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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,756,563 | 0 | A | G | 26.7% | 42.3 / 16.8 | 30 | intergenic (‑52/+113) | aldB/yiaY | aldehyde dehydrogenase B/L‑threonine dehydrogenase |
| * | NC_000913 | 3,470,106 | 0 | C | T | 26.3% | 66.9 / 21.7 | 38 | intergenic (‑253/+39) | chiA/tufA | periplasmic endochitinase/translation elongation factor EF‑Tu 1 |
| * | NC_000913 | 2,268,132 | 0 | C | G | 25.9% | 49.3 / 18.8 | 27 | L102V (CTC→GTC) ‡ | yeiR | Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein |
| * | NC_000913 | 2,268,133 | 0 | T | A | 25.9% | 43.9 / 15.6 | 27 | L102H (CTC→CAC) ‡ | yeiR | Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein |
| * | NC_000913 | 2,268,134 | 0 | C | G | 25.9% | 49.2 / 19.0 | 27 | L102L (CTC→CTG) ‡ | yeiR | Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein |
| * | NC_000913 | 3,756,564 | 0 | T | A | 25.0% | 56.4 / 15.5 | 32 | intergenic (‑53/+112) | aldB/yiaY | aldehyde dehydrogenase B/L‑threonine dehydrogenase |
| * | NC_000913 | 3,756,565 | 0 | C | T | 25.0% | 54.7 / 15.0 | 32 | intergenic (‑54/+111) | aldB/yiaY | aldehyde dehydrogenase B/L‑threonine dehydrogenase |
| * | NC_000913 | 3,470,108 | 0 | A | C | 24.4% | 74.0 / 24.3 | 41 | intergenic (‑255/+37) | chiA/tufA | periplasmic endochitinase/translation elongation factor EF‑Tu 1 |
| * | NC_000913 | 3,470,109 | 0 | A | G | 24.4% | 76.3 / 21.5 | 41 | intergenic (‑256/+36) | chiA/tufA | periplasmic endochitinase/translation elongation factor EF‑Tu 1 |
| * | NC_000913 | 4,296,060 | 0 | C | T | 23.9% | 74.6 / 24.5 | 46 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,470,107 | 0 | G | T | 23.3% | 98.9 / 24.1 | 43 | intergenic (‑254/+38) | chiA/tufA | periplasmic endochitinase/translation elongation factor EF‑Tu 1 |
| * | NC_000913 | 2,121,583 | 0 | G | . | 22.2% | 45.3 / 10.4 | 18 | intergenic (‑29/+26) | wcaJ/cpsG | colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase |
| * | NC_000913 | 3,959,515 | 0 | T | A | 21.6% | 75.2 / 16.8 | 37 | intergenic (+70/+17) | ilvC/ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| * | NC_000913 | 289,256 | 0 | G | C | 20.7% | 63.1 / 14.3 | 29 | intergenic (‑94/+45) | yagI/argF | CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage |
| * | NC_000913 | 289,257 | 0 | T | A | 20.7% | 46.4 / 11.6 | 29 | intergenic (‑95/+44) | yagI/argF | CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage |
| * | NC_000913 | 2,121,588 | 1 | . | C | 20.0% | 46.4 / 15.4 | 20 | intergenic (‑34/+21) | wcaJ/cpsG | colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase |
| * | NC_000913 | 2,255,991 | 0 | A | T | 20.0% | 62.7 / 11.9 | 30 | K213* (AAA→TAA) | yeiL | putative transcriptional regulator |
| * | NC_000913 | 3,747,168 | 1 | . | C | 20.0% | 45.2 / 15.6 | 20 | coding (85/1497 nt) | lyxK | L‑xylulose kinase |
| Marginal new junction evidence (lowest skew 10 of 53 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4168341 | 13 (0.370) | 7 (0.220) | 6/220 | 3.4 | 40.1% | intergenic (+141/‑31) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | = 4168363 | 9 (0.280) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 2729443 = | 22 (0.620) | 7 (0.220) | 6/220 | 3.4 | 31.0% | noncoding (2/76 nt) | gltW | tRNA‑Glu |
