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 56 shown, sorted by frequency from high to low) | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 4,350,671 | 0 | A | G | 55.8% | ‑0.5 / 51.8 | 43 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
* | NC_002947 | 3,449,251 | 0 | A | C | 55.6% | 1.3 / 10.0 | 37 | S18R (AGC→CGC) | PP_5556 | bacteriophage lysis protein |
* | NC_002947 | 3,294,637 | 0 | T | A | 53.8% | 8.7 / 20.0 | 26 | T652T (ACT→ACA) | PP_2893 | hypothetical protein |
* | NC_002947 | 3,449,271 | 0 | A | C | 50.0% | 28.1 / 14.8 | 41 | A24A (GCA→GCC) | PP_5556 | bacteriophage lysis protein |
* | NC_002947 | 4,160,447 | 0 | A | C | 47.8% | 17.6 / 13.2 | 23 | H164P (CAT→CCT) | PP_3661 | membrane protein |
* | NC_002947 | 3,449,256 | 0 | T | G | 46.0% | 6.4 / 14.3 | 38 | A19A (GCT→GCG) | PP_5556 | bacteriophage lysis protein |
* | NC_002947 | 1,327,127 | 0 | C | T | 45.0% | 10.4 / 21.2 | 20 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
* | NC_002947 | 5,990,889 | 0 | A | C | 44.4% | 1.1 / 40.1 | 38 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
* | NC_002947 | 3,635,014 | 0 | T | G | 43.6% | 35.0 / 24.7 | 55 | V174G (GTG→GGG) | PP_3201 | BNR domain‑containing protein |
* | NC_002947 | 527,898 | 0 | C | . | 42.9% | 32.3 / 31.7 | 21 | noncoding (1133/2902 nt) | PP_23SC | 23S ribosomal RNA |
* | NC_002947 | 699,725 | 0 | A | G | 42.9% | 8.5 / 22.6 | 21 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
* | NC_002947 | 1,728,864 | 0 | A | C | 42.9% | 15.6 / 13.7 | 28 | G95G (GGT→GGG) | PP_1523 | hypothetical protein |
* | NC_002947 | 100,464 | 0 | A | C | 41.7% | 7.9 / 11.7 | 24 | intergenic (‑56/+66) | PP_0094/PP_0095 | 5'‑nucleotidase/hypothetical protein |
* | NC_002947 | 527,921 | 0 | G | C | 38.5% | 48.6 / 26.7 | 26 | noncoding (1156/2902 nt) | PP_23SC | 23S ribosomal RNA |
* | NC_002947 | 3,595,316 | 0 | C | A | 37.9% | 83.8 / 15.9 | 58 | F129L (TTC→TTA) | PP_3171 | hypothetical protein |
* | NC_002947 | 196,351 | 0 | C | G | 34.8% | 21.5 / 24.2 | 23 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
* | NC_002947 | 2,089,416 | 0 | G | A | 34.8% | 18.5 / 17.2 | 23 | intergenic (+264/+654) | PP_1865/aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
* | NC_002947 | 527,917 | 0 | A | G | 34.6% | 48.1 / 22.7 | 26 | noncoding (1152/2902 nt) | PP_23SC | 23S ribosomal RNA |
* | NC_002947 | 5,990,883 | 0 | T | C | 34.4% | 25.8 / 29.0 | 32 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
* | NC_002947 | 3,793,692 | 0 | T | G | 34.0% | 68.6 / 10.9 | 52 | S531R (AGC→CGC) | PP_3354 | acyl‑CoA dehydrogenase |
Marginal new junction evidence (sorted from low to high skew) | |||||||||||
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seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | NC_002947 | = 5990749 | 89 (2.290) | 4 (0.110) | 4/248 | 2.0 | 6.1% | intergenic (+65/‑481) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
? | NC_002947 | 5990941 = | 39 (1.070) | intergenic (+257/‑289) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
* | ? | NC_002947 | = 5990646 | 86 (2.220) | 4 (0.110) | 4/250 | 2.0 | 6.2% | coding (1750/1788 nt) | kefB‑III | glutathione‑regulated potassium/H+ antiporter |
? | NC_002947 | 5990934 = | 39 (1.060) | intergenic (+250/‑296) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |