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 | 39.5% | 63.5 / 64.5 | 129 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 161,056 | 0 | C | G | 35.4% | 69.0 / 14.1 | 48 | intergenic (+35/‑161) | hrpB/mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| * | CP009273 | 2,178,908 | 0 | T | G | 31.8% | 155.8 / 39.4 | 107 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 838,672 | 0 | G | T | 27.1% | 231.8 / 36.6 | 144 | M295I (ATG→ATT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 104,042 | 0 | A | T | 25.0% | 167.4 / 18.2 | 66 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 1,160,002 | 0 | A | T | 25.0% | 173.7 / 17.9 | 89 | D151V (GAT→GTT) | nagZ | beta N‑acetyl‑glucosaminidase |
| * | CP009273 | 1,159,998 | 0 | A | T | 24.5% | 221.6 / 15.9 | 99 | I150F (ATT→TTT) | nagZ | beta N‑acetyl‑glucosaminidase |
| * | CP009273 | 838,658 | 0 | G | T | 23.9% | 245.0 / 31.8 | 142 | A291S (GCC→TCC) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 2,463,951 | 0 | G | T | 23.5% | 128.7 / 18.7 | 68 | intergenic (+10/‑343) | gtrS/tfaS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage/pseudogene, CPS‑53 (KpLE1) prophage; tail fiber assembly protein fragment;Phage or Prophage Related |
| * | CP009273 | 1,159,992 | 0 | C | G | 23.1% | 232.2 / 21.3 | 104 | R148G (CGG→GGG) | nagZ | beta N‑acetyl‑glucosaminidase |
| * | CP009273 | 2,475,299 | 0 | C | A | 22.7% | 166.5 / 12.1 | 97 | M119I (ATG→ATT) | emrY | putative multidrug efflux system |
| * | CP009273 | 2,222,692 | 0 | G | C | 22.7% | 177.1 / 26.1 | 75 | intergenic (+148/+225) | yohP/dusC | uncharacterized protein/tRNA‑dihydrouridine synthase C |
| * | CP009273 | 4,402,596 | 0 | T | G | 22.4% | 293.6 / 14.5 | 125 | V131V (GTT→GTG) | yjfM | DUF1190 family protein |
| * | CP009273 | 2,404,742 | 0 | A | C | 21.3% | 244.3 / 23.3 | 109 | A30A (GCT→GCG) | yfbS | putative transporter |
| * | CP009273 | 104,041 | 0 | G | T | 21.2% | 120.7 / 12.5 | 66 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 2,998,305 | 0 | G | T | 21.2% | 207.6 / 14.8 | 118 | Q281K (CAA→AAA) | ygeV | putative sigma‑54‑interacting transcriptional activator |
| * | CP009273 | 763,412 | 0 | C | A | 21.1% | 183.6 / 15.1 | 104 | P658Q (CCA→CAA) | mngA | fused 2‑O‑a‑mannosyl‑D‑glycerate specific PTS enzymes: IIA component/IIB component/IIC component |
| * | CP009273 | 2,998,333 | 0 | T | A | 20.6% | 255.9 / 20.4 | 109 | Q271H (CAA→CAT) | ygeV | putative sigma‑54‑interacting transcriptional activator |
| * | CP009273 | 1,828,727 | 0 | G | C | 20.3% | 312.8 / 13.3 | 119 | E119Q (GAA→CAA) | ydjY | putative ferrodoxin‑like lipoprotein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 1203246 = | 114 (0.830) | 14 (0.120) | 13/236 | 4.5 | 11.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 123 (1.020) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 96 (0.700) | 14 (0.120) | 7/236 | 6.6 | 12.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 121 (1.000) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 4532507 | 56 (0.410) | 9 (0.070) | 5/250 | 7.9 | 11.4% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 88 (0.690) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 231227 | 118 (0.860) | 3 (0.020) | 3/262 | 9.4 | 2.0% | coding (43/756 nt) | gloB | hydroxyacylglutathione hydrolase |
| ? | CP009273 | = 231407 | 172 (1.290) | coding (105/723 nt) | yafS | putative S‑adenosyl‑L‑methionine‑dependent methyltransferase | |||||
| * | ? | CP009273 | = 2499497 | 165 (1.210) | 5 (0.040) | 3/268 | 9.5 | 2.9% | coding (615/1086 nt) | ypdF | Xaa‑Pro aminopeptidase |
| ? | CP009273 | 2499502 = | 169 (1.230) | coding (610/1086 nt) | ypdF | Xaa‑Pro aminopeptidase | |||||
| * | ? | CP009273 | = 522219 | 228 (1.670) | 3 (0.020) | 3/266 | 9.5 | 1.5% | coding (3503/4281 nt) | rhsD | Rhs family putative polymorphic toxin |
| ? | CP009273 | 1720793 = | 155 (1.140) | coding (514/600 nt) | nemR | transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated | |||||
| * | ? | CP009273 | 445436 = | 130 (0.950) | 3 (0.020) | 3/264 | 9.5 | 1.9% | coding (662/1992 nt) | cyoB | cytochrome o ubiquinol oxidase subunit I |
| ? | CP009273 | = 4395707 | 187 (1.390) | coding (1204/1299 nt) | purA | adenylosuccinate synthetase | |||||