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 | 56.4% | 2.6 / 64.8 | 55 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 50.0% | ‑2.7 / 66.4 | 48 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 45.0% | 15.1 / 48.9 | 40 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 197,590 | 0 | T | C | 43.5% | 10.7 / 25.2 | 24 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 445,103 | 0 | C | A | 42.9% | 3.9 / 11.6 | 14 | intergenic (+76/‑212) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase |
| * | NC_002947 | 445,105 | 0 | A | T | 42.9% | 4.2 / 11.7 | 14 | intergenic (+78/‑210) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase |
| * | NC_002947 | 197,572 | 0 | G | A | 33.3% | 34.1 / 20.6 | 31 | K1026K (AAG→AAA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 30.8% | 25.3 / 15.6 | 26 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,634 | 0 | C | T | 30.6% | 40.0 / 24.2 | 36 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,551 | 0 | C | G | 25.6% | 64.2 / 23.3 | 39 | T1019T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,151,966 | 0 | C | T | 23.3% | 51.7 / 11.6 | 30 | Q231* (CAG→TAG) | edd | phosphogluconate dehydratase |
| * | NC_002947 | 1,151,967 | 0 | A | G | 23.3% | 47.9 / 13.5 | 30 | Q231R (CAG→CGG) | edd | phosphogluconate dehydratase |
| * | NC_002947 | 524,349 | 0 | G | C | 23.1% | 49.0 / 12.5 | 26 | intergenic (+216/‑600) | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| * | NC_002947 | 196,351 | 0 | C | G | 22.9% | 55.6 / 17.8 | 35 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 524,352 | 0 | G | C | 22.2% | 56.2 / 12.1 | 28 | intergenic (+219/‑597) | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| * | NC_002947 | 196,306 | 0 | T | C | 20.6% | 61.4 / 12.5 | 36 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,327 | 0 | A | C | 20.0% | 52.4 / 12.1 | 30 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| Marginal new junction evidence (lowest skew 10 of 59 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4555442 | 25 (0.970) | 4 (0.160) | 4/280 | 3.0 | 15.1% | coding (1055/1506 nt) | zwfB | glucose 6‑phosphate 1‑dehydrogenase |
| ? | NC_002947 | = 4555475 | 21 (0.840) | coding (1022/1506 nt) | zwfB | glucose 6‑phosphate 1‑dehydrogenase | |||||
| * | ? | NC_002947 | 3293532 = | 24 (0.930) | 4 (0.160) | 4/278 | 3.0 | 14.3% | coding (2816/3675 nt) | PP_2893 | hypothetical protein |
| ? | NC_002947 | 3293608 = | 25 (1.010) | coding (2892/3675 nt) | PP_2893 | hypothetical protein | |||||
| * | ? | NC_002947 | = 611763 | NA (NA) | 5 (0.200) | 4/278 | 3.0 | NA | coding (660/966 nt) | PP_0526 | transposase |
| ? | NC_002947 | = 611769 | NA (NA) | coding (666/966 nt) | PP_0526 | transposase | |||||
| * | ? | NC_002947 | = 353066 | 16 (0.620) | 5 (0.210) | 4/272 | 3.0 | 19.2% | intergenic (+33/+85) | hisF/cbcV | imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein |
| ? | NC_002947 | = 353120 | 27 (1.120) | intergenic (+87/+31) | hisF/cbcV | imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein | |||||
| * | ? | NC_002947 | 511904 = | 29 (1.120) | 3 (0.130) | 3/260 | 3.3 | 10.2% | intergenic (+44/‑104) | trpC/PP_0423 | indole‑3‑glycerol phosphate synthase/hypothetical protein |
| ? | NC_002947 | 511982 = | 27 (1.170) | intergenic (+122/‑26) | trpC/PP_0423 | indole‑3‑glycerol phosphate synthase/hypothetical protein | |||||
| * | ? | NC_002947 | = 5988757 | 11 (0.430) | 3 (0.120) | 3/274 | 3.4 | 17.4% | intergenic (+51/‑495) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947 | 5988979 = | 18 (0.740) | intergenic (+273/‑273) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 5835978 | 25 (0.970) | 3 (0.120) | 3/276 | 3.4 | 11.4% | coding (73/1302 nt) | PP_5115 | zinc protease |
| ? | NC_002947 | = 5836015 | 23 (0.940) | coding (110/1302 nt) | PP_5115 | zinc protease | |||||
| * | ? | NC_002947 | 5684080 = | 39 (1.510) | 3 (0.120) | 3/276 | 3.4 | 7.6% | coding (2813/4941 nt) | PP_4988 | signal transduction histidine kinase CheA/CheY‑like receiver |
| ? | NC_002947 | 5684118 = | 36 (1.470) | coding (2775/4941 nt) | PP_4988 | signal transduction histidine kinase CheA/CheY‑like receiver | |||||
| * | ? | NC_002947 | = 5680031 | 46 (1.780) | 5 (0.200) | 3/276 | 3.4 | 10.2% | coding (87/720 nt) | rsmE | 16S rRNA (uracil(1498)‑N(3))‑methyltransferase |
| ? | NC_002947 | = 5680077 | 44 (1.790) | coding (133/720 nt) | rsmE | 16S rRNA (uracil(1498)‑N(3))‑methyltransferase | |||||
| * | ? | NC_002947 | = 5583793 | 28 (1.090) | 5 (0.200) | 3/276 | 3.4 | 16.0% | coding (1939/2259 nt) | parC | DNA topoisomerase IV subunit A |
| ? | NC_002947 | = 5583844 | 26 (1.060) | coding (1888/2259 nt) | parC | DNA topoisomerase IV subunit A | |||||