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 62 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 | 63.7% | 29.6 / 84.7 | 91 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 53.4% | 3.3 / 143.7 | 118 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 699,722 | 0 | A | G | 48.0% | 0.3 / 62.6 | 50 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 46.1% | 38.2 / 130.9 | 102 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,559 | 0 | C | A | 38.9% | 108.0 / 92.2 | 90 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,770 | 0 | T | G | 36.6% | 21.1 / 38.2 | 41 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,774 | 0 | G | C | 35.7% | 33.7 / 42.2 | 42 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,775 | 0 | G | C | 35.7% | 34.3 / 36.8 | 42 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,779 | 0 | C | A | 33.3% | 53.0 / 31.3 | 45 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,655,636 | 0 | C | A | 31.6% | 49.5 / 31.6 | 38 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 196,351 | 0 | C | G | 30.7% | 143.8 / 70.6 | 88 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,655,631 | 0 | T | G | 30.6% | 47.3 / 29.8 | 37 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 4,583,571 | 0 | G | . | 30.4% | 48.0 / 21.8 | 23 | intergenic (‑144/+27) | treSB/glgE | bifunctional trehalose synthase B/maltokinase/alpha‑1,4‑glucan:maltose‑1‑phosphate maltosyltransferase |
| * | NC_002947 | 196,390 | 0 | T | C | 29.8% | 92.1 / 48.1 | 67 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,796,619 | 0 | A | G | 29.8% | 55.9 / 32.5 | 49 | intergenic (‑177/+41) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| * | NC_002947 | 5,988,837 | 0 | C | G | 29.6% | 123.6 / 66.8 | 81 | intergenic (+131/‑415) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,840 | 0 | C | T | 29.6% | 116.1 / 60.8 | 81 | intergenic (+134/‑412) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,796,614 | 0 | G | C | 29.5% | 49.2 / 31.4 | 45 | intergenic (‑172/+46) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| * | NC_002947 | 4,796,612 | 0 | C | T | 28.9% | 58.5 / 28.3 | 45 | intergenic (‑170/+48) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| * | NC_002947 | 4,796,617 | 0 | G | C | 28.6% | 65.6 / 37.2 | 49 | intergenic (‑175/+43) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| Marginal new junction evidence (lowest skew 10 of 411 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 1419549 | 18 (0.260) | 13 (0.190) | 12/280 | 5.6 | 36.8% | intergenic (‑38/+98) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419636 | 27 (0.400) | intergenic (‑125/+11) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 5453138 | 3 (0.040) | 5 (0.110) +48 bp |
5/190 | 6.2 | 26.9% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545626 = | 38 (0.560) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5224500 = | 9 (0.130) | 5 (0.110) +48 bp |
5/190 | 6.2 | 24.3% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5545626 = | 38 (0.560) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 4075618 = | 5 (0.070) | 5 (0.110) +48 bp |
5/190 | 6.2 | 26.0% | intergenic (‑204/+237) | PP_3586/tpx | transposase/2‑Cys peroxiredoxin |
| ? | NC_002947 | 5545626 = | 38 (0.560) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 3828180 = | 7 (0.100) | 5 (0.110) +48 bp |
5/190 | 6.2 | 25.1% | intergenic (‑204/+155) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | 5545626 = | 38 (0.560) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 2939258 = | 5 (0.070) | 5 (0.110) +48 bp |
5/190 | 6.2 | 26.0% | intergenic (‑204/+236) | PP_2570/PP_2572 | transposase/hypothetical protein |
| ? | NC_002947 | 5545626 = | 38 (0.560) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 1440124 | 5 (0.070) | 5 (0.110) +48 bp |
5/190 | 6.2 | 26.0% | intergenic (‑455/‑204) | yveA/PP_1260 | aspartate‑proton symporter/transposase |
| ? | NC_002947 | 5545626 = | 38 (0.560) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 1296609 | 4 (0.060) | 5 (0.110) +48 bp |
5/190 | 6.2 | 26.5% | intergenic (‑362/‑204) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase |
| ? | NC_002947 | 5545626 = | 38 (0.560) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 182013 | 59 (0.870) | 10 (0.150) +TTTCG |
9/276 | 6.5 | 14.9% | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor |
| ? | NC_002947 | = 1330512 | NA (NA) | intergenic (+43/‑264) | PP_5SE/PP_1157 | 5S ribosomal RNA/acetolactate synthase | |||||
| * | ? | NC_002947 | 5914157 = | 44 (0.650) | 7 (0.130) | 6/230 | 6.8 | 20.8% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914253 = | 18 (0.330) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||