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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,121 | 0 | C | T | 57.3% | ‑2.0 / 88.7 | 75 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 42.9% | 36.4 / 72.4 | 63 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,722 | 0 | A | G | 42.2% | 24.4 / 74.0 | 64 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 5,903,165 | 0 | A | C | 40.0% | 19.2 / 16.8 | 30 | intergenic (‑129/‑139) | PP_5175/PP_5176 | HlyD family secretion protein/hypothetical protein |
| * | NC_002947 | 195,634 | 0 | C | T | 35.1% | 59.1 / 48.3 | 58 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,590 | 0 | T | C | 29.2% | 63.6 / 31.2 | 51 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,559 | 0 | C | A | 27.9% | 67.3 / 25.3 | 43 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,740,844 | 0 | C | G | 26.5% | 44.5 / 16.7 | 34 | intergenic (+81/+672) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,740,841 | 0 | T | A | 23.5% | 53.2 / 11.5 | 36 | intergenic (+78/+675) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,740,839 | 0 | C | G | 20.0% | 54.7 / 13.4 | 36 | intergenic (+76/+677) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,740,842 | 0 | T | A | 20.0% | 65.6 / 11.7 | 36 | intergenic (+79/+674) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 89 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 240111 = | 26 (0.860) | 5 (0.170) | 5/276 | 3.0 | 15.9% | coding (406/1128 nt) | PP_0188 | uroporphyrin‑III C‑methyltransferase |
| ? | NC_002947 | 240158 = | 28 (0.970) | coding (453/1128 nt) | PP_0188 | uroporphyrin‑III C‑methyltransferase | |||||
| * | ? | NC_002947 | 2103125 = | 11 (0.360) | 7 (0.230) +TT |
5/286 | 3.1 | 27.7% | intergenic (+85/‑1) | PP_t23/PP_t24 | tRNA‑Gly/tRNA‑Gly |
| ? | NC_002947 | = 2242257 | 26 (0.860) | noncoding (76/76 nt) | PP_t30 | tRNA‑Glu | |||||
| * | ? | NC_002947 | 2103125 = | 11 (0.360) | 7 (0.230) +TT |
5/286 | 3.1 | 26.7% | intergenic (+85/‑1) | PP_t23/PP_t24 | tRNA‑Gly/tRNA‑Gly |
| ? | NC_002947 | = 2242002 | 28 (0.920) | noncoding (76/76 nt) | PP_t28 | tRNA‑Glu | |||||
| * | ? | NC_002947 | 2103125 = | 11 (0.360) | 7 (0.230) +TT |
5/286 | 3.1 | 35.3% | intergenic (+85/‑1) | PP_t23/PP_t24 | tRNA‑Gly/tRNA‑Gly |
| ? | NC_002947 | = 2241757 | 15 (0.500) | noncoding (76/76 nt) | PP_t26 | tRNA‑Glu | |||||
| * | ? | NC_002947 | 967850 = | 21 (0.690) | 4 (0.150) | 4/260 | 3.2 | 16.1% | intergenic (‑29/+139) | PP_0830/PP_0831 | acetyltransferase/hypothetical protein |
| ? | NC_002947 | 967941 = | 23 (0.850) | intergenic (‑120/+48) | PP_0830/PP_0831 | acetyltransferase/hypothetical protein | |||||
| * | ? | NC_002947 | = 5988771 | 13 (0.430) | 5 (0.170) | 4/274 | 3.3 | 23.1% | intergenic (+65/‑481) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947 | 5988963 = | 21 (0.730) | intergenic (+257/‑289) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 3862763 = | 30 (0.990) | 4 (0.140) | 4/280 | 3.4 | 11.3% | coding (1686/3282 nt) | PP_3413 | two‑component system sensor histidine kinase/response regulator |
| ? | NC_002947 | 3862825 = | 34 (1.160) | coding (1748/3282 nt) | PP_3413 | two‑component system sensor histidine kinase/response regulator | |||||
| * | ? | NC_002947 | 3700147 = | 33 (1.090) | 4 (0.140) | 4/276 | 3.4 | 11.7% | coding (296/774 nt) | ybhP‑I | phosphohydrolase |
| ? | NC_002947 | 3700187 = | 29 (1.010) | coding (256/774 nt) | ybhP‑I | phosphohydrolase | |||||
| * | ? | NC_002947 | 3607007 = | 27 (0.890) | 4 (0.140) | 4/278 | 3.4 | 12.5% | coding (2110/2265 nt) | PP_3182 | GGDEF domain‑containing protein |
| ? | NC_002947 | 3607049 = | 30 (1.030) | coding (2068/2265 nt) | PP_3182 | GGDEF domain‑containing protein | |||||
| * | ? | NC_002947 | = 3553911 | 21 (0.690) | 4 (0.140) | 4/276 | 3.4 | 17.4% | coding (578/1002 nt) | PP_3138 | VirK domain‑containing protein |
| ? | NC_002947 | = 3553915 | 18 (0.620) | coding (582/1002 nt) | PP_3138 | VirK domain‑containing protein | |||||