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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 2,170,734 | 0 | G | T | 35.5% | 65.0 / 28.9 | 62 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 1,859,025 | 0 | T | C | 23.1% | 140.7 / 44.6 | 79 | intergenic (+34/+14) | yeaD/yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| * | CP009273 | 1,859,020 | 0 | A | T | 22.8% | 154.3 / 38.6 | 81 | intergenic (+29/+19) | yeaD/yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| * | CP009273 | 2,632,624 | 0 | C | G | 22.6% | 211.5 / 13.4 | 85 | E7Q (GAA→CAA) | yfgM | putative anti‑RcsB factor |
| * | CP009273 | 418,995 | 0 | T | G | 22.5% | 144.0 / 10.7 | 71 | L341R (CTG→CGG) | malZ | maltodextrin glucosidase |
| * | CP009273 | 1,382,542 | 0 | A | G | 22.4% | 193.7 / 56.1 | 98 | intergenic (+24/+20) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | CP009273 | 1,382,541 | 0 | A | T | 22.2% | 197.3 / 55.5 | 99 | intergenic (+23/+21) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | CP009273 | 2,792,308 | 0 | A | T | 21.9% | 150.5 / 38.7 | 73 | intergenic (‑454/‑215) | stpA/alaE | DNA binding protein, nucleoid‑associated/alanine exporter, alanine‑inducible, stress‑responsive |
| * | CP009273 | 2,792,309 | 0 | A | T | 21.9% | 151.5 / 36.8 | 73 | intergenic (‑455/‑214) | stpA/alaE | DNA binding protein, nucleoid‑associated/alanine exporter, alanine‑inducible, stress‑responsive |
| * | CP009273 | 3,997,395 | 0 | G | C | 21.9% | 157.5 / 13.7 | 64 | F48L (TTC→TTG) | rarD | putative chloramphenical resistance permease |
| * | CP009273 | 2,792,305 | 0 | A | T | 21.6% | 152.8 / 38.1 | 74 | intergenic (‑451/‑218) | stpA/alaE | DNA binding protein, nucleoid‑associated/alanine exporter, alanine‑inducible, stress‑responsive |
| * | CP009273 | 1,382,540 | 0 | C | T | 21.6% | 215.9 / 55.3 | 102 | intergenic (+22/+22) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | CP009273 | 2,792,312 | 0 | A | T | 21.3% | 154.8 / 38.5 | 75 | intergenic (‑458/‑211) | stpA/alaE | DNA binding protein, nucleoid‑associated/alanine exporter, alanine‑inducible, stress‑responsive |
| * | CP009273 | 2,178,908 | 0 | T | G | 20.6% | 135.2 / 15.3 | 63 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 1,546,513 | 0 | G | A | 20.5% | 181.0 / 37.5 | 80 | intergenic (+265/+142) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | CP009273 | 1,859,015 | 0 | G | A | 20.2% | 172.4 / 36.9 | 79 | intergenic (+24/+24) | yeaD/yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| * | CP009273 | 4,402,598 | 0 | C | G | 20.2% | 207.7 / 17.8 | 87 | S132C (TCT→TGT) | yjfM | DUF1190 family protein |
| * | CP009273 | 1,546,514 | 0 | C | A | 20.0% | 192.1 / 34.8 | 80 | intergenic (+266/+141) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| Marginal new junction evidence (lowest skew 10 of 280 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 2721617 = | NA (NA) | 50 (0.510) | 32/262 | 3.2 | NA | noncoding (927/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | CP009273 | 2721695 = | NA (NA) | noncoding (849/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | CP009273 | 270078 = | NA (NA) | 32 (0.320) | 24/266 | 4.6 | NA | noncoding (783/1195 nt) | IS5 | repeat region |
| ? | CP009273 | 270216 = | NA (NA) | noncoding (11/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | = 1391083 | NA (NA) | 31 (0.310) | 23/266 | 4.8 | 32.4% | coding (751/1017 nt) | insH1 | IS5 transposase and trans‑activator |
| ? | CP009273 | 1422407 = | 67 (0.650) | noncoding (645/1196 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 2060047 = | 28 (0.270) | 30 (0.300) | 22/266 | 5.0 | 52.6% | noncoding (788/1195 nt) | IS5 | repeat region |
| ? | CP009273 | 2095785 = | NA (NA) | noncoding (640/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 1422407 = | 67 (0.650) | 29 (0.290) | 21/266 | 5.2 | 39.8% | noncoding (645/1196 nt) | IS5 | repeat region |
| ? | CP009273 | 2060052 = | 23 (0.230) | noncoding (783/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | = 377120 | NA (NA) | 24 (0.240) | 21/268 | 5.3 | NA | coding (314/366 nt) | insC1 | IS2 repressor TnpA |
| ? | CP009273 | = 377215 | NA (NA) | coding (86/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | = 135200 | 119 (1.200) | 24 (0.240) | 20/264 | 5.4 | 16.8% | noncoding (15/98 nt) | RIP10 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP10 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | = 135263 | NA (NA) | noncoding (78/98 nt) | RIP10 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP10 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | = 2060348 | 6 (0.060) | 27 (0.260) | 21/276 | 5.5 | 81.8% | noncoding (487/1195 nt) | IS5 | repeat region |
| ? | CP009273 | = 2095893 | NA (NA) | noncoding (532/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | = 270329 | NA (NA) | 27 (0.260) | 21/276 | 5.5 | NA | noncoding (124/335 nt) | IS911 | repeat region |
| ? | CP009273 | = 270374 | NA (NA) | noncoding (169/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | 377428 = | NA (NA) | 25 (0.250) | 19/266 | 5.7 | NA | coding (299/906 nt) | insD1 | IS2 transposase TnpB |
| ? | CP009273 | 377513 = | NA (NA) | coding (384/906 nt) | insD1 | IS2 transposase TnpB | |||||