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 | 1,425,572 | 0 | C | A | 58.2% | 119.7 / 170.3 | 146 | T756K (ACA→AAA) | stfR | Rac prophage; putative tail fiber protein |
| * | CP009273 | 2,170,734 | 0 | G | T | 35.4% | 132.0 / 83.8 | 181 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,178,908 | 0 | T | G | 34.8% | 224.7 / 62.5 | 161 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 2,463,951 | 0 | G | T | 33.3% | 110.3 / 30.2 | 72 | 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 | 2,463,923 | 0 | T | A | 28.6% | 129.8 / 16.7 | 63 | N438K (AAT→AAA) | gtrS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| * | CP009273 | 772,664 | 0 | A | C | 24.1% | 207.7 / 10.2 | 108 | K289N (AAA→AAC) | tolA | membrane anchored protein in TolA‑TolQ‑TolR complex |
| * | CP009273 | 357,022 | 0 | C | A | 23.7% | 275.4 / 15.0 | 153 | E184* (GAA→TAA) | lacA | thiogalactoside acetyltransferase |
| * | CP009273 | 104,041 | 0 | G | T | 23.3% | 239.5 / 30.6 | 116 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 68,486 | 0 | T | G | 22.9% | 377.6 / 20.8 | 188 | L217V (TTG→GTG) | yabI | DedA family inner membrane protein |
| * | CP009273 | 838,652 | 0 | T | G | 22.2% | 364.1 / 11.5 | 162 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 3,997,395 | 0 | G | C | 20.8% | 430.5 / 14.4 | 169 | F48L (TTC→TTG) | rarD | putative chloramphenical resistance permease |
| Marginal new junction evidence (lowest skew 10 of 20 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 1716873 = | 183 (0.930) | 6 (0.030) | 5/248 | 9.5 | 3.4% | coding (496/2013 nt) | ydhK | putative efflux protein (PET) component of YdhJK efflux pump |
| ? | CP009273 | = 1716869 | 173 (0.960) | coding (492/2013 nt) | ydhK | putative efflux protein (PET) component of YdhJK efflux pump | |||||
| * | ? | CP009273 | 3781255 = | 208 (1.060) | 7 (0.040) | 4/250 | 10.2 | 3.5% | coding (1058/1260 nt) | envC | activator of AmiB,C murein hydrolases, septal ring factor |
| ? | CP009273 | = 3781251 | 189 (1.040) | coding (1054/1260 nt) | envC | activator of AmiB,C murein hydrolases, septal ring factor | |||||
| * | ? | CP009273 | = 776088 | 256 (1.300) | 3 (0.020) | 3/228 | 10.3 | 1.7% | intergenic (+3/‑133) | lysT/valT | tRNA‑Lys/tRNA‑Val |
| ? | CP009273 | 776780 = | 140 (0.840) | intergenic (+102/‑45) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys | |||||
| * | ? | CP009273 | = 360286 | NA (NA) | 4 (0.020) +AATTC |
4/260 | 10.4 | 1.9% | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | 3416618 = | 214 (1.090) | intergenic (+65/+164) | yhdZ/rrfF | putative amino‑acid transporter subunit/5S ribosomal RNA of rrnD operon | |||||
| * | ? | CP009273 | = 4532507 | 134 (0.680) | 4 (0.020) | 3/252 | 10.9 | 2.9% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 145 (0.790) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4532499 = | 149 (0.760) | 3 (0.020) | 3/252 | 10.9 | 2.1% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 145 (0.790) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4385920 = | 193 (0.980) | 3 (0.020) | 3/250 | 10.9 | 1.7% | coding (39/1338 nt) | amiB | N‑acetylmuramoyl‑l‑alanine amidase II |
| ? | CP009273 | = 4385916 | 170 (0.930) | coding (35/1338 nt) | amiB | N‑acetylmuramoyl‑l‑alanine amidase II | |||||
| * | ? | CP009273 | = 2211634 | 163 (0.830) | 3 (0.020) | 3/264 | 11.2 | 1.4% | coding (403/1158 nt) | yehY | inner membrane putative ABC superfamily transporter permease |
| ? | CP009273 | = 2651796 | 273 (1.420) | coding (499/1851 nt) | hscA | DnaK‑like molecular chaperone specific for IscU | |||||
| * | ? | CP009273 | = 3998821 | 166 (0.840) | 3 (0.020) | 3/266 | 11.3 | 1.5% | coding (600/870 nt) | pldA | outer membrane phospholipase A |
| ? | CP009273 | = 4280183 | 229 (1.180) | coding (448/672 nt) | nrfC | formate‑dependent nitrite reductase, 4Fe4S subunit | |||||
| * | ? | CP009273 | 3645775 = | NA (NA) | 3 (0.020) | 3/268 | 11.3 | 2.0% | noncoding (816/1195 nt) | IS5 | repeat region |
| ? | CP009273 | = 4270888 | 149 (0.760) | coding (981/1650 nt) | yjcE | putative cation/proton antiporter | |||||