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 (highest frequency 20 of 32 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,705,984 | 0 | T | G | 39.5% | 279.1 / 305.1 | 218 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,985 | 0 | T | C | 39.5% | 248.8 / 258.8 | 218 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,048 | 0 | G | T | 34.1% | 383.1 / 223.1 | 222 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,971 | 0 | C | A | 32.4% | 353.1 / 169.8 | 174 | intergenic (‑181/+127) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,970 | 0 | G | A | 31.6% | 296.0 / 149.4 | 174 | intergenic (‑180/+128) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.5% | 276.9 / 124.1 | 166 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,706,017 | 0 | C | T | 29.1% | 351.2 / 154.6 | 217 | intergenic (‑227/+81) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,978 | 0 | A | C | 28.3% | 370.8 / 192.2 | 220 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,781,152 | 0 | A | G | 26.4% | 152.2 / 21.9 | 87 | intergenic (+135/‑63) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 4,520,500 | 0 | A | . | 22.6% | 340.2 / 99.8 | 124 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 3,891,502 | 0 | C | G | 22.6% | 305.2 / 86.6 | 133 | intergenic (+19/‑113) | tnaB/mdtL | tryptophan transporter of low affinity/multidrug efflux system protein |
| * | NC_000913 | 4,520,504 | 1 | . | T | 22.4% | 334.9 / 124.3 | 125 | intergenic (‑180/+167) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 3,471,366 | 0 | A | G | 21.8% | 223.9 / 56.6 | 110 | intergenic (‑37/+34) | tufA/fusA | translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding |
| * | NC_000913 | 3,781,140 | 0 | A | G | 21.6% | 186.4 / 11.0 | 89 | intergenic (+123/‑75) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,832,188 | 0 | A | T | 21.6% | 210.5 / 59.7 | 102 | intergenic (+22/+31) | yicH/yicI | putative inner membrane‑anchored periplasmic AsmA family protein/putative alpha‑glucosidase |
| * | NC_000913 | 1,446,362 | 0 | A | . | 21.5% | 254.9 / 70.5 | 93 | intergenic (+156/+16) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | NC_000913 | 857,578 | 0 | C | G | 21.2% | 292.6 / 76.3 | 119 | intergenic (+23/+218) | ybiT/ybiU | ABC‑F family putative regulatory ATPase/DUF1479 family protein |
| * | NC_000913 | 857,580 | 0 | G | A | 21.2% | 250.3 / 60.0 | 118 | intergenic (+25/+216) | ybiT/ybiU | ABC‑F family putative regulatory ATPase/DUF1479 family protein |
| * | NC_000913 | 3,706,028 | 0 | T | C | 21.1% | 429.1 / 112.6 | 218 | intergenic (‑238/+70) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 857,576 | 0 | T | C | 20.8% | 248.6 / 63.0 | 120 | intergenic (+21/+220) | ybiT/ybiU | ABC‑F family putative regulatory ATPase/DUF1479 family protein |
| Marginal new junction evidence (lowest skew 10 of 1014 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1468681 | NA (NA) | 77 (1.290) +44 bp |
12/110 | 6.6 | NA | noncoding (560/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 1650843 = | NA (NA) | noncoding (1/706 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 3943635 | NA (NA) | 36 (0.360) | 21/184 | 8.2 | 70.8% | intergenic (+125/‑69) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037446 | 16 (0.150) | intergenic (+111/‑73) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 55 (0.530) | 21/188 | 8.5 | 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 | |||||
| * | ? | NC_000913 | = 225895 | NA (NA) | 52 (0.520) | 20/184 | 8.6 | NA | noncoding (137/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225899 | NA (NA) | noncoding (141/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225685 | 131 (1.200) | 34 (0.330) | 20/186 | 8.7 | 21.7% | 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 | 225889 = | NA (NA) | 34 (0.340) | 19/184 | 9.0 | NA | noncoding (131/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225907 = | NA (NA) | noncoding (149/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 225078 = | NA (NA) | 38 (0.380) | 19/184 | 9.0 | 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 | = 3946688 | 109 (1.000) | 69 (0.680) | 19/186 | 9.1 | 40.3% | 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) | 69 (0.680) | 19/186 | 9.1 | 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 | = 274419 | NA (NA) | 82 (0.790) | 19/188 | 9.2 | NA | noncoding (731/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274423 | NA (NA) | noncoding (727/1195 nt) | IS5 | repeat region | |||||