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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| JC | 89,331 | Δ3 bp | 100% | coding (1432‑1434/1767 nt) | ftsI → | transpeptidase involved in septal peptidoglycan synthesis (penicillin‑binding protein 3) |
| JC | 360,104 | 183 bp x 2 | 61.0% | duplication | lacZ ← / ← lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| MC JC | 776,903 | Δ208 bp | 100% | lysQ | lysQ | |
| RA | 822,078 | C→T | 5.3% | G211S (GGC→AGC) | ybhS ← | inner membrane putative ABC superfamily transporter permease |
| RA | 1,169,841 | G→C | 5.7% | R261G (CGA→GGA) | ycfT ← | inner membrane protein |
| RA | 1,191,676 | C→T | 11.8% | H366H (CAC→CAT) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,688 | C→T | 14.7% | T370T (ACC→ACT) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,701 | T→C | 14.3% | L375L (TTA→CTA) ‡ | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,703 | A→G | 18.1% | L375L (TTA→TTG) ‡ | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,733 | C→T | 11.9% | N385N (AAC→AAT) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,736 | G→C | 13.3% | A386A (GCG→GCC) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,739 | A→G | 14.2% | K387K (AAA→AAG) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,748 | C→T | 13.7% | T390T (ACC→ACT) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,760 | G→A | 12.4% | E394E (GAG→GAA) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,772 | T→A | 11.7% | D398E (GAT→GAA) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,546,067 | C→T | 5.6% | A158V (GCG→GTG) | fdnI → | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible |
| RA | 1,562,775 | G→A | 100% | G102G (GGC→GGT) | yddW ← | liprotein, glycosyl hydrolase homolog |
| RA | 1,594,122 | T→C | 8.6% | R115R (AGA→AGG) | lsrK ← | autoinducer‑2 (AI‑2) kinase |
| RA | 1,601,762 | C→A | 41.1% | P54T (CCT→ACT) | tam → | trans‑aconitate methyltransferase |
| RA | 1,692,653 | A→G | 5.6% | L262S (TTG→TCG) | malI ← | transcriptional repressor of Mal regulon |
| RA | 2,328,514 | G→T | 5.3% | P537Q (CCG→CAG) | yfaA ← | DUF2138 family protein, putative host defense protein |
| RA | 3,529,154 | G→T | 100% | A25D (GCC→GAC) | envZ ← | sensory histidine kinase in two‑component regulatory system with OmpR |
| RA | 4,368,791 | C→A | 32.3% | intergenic (‑30/+33) | ampC ← / ← frdD | penicillin‑binding protein; beta‑lactamase, intrinsically weak/fumarate reductase (anaerobic), membrane anchor subunit |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 1203246 = | 102 (1.060) | 6 (0.070) | 4/324 | NT | 7.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 63 (0.720) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 102 (1.060) | 11 (0.130) | 10/324 | NT | 12.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 63 (0.720) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 3610675 = | 85 (0.880) | 4 (0.040) | 4/340 | NT | 5.2% | coding (301/765 nt) | nikD | nickel transporter subunit |
| ? | CP009273 | 3610774 = | 66 (0.720) | coding (400/765 nt) | nikD | nickel transporter subunit | |||||
| * | ? | CP009273 | 3851553 = | 117 (1.210) | 6 (0.070) | 5/330 | NT | 5.8% | coding (212/1494 nt) | yidJ | sulfatase/phosphatase superfamily protein |
| ? | CP009273 | 3851602 = | 87 (0.970) | coding (163/1494 nt) | yidJ | sulfatase/phosphatase superfamily protein | |||||