mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 32 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,121 | 0 | C | T | 46.5% | 42.2 / 110.7 | 86 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 45.1% | 18.1 / 62.6 | 52 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,722 | 0 | A | G | 41.5% | 32.0 / 57.7 | 53 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 41.0% | 18.4 / 37.9 | 40 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,889 | 0 | C | A | 40.0% | 32.6 / 20.5 | 30 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,894 | 0 | C | T | 40.0% | 24.2 / 29.1 | 30 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 40.0% | 17.9 / 30.2 | 30 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,905 | 0 | T | C | 37.5% | 28.4 / 25.8 | 32 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,911 | 0 | A | . | 37.5% | 63.4 / 41.6 | 32 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,844 | 0 | C | G | 33.3% | 35.8 / 24.6 | 27 | intergenic (+138/‑408) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,848 | 0 | C | T | 33.3% | 35.4 / 17.8 | 27 | intergenic (+142/‑404) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,850 | 0 | C | T | 33.3% | 34.4 / 17.6 | 27 | intergenic (+144/‑402) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,740,467 | 0 | T | G | 32.0% | 11.0 / 12.1 | 26 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 5,988,837 | 0 | C | G | 31.0% | 47.1 / 24.7 | 29 | intergenic (+131/‑415) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,840 | 0 | C | T | 31.0% | 41.4 / 18.1 | 29 | intergenic (+134/‑412) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,809 | 0 | G | A | 30.0% | 43.5 / 19.0 | 31 | intergenic (+103/‑443) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,825 | 0 | G | T | 29.0% | 53.5 / 21.6 | 32 | intergenic (+119/‑427) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,835 | 0 | G | C | 29.0% | 56.1 / 23.2 | 31 | intergenic (+129/‑417) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,819 | 0 | T | C | 28.1% | 47.9 / 19.3 | 32 | intergenic (+113/‑433) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,824 | 0 | C | T | 28.1% | 49.8 / 17.9 | 32 | intergenic (+118/‑428) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 113 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 2103125 = | 17 (0.520) | 10 (0.310) +TT |
6/286 | 3.3 | 27.7% | intergenic (+85/‑1) | PP_t23/PP_t24 | tRNA‑Gly/tRNA‑Gly |
| ? | NC_002947 | = 2242257 | 36 (1.100) | noncoding (76/76 nt) | PP_t30 | tRNA‑Glu | |||||
| * | ? | NC_002947 | 2103125 = | 17 (0.520) | 10 (0.310) +TT |
6/286 | 3.3 | 40.3% | intergenic (+85/‑1) | PP_t23/PP_t24 | tRNA‑Gly/tRNA‑Gly |
| ? | NC_002947 | = 2242002 | 13 (0.400) | noncoding (76/76 nt) | PP_t28 | tRNA‑Glu | |||||
| * | ? | NC_002947 | 2103125 = | 17 (0.520) | 10 (0.310) +TT |
6/286 | 3.3 | 30.6% | intergenic (+85/‑1) | PP_t23/PP_t24 | tRNA‑Gly/tRNA‑Gly |
| ? | NC_002947 | = 2241757 | 29 (0.880) | noncoding (76/76 nt) | PP_t26 | tRNA‑Glu | |||||
| * | ? | NC_002947 | 5129142 = | 36 (1.100) | 5 (0.160) | 5/274 | 3.5 | 12.0% | intergenic (‑38/+114) | PP_4515/recQ | MarR family transcriptional regulator/ATP‑dependent DNA 3'‑5' helicase |
| ? | NC_002947 | 5129184 = | 39 (1.260) | intergenic (‑80/+72) | PP_4515/recQ | MarR family transcriptional regulator/ATP‑dependent DNA 3'‑5' helicase | |||||
| * | ? | NC_002947 | = 4073915 | NA (NA) | 7 (0.220) | 5/282 | 3.6 | 19.4% | intergenic (‑453/+171) | mdtA/PP_3586 | multidrug transporter membrane fusion protein/transposase |
| ? | NC_002947 | = 4302585 | 30 (0.920) | intergenic (+1075/‑225) | PP_3774/PP_5627 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 4065591 | 27 (0.820) | 5 (0.160) | 5/282 | 3.6 | 14.9% | coding (369/1491 nt) | PP_3582 | RND transporter outer membrane protein |
| ? | NC_002947 | = 4065640 | 31 (0.970) | coding (320/1491 nt) | PP_3582 | RND transporter outer membrane protein | |||||
| * | ? | NC_002947 | 1298266 = | NA (NA) | 7 (0.220) | 5/282 | 3.6 | NA | intergenic (+125/+304) | PP_1133/PP_1134 | transposase/hypothetical protein |
| ? | NC_002947 | 1298312 = | NA (NA) | intergenic (+171/+258) | PP_1133/PP_1134 | transposase/hypothetical protein | |||||
| * | ? | NC_002947 | = 37362 | 40 (1.220) | 5 (0.160) | 5/282 | 3.6 | 12.7% | coding (291/1455 nt) | PP_0033 | undecaprenyl‑glycosyl transferase |
| ? | NC_002947 | = 37386 | 30 (0.940) | coding (267/1455 nt) | PP_0033 | undecaprenyl‑glycosyl transferase | |||||
| * | ? | NC_002947 | = 478290 | 17 (0.520) | 3 (0.120) | 3/230 | 3.8 | 15.2% | intergenic (+38/+72) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase |
| ? | NC_002947 | = 478325 | 20 (0.770) | intergenic (+73/+37) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase | |||||
| * | ? | NC_002947 | = 6152840 | 53 (1.620) | 4 (0.130) | 4/274 | 3.9 | 7.7% | coding (421/489 nt) | PP_5738 | hypothetical protein |
| ? | NC_002947 | = 6152866 | 46 (1.490) | coding (447/489 nt) | PP_5738 | hypothetical protein | |||||