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 | 41.2% | 37.0 / 89.5 | 131 | 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 | 34.3% | 46.0 / 12.0 | 35 | intergenic (+35/‑161) | hrpB/mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| * | CP009273 | 838,652 | 0 | T | G | 28.7% | 169.1 / 27.4 | 101 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 4,402,598 | 0 | C | G | 28.2% | 192.9 / 13.0 | 79 | S132C (TCT→TGT) | yjfM | DUF1190 family protein |
| * | CP009273 | 2,178,908 | 0 | T | G | 26.6% | 167.3 / 15.9 | 94 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 4,402,596 | 0 | T | G | 26.6% | 161.9 / 11.8 | 79 | V131V (GTT→GTG) | yjfM | DUF1190 family protein |
| * | CP009273 | 2,170,746 | 0 | C | A | 24.6% | 226.5 / 26.7 | 144 | intergenic (‑63/+245) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,463,951 | 0 | G | T | 24.1% | 105.9 / 19.2 | 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 | 3,901,874 | 0 | A | T | 24.0% | 239.1 / 13.0 | 100 | intergenic (‑148/+35) | pstB/pstA | phosphate transporter subunit/phosphate transporter subunit |
| * | CP009273 | 104,042 | 0 | A | T | 23.5% | 220.3 / 28.5 | 87 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 104,041 | 0 | G | T | 23.3% | 163.0 / 34.2 | 90 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 838,658 | 0 | G | T | 21.8% | 186.6 / 14.3 | 101 | A291S (GCC→TCC) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 68,486 | 0 | T | G | 20.6% | 199.7 / 11.9 | 97 | L217V (TTG→GTG) | yabI | DedA family inner membrane protein |
| * | CP009273 | 2,170,713 | 0 | C | A | 20.0% | 146.1 / 12.1 | 124 | intergenic (‑30/+278) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,170,766 | 0 | C | A | 20.0% | 288.7 / 20.8 | 135 | intergenic (‑83/+225) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 101848 = | 134 (1.100) | 5 (0.050) | 3/244 | 8.7 | 4.1% | coding (57/1152 nt) | ftsZ | GTP‑binding tubulin‑like cell division protein |
| ? | CP009273 | = 101844 | 114 (1.030) | coding (53/1152 nt) | ftsZ | GTP‑binding tubulin‑like cell division protein | |||||
| * | ? | CP009273 | 2964396 = | 117 (0.960) | 3 (0.030) | 3/260 | 9.1 | 2.4% | coding (618/714 nt) | ygdQ | UPF0053 family inner membrane protein |
| ? | CP009273 | 4226551 = | 128 (1.080) | coding (362/639 nt) | yjbF | extracellular polysaccharide production lipoprotein | |||||
| * | ? | CP009273 | 2655667 = | NA (NA) | 34 (0.290) | 3/262 | 9.1 | NA | intergenic (‑177/+275) | iscR/trmJ | isc operon transcriptional repressor; suf operon transcriptional activator; oxidative stress‑ and iron starvation‑inducible; autorepressor/tRNA mC32,mU32 2'‑O‑methyltransferase, SAM‑dependent |
| ? | CP009273 | = 2655939 | NA (NA) | intergenic (‑449/+3) | iscR/trmJ | isc operon transcriptional repressor; suf operon transcriptional activator; oxidative stress‑ and iron starvation‑inducible; autorepressor/tRNA mC32,mU32 2'‑O‑methyltransferase, SAM‑dependent | |||||
| * | ? | CP009273 | = 2523584 | 106 (0.870) | 3 (0.030) | 3/262 | 9.1 | 3.1% | intergenic (‑49/+22) | ligA/zipA | DNA ligase, NAD(+)‑dependent/FtsZ stabilizer |
| ? | CP009273 | = 3715389 | 81 (0.680) | coding (832/852 nt) | insK | IS150 transposase B | |||||
| * | ? | CP009273 | = 678087 | 110 (0.900) | 3 (0.030) | 3/262 | 9.1 | 2.7% | coding (763/1671 nt) | hscC | Hsp70 family chaperone Hsc62, binds to RpoD and inhibits transcription |
| ? | CP009273 | 678094 = | 108 (0.910) | coding (756/1671 nt) | hscC | Hsp70 family chaperone Hsc62, binds to RpoD and inhibits transcription | |||||
| * | ? | CP009273 | = 210462 | 111 (0.910) | 3 (0.030) | 3/262 | 9.1 | 2.7% | coding (151/201 nt) | yaeP | UPF0253 family protein |
| ? | CP009273 | 4204531 = | 105 (0.880) | coding (324/930 nt) | metA | homoserine O‑transsuccinylase | |||||
| * | ? | CP009273 | = 1785608 | 105 (0.860) | 3 (0.030) | 3/264 | 9.2 | 2.7% | coding (670/714 nt) | ydiV | anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase |
| ? | CP009273 | = 3078153 | 115 (0.960) | coding (1118/1977 nt) | speA | biosynthetic arginine decarboxylase, PLP‑binding | |||||
| * | ? | CP009273 | 323898 = | 175 (1.440) | 3 (0.030) | 3/264 | 9.2 | 1.9% | coding (547/1473 nt) | betB | betaine aldehyde dehydrogenase, NAD‑dependent |
| ? | CP009273 | 1434628 = | 141 (1.180) | coding (414/3525 nt) | pfo | pyruvate‑flavodoxin oxidoreductase | |||||
| * | ? | CP009273 | = 1416110 | 115 (0.950) | 3 (0.020) | 3/268 | 9.3 | 2.5% | coding (735/858 nt) | ydaU | Rac prophage; conserved protein |
| ? | CP009273 | 1462266 = | NA (NA) | noncoding (1232/1331 nt) | IS2 | repeat region | |||||
| * | ? | CP009273 | = 168462 | 149 (1.220) | 3 (0.020) | 3/268 | 9.3 | 2.2% | coding (514/1983 nt) | fhuB | fused iron‑hydroxamate transporter subunits of ABC superfamily: membrane components |
| ? | CP009273 | = 1992041 | 124 (1.020) | coding (921/987 nt) | dcyD | D‑cysteine desulfhydrase, PLP‑dependent | |||||