mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 35 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 196,327 | 0 | A | C | 57.1% | ‑1.8 / 12.5 | 14 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,299 | 0 | C | T | 53.8% | ‑6.6 / 12.4 | 13 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 53.8% | ‑4.2 / 13.2 | 13 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 53.8% | ‑6.4 / 16.1 | 13 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 53.8% | 13.6 / 20.7 | 13 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,390 | 0 | T | C | 50.0% | ‑0.5 / 13.3 | 12 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 3,762,985 | 0 | A | T | 50.0% | ‑6.8 / 12.0 | 10 | N62I (AAC→ATC) | PP_3326 | hypothetical protein |
| * | NC_002947 | 196,351 | 0 | C | G | 47.1% | 4.8 / 19.2 | 17 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,298 | 1 | . | T | 46.2% | 15.0 / 24.6 | 13 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 46.2% | ‑6.1 / 12.8 | 13 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 3,762,990 | 0 | A | T | 45.5% | ‑2.6 / 11.1 | 11 | I64F (ATC→TTC) | PP_3326 | hypothetical protein |
| * | NC_002947 | 196,306 | 0 | T | C | 44.4% | 8.0 / 16.7 | 18 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 429,115 | 0 | C | G | 41.7% | ‑1.5 / 10.9 | 12 | G137A (GGC→GCC) | PP_0352 | ECF family RNA polymerase sigma‑70 factor |
| * | NC_002947 | 5,623,312 | 0 | A | T | 36.4% | 18.8 / 18.3 | 22 | H159Q (CAT→CAA) | PP_4941 | hypothetical protein |
| * | NC_002947 | 1,706 | 0 | G | C | 35.3% | 15.2 / 15.0 | 17 | L39V (CTC→GTC) | parA | chromosome partition protein |
| * | NC_002947 | 1,707 | 0 | G | C | 35.3% | 16.7 / 15.0 | 17 | D38E (GAC→GAG) | parA | chromosome partition protein |
| * | NC_002947 | 1,699 | 0 | G | T | 33.3% | 18.3 / 10.4 | 18 | P41Q (CCG→CAG) | parA | chromosome partition protein |
| * | NC_002947 | 5,623,304 | 0 | A | G | 33.3% | 15.2 / 11.2 | 18 | L162P (CTG→CCG) | PP_4941 | hypothetical protein |
| * | NC_002947 | 5,988,880 | 0 | C | T | 33.3% | 37.7 / 16.4 | 24 | intergenic (+118/‑428) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,865 | 0 | G | A | 31.8% | 38.8 / 12.3 | 22 | intergenic (+103/‑443) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 6000988 | 16 (1.230) | 4 (0.390) | 3/214 | 1.1 | 23.9% | intergenic (+39/+70) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| ? | NC_002947 | = 6001022 | 13 (1.280) | intergenic (+73/+36) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase | |||||
| * | ? | NC_002947 | = 90374 | 14 (1.070) | 3 (0.260) | 3/242 | 1.2 | 18.0% | intergenic (+49/+73) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 90397 | 15 (1.300) | intergenic (+72/+50) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | = 5812975 | 18 (1.380) | 3 (0.240) | 3/260 | 1.3 | 14.3% | intergenic (+27/‑161) | priA/argS | primosome assembly protein/arginine‑‑tRNA ligase |
| ? | NC_002947 | = 5812997 | 19 (1.530) | intergenic (+49/‑139) | priA/argS | primosome assembly protein/arginine‑‑tRNA ligase | |||||
| * | ? | NC_002947 | = 2794978 | 13 (1.000) | 3 (0.250) | 3/256 | 1.3 | 17.6% | intergenic (+43/+69) | PP_2447/puuB | hypothetical protein/gamma‑glutamylputrescine oxidase |
| ? | NC_002947 | = 2795003 | 16 (1.310) | intergenic (+68/+44) | PP_2447/puuB | hypothetical protein/gamma‑glutamylputrescine oxidase | |||||
| * | ? | NC_002947 | = 1080675 | 29 (2.220) | 3 (0.240) | 3/262 | 1.3 | 9.9% | coding (325/3822 nt) | PP_0938 | hypothetical protein |
| ? | NC_002947 | = 1080703 | 27 (2.160) | coding (353/3822 nt) | PP_0938 | hypothetical protein | |||||