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 | 4,177,586 | 0 | T | C | 74.5% | 426.5 / 163.4 | 213 | L770P (CTC→CCC) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 4,178,339 | 0 | A | C | 64.8% | 207.7 / 214.5 | 202 | D1021A (GAC→GCC) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 1,314,768 | 0 | C | T | 53.4% | 21.0 / 156.0 | 103 | A292T (GCC→ACC) | trpD | fused glutamine amidotransferase (component II) of anthranilate synthase/anthranilate phosphoribosyl transferase |
| * | CP009273 | 4,178,500 | 0 | C | T | 30.6% | 310.6 / 183.1 | 196 | R1075C (CGT→TGT) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 2,170,734 | 0 | G | T | 30.6% | 183.1 / 74.7 | 193 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 104,042 | 0 | A | T | 28.2% | 249.2 / 35.6 | 105 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 357,031 | 0 | C | A | 27.7% | 189.2 / 34.2 | 112 | V181F (GTT→TTT) | lacA | thiogalactoside acetyltransferase |
| * | CP009273 | 2,475,299 | 0 | C | A | 26.7% | 125.9 / 10.7 | 75 | M119I (ATG→ATT) | emrY | putative multidrug efflux system |
| * | CP009273 | 2,998,314 | 0 | C | A | 25.2% | 185.3 / 12.1 | 116 | V278F (GTT→TTT) | ygeV | putative sigma‑54‑interacting transcriptional activator |
| * | CP009273 | 104,041 | 0 | G | T | 23.6% | 211.7 / 28.4 | 110 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 838,652 | 0 | T | G | 23.2% | 280.2 / 12.0 | 142 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 838,675 | 0 | C | A | 22.8% | 326.6 / 19.8 | 158 | N296K (AAC→AAA) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 2,178,908 | 0 | T | G | 22.7% | 329.2 / 24.1 | 154 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 4,008,453 | 0 | G | T | 22.0% | 359.8 / 28.5 | 182 | D681Y (GAT→TAT) | metE | 5‑methyltetrahydropteroyltriglutamate‑ homocysteine S‑methyltransferase |
| * | CP009273 | 2,170,713 | 0 | C | A | 21.7% | 192.9 / 10.4 | 174 | intergenic (‑30/+278) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 620,054 | 0 | A | T | 21.6% | 219.0 / 12.5 | 92 | intergenic (‑88/‑287) | fepB/entC | iron‑enterobactin transporter subunit/isochorismate synthase 1 |
| * | CP009273 | 4,586,638 | 0 | G | C | 21.4% | 292.4 / 10.3 | 116 | E278Q (GAA→CAA) | yjjN | L‑galactonate oxidoreductase |
| * | CP009273 | 104,033 | 0 | T | G | 20.9% | 253.8 / 15.0 | 105 | intergenic (+72/‑159) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 838,659 | 0 | C | G | 20.6% | 312.1 / 16.2 | 142 | A291G (GCC→GGC) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 1203261 | 149 (0.850) | 25 (0.160) | 20/238 | 3.8 | 18.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 89 (0.570) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1203246 = | 148 (0.840) | 29 (0.190) | 18/238 | 4.3 | 20.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 92 (0.590) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 360286 | NA (NA) | 4 (0.020) +AATTC |
4/260 | 10.0 | 2.2% | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | 3416618 = | 189 (1.070) | intergenic (+65/+164) | yhdZ/rrfF | putative amino‑acid transporter subunit/5S ribosomal RNA of rrnD operon | |||||
| * | ? | CP009273 | = 1205074 | 140 (0.790) | 3 (0.020) | 3/240 | 10.2 | 2.1% | pseudogene (2/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |
| ? | CP009273 | 2465376 = | 157 (1.000) | pseudogene (226/579 nt) | yfdL | pseudogene, CPS‑53 (KpLE1) prophage;Phage or Prophage Related | |||||
| * | ? | CP009273 | 2311642 = | 125 (0.710) | 3 (0.020) | 3/256 | 10.6 | 2.0% | coding (1714/2850 nt) | rcsC | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| ? | CP009273 | 3953372 = | 182 (1.090) | pseudogene (243/243 nt) | yifN | PemK toxin family pseudogene | |||||
| * | ? | CP009273 | = 787656 | 198 (1.120) | 3 (0.020) | 3/266 | 10.8 | 1.6% | intergenic (‑145/+116) | galE/modF | UDP‑galactose‑4‑epimerase/fused molybdate transporter subunits of ABC superfamily: ATP‑binding components |
| ? | CP009273 | = 788094 | 167 (0.960) | coding (1151/1473 nt) | modF | fused molybdate transporter subunits of ABC superfamily: ATP‑binding components | |||||
| * | ? | CP009273 | = 420028 | 215 (1.220) | 3 (0.020) | 3/266 | 10.8 | 1.5% | coding (347/582 nt) | acpH | acyl carrier protein (ACP) phosphodiesterase; ACP hydrolyase |
| ? | CP009273 | = 2794317 | 180 (1.040) | coding (236/246 nt) | nrdH | hydrogen donor for NrdEF electron transport system; glutaredoxin‑like protein | |||||
| * | ? | CP009273 | = 849596 | 230 (1.310) | 3 (0.020) | 3/268 | 10.9 | 1.3% | coding (494/1119 nt) | ybiR | putative transporter |
| ? | CP009273 | 3614126 = | NA (NA) | coding (1575/4236 nt) | rhsB | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor | |||||
| * | ? | CP009273 | 485030 = | 162 (0.920) | 3 (0.020) | 3/268 | 10.9 | 1.9% | coding (3039/3363 nt) | mscK | mechanosensitive channel protein, intermediate conductance, K+ regulated |
| ? | CP009273 | 684667 = | 149 (0.850) | intergenic (‑198/+132) | insH1/lnt | IS5 transposase and trans‑activator/apolipoprotein N‑acyltransferase | |||||