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 99 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,705,985 | 0 | T | C | 49.6% | 164.6 / inf | 341 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,984 | 0 | T | G | 49.4% | 203.1 / inf | 341 | intergenic (‑194/+114) | 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 | 44.1% | 361.7 / inf | 330 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,017 | 0 | C | T | 40.8% | 318.4 / inf | 320 | intergenic (‑227/+81) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,378,929 | 0 | A | G | 39.2% | 96.9 / 163.0 | 148 | S357P (TCA→CCA) | zapE | divisome ATPase |
| * | NC_000913 | 3,705,970 | 0 | G | A | 37.9% | 336.0 / 282.5 | 264 | intergenic (‑180/+128) | 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 | 37.9% | 409.5 / 316.6 | 264 | intergenic (‑181/+127) | 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 | 37.0% | 414.8 / inf | 341 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 4,128,358 | 0 | G | A | 32.2% | 192.3 / 126.7 | 155 | A13V (GCT→GTT) | metJ | transcriptional repressor, S‑adenosylmethionine‑binding |
| * | NC_000913 | 3,706,028 | 0 | T | C | 26.7% | 499.0 / 218.9 | 324 | intergenic (‑238/+70) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,029 | 0 | T | C | 26.3% | 513.6 / 204.1 | 324 | intergenic (‑239/+69) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,790,300 | 0 | A | T | 25.3% | 318.0 / 128.8 | 179 | intergenic (‑219/+20) | waaH/tdh | LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| * | NC_000913 | 3,706,025 | 0 | A | G | 25.1% | 530.7 / 195.2 | 326 | intergenic (‑235/+73) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,446,362 | 0 | A | . | 25.0% | 341.3 / 119.0 | 132 | intergenic (+156/+16) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | NC_000913 | 2,814,175 | 0 | T | A | 25.0% | 345.7 / 123.3 | 181 | intergenic (+21/+43) | emrB/luxS | multidrug efflux system protein/S‑ribosylhomocysteine lyase |
| * | NC_000913 | 3,790,303 | 0 | A | T | 24.9% | 338.8 / 126.4 | 181 | intergenic (‑222/+17) | waaH/tdh | LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| * | NC_000913 | 2,814,174 | 0 | T | A | 24.3% | 353.7 / 124.9 | 181 | intergenic (+20/+44) | emrB/luxS | multidrug efflux system protein/S‑ribosylhomocysteine lyase |
| * | NC_000913 | 3,067,320 | 0 | A | T | 24.2% | 249.0 / 90.1 | 132 | intergenic (‑147/+20) | ygfI/yggE | putative DNA‑binding transcriptional regulator/oxidative stress defense protein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 23.9% | 496.6 / 150.0 | 270 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,888,219 | 0 | T | A | 23.8% | 294.5 / 99.6 | 151 | intergenic (+27/‑216) | mnmE/tnaC | tRNA U34 5‑methylaminomethyl‑2‑thiouridine modification GTPase/tryptophanase leader peptide |
| Marginal new junction evidence (lowest skew 10 of 512 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 225078 = | NA (NA) | 85 (0.590) | 30/184 | 9.5 | 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 | 1207790 = | 133 (0.860) | 26 (0.200) | 23/166 | 10.6 | 20.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 96 (0.750) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 98 (0.670) | 26/188 | 11.2 | 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 | = 1468681 | NA (NA) | 93 (1.100) +44 bp |
10/110 | 11.5 | NA | noncoding (560/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 1650843 = | NA (NA) | noncoding (1/706 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2728214 = | NA (NA) | 82 (0.560) | 24/190 | 12.2 | NA | noncoding (971/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 226707 | 0 (0.000) | 82 (0.560) | 24/190 | 12.2 | 100% | noncoding (949/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 226725 | NA (NA) | noncoding (967/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 224957 = | NA (NA) | 106 (0.730) | 23/186 | 12.3 | NA | noncoding (1187/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 224974 = | NA (NA) | noncoding (1204/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 55 (0.380) | 21/184 | 13.0 | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4168341 | 33 (0.210) | 27 (0.200) | 18/178 | 13.9 | 47.7% | intergenic (+141/‑31) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | = 4168363 | NA (NA) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | = 225998 | NA (NA) | 38 (0.260) | 20/190 | 13.9 | NA | noncoding (240/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 226015 | NA (NA) | noncoding (257/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||