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 | 39.4% | 88.6 / 62.6 | 137 | 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 | 37.2% | 128.7 / 26.2 | 94 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 4,402,596 | 0 | T | G | 32.4% | 125.1 / 11.4 | 71 | V131V (GTT→GTG) | yjfM | DUF1190 family protein |
| * | CP009273 | 104,042 | 0 | A | T | 29.1% | 205.5 / 36.3 | 88 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 2,463,951 | 0 | G | T | 27.8% | 77.2 / 19.3 | 54 | 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 | 4,402,598 | 0 | C | G | 27.1% | 143.2 / 19.2 | 71 | S132C (TCT→TGT) | yjfM | DUF1190 family protein |
| * | CP009273 | 2,170,724 | 0 | G | T | 25.6% | 157.7 / 17.9 | 135 | intergenic (‑41/+267) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 104,033 | 0 | T | G | 24.2% | 209.2 / 10.5 | 91 | intergenic (+72/‑159) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 104,041 | 0 | G | T | 23.9% | 172.9 / 18.1 | 92 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 838,652 | 0 | T | G | 23.8% | 262.4 / 10.6 | 122 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 1203261 | 106 (0.700) | 30 (0.220) | 19/238 | 3.4 | 24.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 90 (0.670) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 360286 | NA (NA) | 5 (0.030) +AATTC |
4/260 | 9.0 | 3.2% | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | 3416618 = | 155 (1.020) | intergenic (+65/+164) | yhdZ/rrfF | putative amino‑acid transporter subunit/5S ribosomal RNA of rrnD operon | |||||
| * | ? | CP009273 | = 569728 | 159 (1.040) | 4 (0.030) | 4/270 | 9.2 | 2.4% | coding (317/384 nt) | quuD | DLP12 prophage; putative antitermination protein |
| ? | CP009273 | 569734 = | 166 (1.090) | coding (323/384 nt) | quuD | DLP12 prophage; putative antitermination protein | |||||
| * | ? | CP009273 | 4385920 = | 169 (1.110) | 3 (0.020) | 3/250 | 9.4 | 1.9% | coding (39/1338 nt) | amiB | N‑acetylmuramoyl‑l‑alanine amidase II |
| ? | CP009273 | = 4385916 | 151 (1.070) | coding (35/1338 nt) | amiB | N‑acetylmuramoyl‑l‑alanine amidase II | |||||
| * | ? | CP009273 | 634507 = | 177 (1.160) | 3 (0.020) | 3/252 | 9.4 | 1.8% | coding (107/564 nt) | ahpC | alkyl hydroperoxide reductase, C22 subunit |
| ? | CP009273 | = 634503 | 169 (1.190) | coding (103/564 nt) | ahpC | alkyl hydroperoxide reductase, C22 subunit | |||||
| * | ? | CP009273 | 4285781 = | 221 (1.450) | 12 (0.080) +TT |
3/266 | 9.7 | 5.2% | noncoding (59/530 nt) | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | = 4286230 | NA (NA) | noncoding (508/530 nt) | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | CP009273 | 2966252 = | 146 (0.960) | 3 (0.020) | 3/264 | 9.7 | 1.8% | coding (970/1194 nt) | lplT | lysophospholipid transporter |
| ? | CP009273 | = 2966558 | 191 (1.280) | coding (664/1194 nt) | lplT | lysophospholipid transporter | |||||
| * | ? | CP009273 | 2327283 = | 106 (0.700) | 3 (0.020) | 3/264 | 9.7 | 2.3% | pseudogene (599/4605 nt) | yfaS | pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein |
| ? | CP009273 | 2328185 = | 156 (1.050) | coding (254/624 nt) | yfaT | DUF1175 family protein, putative host defense protein | |||||
| * | ? | CP009273 | = 511756 | 137 (0.900) | 3 (0.020) | 3/266 | 9.7 | 1.9% | coding (382/678 nt) | fetA | iron exporter, ATP‑binding subunit, ABC transporter FetAB subunit; peroxide resistance protein |
| ? | CP009273 | = 1173163 | 167 (1.110) | coding (388/1245 nt) | lolE | lipoprotein‑releasing system transmembrane protein | |||||
| * | ? | CP009273 | = 293407 | 160 (1.050) | 3 (0.020) | 3/266 | 9.7 | 1.8% | pseudogene (24/339 nt) | yagP | pseudogene, LysR family, fragment;putative regulator; Not classified; putative transcriptional regulator LYSR‑type |
| ? | CP009273 | = 3119367 | 163 (1.090) | coding (515/1053 nt) | glcE | glycolate oxidase FAD binding subunit | |||||