| ? | NC_000913 | = 4168331 | 11 (0.340) | intergenic (+131/‑41) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 2909839 = | 27 (0.760) | 5 (0.150) | 5/224 | 3.8 | 18.1% | intergenic (‑173/+55) | pyrG/mazG | CTP synthetase/nucleoside triphosphate pyrophosphohydrolase |
| ? | NC_000913 | 2909881 = | 20 (0.610) | intergenic (‑215/+13) | pyrG/mazG | CTP synthetase/nucleoside triphosphate pyrophosphohydrolase | |||||
| * | ? | NC_000913 | 1553942 = | 56 (1.590) | 5 (0.150) | 5/222 | 3.8 | 8.9% | intergenic (‑104/+30) | adhP/maeA | ethanol‑active dehydrogenase/acetaldehyde‑active reductase/malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme |
| ? | NC_000913 | 1553966 = | 50 (1.530) | intergenic (‑128/+6) | adhP/maeA | ethanol‑active dehydrogenase/acetaldehyde‑active reductase/malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme | |||||
| * | ? | NC_000913 | 3993706 = | 43 (1.220) | 5 (0.150) | 5/226 | 3.9 | 10.3% | intergenic (+7/+33) | cyaA/cyaY | adenylate cyclase/iron‑dependent inhibitor of iron‑sulfur cluster formation; frataxin; iron‑binding and oxidizing protein |
| ? | NC_000913 | 3993732 = | 47 (1.410) | intergenic (+33/+7) | cyaA/cyaY | adenylate cyclase/iron‑dependent inhibitor of iron‑sulfur cluster formation; frataxin; iron‑binding and oxidizing protein | |||||
| * | ? | NC_000913 | = 1572380 | 29 (0.820) | 5 (0.150) | 5/230 | 3.9 | 15.2% | intergenic (‑335/+27) | gadB/pqqL | glutamate decarboxylase B, PLP‑dependent/putative periplasmic M16 family zinc metalloendopeptidase |
| ? | NC_000913 | = 1572395 | 28 (0.830) | intergenic (‑350/+12) | gadB/pqqL | glutamate decarboxylase B, PLP‑dependent/putative periplasmic M16 family zinc metalloendopeptidase | |||||
| * | ? | NC_000913 | 4543430 = | 37 (1.050) | 4 (0.120) | 4/222 | 4.2 | 9.5% | coding (316/549 nt) | fimA | major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4543484 = | 42 (1.290) | coding (370/549 nt) | fimA | major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 2078529 | 54 (1.530) | 4 (0.120) | 4/220 | 4.2 | 7.8% | intergenic (+422/+20) | yeeW/yoeD | CP4‑44 prophage; uncharacterized protein;Phage or Prophage Related/pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related |
| ? | NC_000913 | = 2078541 | 45 (1.390) | intergenic (+434/+8) | yeeW/yoeD | CP4‑44 prophage; uncharacterized protein;Phage or Prophage Related/pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1948571 | 40 (1.130) | 4 (0.120) | 4/222 | 4.2 | 9.9% | coding (62/453 nt) | nudB | dihydroneopterin triphosphate pyrophosphatase |
| ? | NC_000913 | = 1948599 | 36 (1.100) | coding (34/453 nt) | nudB | dihydroneopterin triphosphate pyrophosphatase | |||||
| * | ? | NC_000913 | 690829 = | 43 (1.220) | 4 (0.120) | 4/222 | 4.2 | 8.9% | coding (53/1539 nt) | lnt | apolipoprotein N‑acyltransferase |
| ? | NC_000913 | 690860 = | 42 (1.290) | coding (22/1539 nt) | lnt | apolipoprotein N‑acyltransferase | |||||