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 | 4,348,705 | 0 | A | G | 57.3% | 10.4 / 136.3 | 118 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 51.2% | 23.0 / 110.6 | 81 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,327,121 | 0 | C | T | 38.5% | 87.1 / 91.4 | 91 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 37.7% | 51.3 / 56.9 | 61 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,559 | 0 | C | A | 27.9% | 125.0 / 50.8 | 68 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,911 | 0 | A | . | 26.2% | 199.5 / 76.7 | 82 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,905 | 0 | T | C | 25.3% | 141.4 / 47.6 | 84 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 23.2% | 149.1 / 42.7 | 83 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,894 | 0 | C | T | 21.7% | 168.5 / 38.7 | 83 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 2,282,770 | 0 | T | G | 21.4% | 39.9 / 14.3 | 28 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,774 | 0 | G | C | 21.4% | 52.2 / 12.1 | 29 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,988,889 | 0 | C | A | 20.9% | 217.5 / 37.0 | 86 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 2,282,775 | 0 | G | C | 20.7% | 46.3 / 12.5 | 29 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 118 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 2472140 | 35 (0.550) | 7 (0.150) | 7/204 | 5.4 | 22.8% | intergenic (+44/+105) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947 | = 2472186 | 22 (0.480) | intergenic (+90/+59) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase | |||||
| * | ? | NC_002947 | = 5453138 | 9 (0.140) | 5 (0.120) +48 bp |
4/186 | 6.4 | 20.4% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545626 = | 50 (0.790) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5224500 = | 4 (0.060) | 5 (0.120) +48 bp |
4/186 | 6.4 | 21.9% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5545626 = | 50 (0.790) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 4075618 = | 9 (0.140) | 5 (0.120) +48 bp |
4/186 | 6.4 | 20.4% | intergenic (‑204/+237) | PP_3586/tpx | transposase/2‑Cys peroxiredoxin |
| ? | NC_002947 | 5545626 = | 50 (0.790) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 3828180 = | 3 (0.050) | 5 (0.120) +48 bp |
4/186 | 6.4 | 22.2% | intergenic (‑204/+155) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | 5545626 = | 50 (0.790) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 2939258 = | 5 (0.080) | 5 (0.120) +48 bp |
4/186 | 6.4 | 21.6% | intergenic (‑204/+236) | PP_2570/PP_2572 | transposase/hypothetical protein |
| ? | NC_002947 | 5545626 = | 50 (0.790) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 1440124 | 6 (0.090) | 5 (0.120) +48 bp |
4/186 | 6.4 | 21.3% | intergenic (‑455/‑204) | yveA/PP_1260 | aspartate‑proton symporter/transposase |
| ? | NC_002947 | 5545626 = | 50 (0.790) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 1296609 | 2 (0.030) | 5 (0.120) +48 bp |
4/186 | 6.4 | 22.6% | intergenic (‑362/‑204) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase |
| ? | NC_002947 | 5545626 = | 50 (0.790) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 3219035 = | 62 (0.980) | 8 (0.130) | 8/274 | 6.6 | 11.3% | coding (223/558 nt) | nfxB | HTH‑type transcriptional regulator NfxB |
| ? | NC_002947 | 3219082 = | 65 (1.050) | coding (176/558 nt) | nfxB | HTH‑type transcriptional regulator NfxB | |||||
| * | ? | NC_002947 | 4889569 = | 59 (0.930) | 5 (0.100) | 5/228 | 6.9 | 8.7% | intergenic (+15/‑138) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase |
| ? | NC_002947 | 4889660 = | 57 (1.110) | intergenic (+106/‑47) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase | |||||