mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 178 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,476,211 | 0 | T | G | 68.1% | 69.6 / 43.3 | 47 | V357G (GTT→GGT) | ynbD | phosphatase PAP2/dual specificity phosphatase family protein |
| * | NZ_CP009273 | 1,946,825 | 0 | T | C | 65.6% | 46.6 / 65.3 | 62 | R101R (CGT→CGC) | yecN | MAPEG family protein |
| * | NZ_CP009273 | 1,499,763 | 0 | A | C | 65.4% | 71.6 / 58.0 | 52 | V192G (GTT→GGT) | ydcO | BenE family transporter YdcO |
| * | NZ_CP009273 | 1,875,331 | 0 | A | G | 65.2% | 46.4 / 41.5 | 46 | W246R (TGG→CGG) | dmlR | DNA‑binding transcriptional regulator DmlR |
| * | NZ_CP009273 | 2,069,503 | 0 | A | G | 64.1% | 69.8 / 106.2 | 92 | E415G (GAA→GGA) | BW25113_RS10450 | hypothetical protein |
| * | NZ_CP009273 | 1,716,587 | 0 | A | G | 63.9% | 44.4 / 70.7 | 61 | G70G (GGA→GGG) | ydhK | FUSC family protein |
| * | NZ_CP009273 | 1,505,565 | 0 | A | C | 62.1% | 83.5 / 75.9 | 66 | N436H (AAC→CAC) | ydcR | PLP‑dependent aminotransferase family protein |
| * | NZ_CP009273 | 1,498,073 | 0 | A | G | 60.3% | 32.2 / 72.3 | 58 | K54E (AAA→GAA) | insQ | RNA‑guided endonuclease TnpB family protein |
| * | NZ_CP009273 | 2,014,700 | 0 | T | G | 60.3% | 61.9 / 86.3 | 68 | G44G (GGT→GGG) | fliN | flagellar motor switch protein FliN |
| * | NZ_CP009273 | 1,763,701 | 0 | A | G | 58.8% | 43.1 / 88.4 | 68 | Y124C (TAT→TGT) | ydiK | AI‑2E family transporter YdiK |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 58.3% | ‑3.4 / 32.2 | 36 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 1,841,672 | 0 | A | G | 57.1% | 27.5 / 83.1 | 63 | H198H (CAT→CAC) | selD | selenide, water dikinase SelD |
| * | NZ_CP009273 | 1,762,852 | 0 | T | C | 56.1% | 15.0 / 119.0 | 82 | T31A (ACG→GCG) | ydiJ | FAD‑binding and (Fe‑S)‑binding domain‑containing protein |
| * | NZ_CP009273 | 1,436,853 | 0 | T | C | 53.0% | ‑5.4 / 131.1 | 83 | D83G (GAC→GGC) | ldhA | D‑lactate dehydrogenase |
| * | NZ_CP009273 | 2,026,694 | 0 | A | G | 52.5% | ‑4.0 / 92.3 | 61 | V63A (GTC→GCC) | drpB | cell division protein DrpB |
| * | NZ_CP009273 | 1,456,689 | 0 | T | G | 51.3% | 11.8 / 129.9 | 76 | V103G (GTC→GGC) | paaF | phenylacetate‑‑CoA ligase |
| * | NZ_CP009273 | 1,942,149 | 0 | T | C | 51.2% | ‑6.6 / 132.9 | 82 | Y87C (TAC→TGC) | yebC | YebC/PmpR family DNA‑binding transcriptional regulator |
| * | NZ_CP009273 | 595,032 | 0 | T | G | 51.1% | 50.8 / 75.7 | 47 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 1,931,867 | 0 | T | C | 50.8% | ‑4.6 / 98.0 | 63 | intergenic (+89/‑39) | hexR/pyk | DNA‑binding transcriptional regulator HexR/pyruvate kinase |
| * | NZ_CP009273 | 2,095,295 | 0 | A | G | 50.8% | ‑0.8 / 99.8 | 63 | intergenic (‑65/+81) | wbbL/BW25113_RS10605 | N‑acetylglucosaminyl‑diphospho‑decaprenol L‑rhamnosyltransferase WbbL/IS5‑like element IS5 family transposase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 1046002 | 76 (1.190) | 6 (0.090) | 6/238 | 4.4 | 7.5% | intergenic (+16/+417) | BW25113_RS05135/cspH | IS1‑like element IS1D family transposase/cold shock‑like protein CspH |
| ? | NZ_CP009273 | 3370649 = | 73 (1.150) | coding (131/639 nt) | sspA | stringent starvation protein A | |||||
| * | ? | NZ_CP009273 | 19796 = | NA (NA) | 6 (0.090) | 6/240 | 4.4 | 7.6% | intergenic (‑1/+15) | BW25113_RS25960/BW25113_RS00100 | fimbrial family protein/IS1‑like element IS1A family transposase |
| ? | NZ_CP009273 | 3370648 = | 73 (1.140) | coding (132/639 nt) | sspA | stringent starvation protein A | |||||
| * | ? | NZ_CP009273 | 4532499 = | 24 (0.380) | 5 (0.080) | 5/222 | 4.5 | 12.6% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 47 (0.800) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | 757572 = | 44 (0.690) | 3 (0.050) | 3/212 | 5.2 | 6.0% | coding (595/1218 nt) | odhB | 2‑oxoglutarate dehydrogenase complex dihydrolipoyllysine‑residue succinyltransferase |
| ? | NZ_CP009273 | 757796 = | 56 (0.990) | coding (819/1218 nt) | odhB | 2‑oxoglutarate dehydrogenase complex dihydrolipoyllysine‑residue succinyltransferase | |||||
| * | ? | NZ_CP009273 | = 4532507 | 24 (0.380) | 3 (0.050) | 3/222 | 5.4 | 8.0% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 47 (0.800) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 3333655 | 63 (0.990) | 3 (0.050) | 3/222 | 5.4 | 4.9% | coding (22/978 nt) | yrbG | calcium/sodium antiporter |
| ? | NZ_CP009273 | = 3333682 | 58 (0.980) | coding (49/978 nt) | yrbG | calcium/sodium antiporter | |||||
| * | ? | NZ_CP009273 | 3214079 = | 68 (1.070) | 3 (0.050) | 3/220 | 5.4 | 5.2% | coding (1227/1380 nt) | ygjG | putrescine aminotransferase |
| ? | NZ_CP009273 | 3214204 = | 46 (0.790) | coding (1352/1380 nt) | ygjG | putrescine aminotransferase | |||||
| * | ? | NZ_CP009273 | = 604808 | 58 (0.910) | 3 (0.050) | 3/230 | 5.5 | 5.6% | intergenic (+175/+107) | BW25113_RS03025/entD | IS4‑like element IS421 family transposase/enterobactin synthase subunit EntD |
| ? | NZ_CP009273 | = 2369309 | 45 (0.740) | coding (133/963 nt) | menC | o‑succinylbenzoate synthase | |||||
| * | ? | NZ_CP009273 | = 4591405 | 60 (0.940) | 3 (0.050) | 3/238 | 5.6 | 4.7% | intergenic (‑71/+36) | dnaT/yjjB | primosomal protein DnaT/threonine/serine exporter |
| ? | NZ_CP009273 | 4591410 = | 61 (0.960) | intergenic (‑76/+31) | dnaT/yjjB | primosomal protein DnaT/threonine/serine exporter | |||||
| * | ? | NZ_CP009273 | 286345 = | NA (NA) | 3 (0.050) | 3/240 | 5.7 | 3.9% | intergenic (+2/+15) | BW25113_RS23270/BW25113_RS01405 | YfjI family protein/IS1‑like element IS1B family transposase |
| ? | NZ_CP009273 | 3370648 = | 73 (1.140) | coding (132/639 nt) | sspA | stringent starvation protein A | |||||