mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.5 revision 9f368df52761
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 | ||
| * | AE015451 | 2,550,125 | 0 | G | A | 59.7% | 5.6 / 64.0 | 62 | noncoding (1436/1522 nt) | PP_16SF | 16S ribosomal RNA |
| * | AE015451 | 699,722 | 0 | A | G | 58.2% | 17.4 / 162.3 | 136 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | AE015451 | 196,438 | 0 | T | C | 53.4% | 3.5 / 70.1 | 59 | S648S (AGT→AGC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 4,348,705 | 0 | A | G | 51.1% | 8.8 / 114.4 | 90 | intergenic (‑70/+404) | PP_3820/galU | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | AE015451 | 196,495 | 0 | G | C | 48.2% | 33.0 / 135.0 | 87 | T667T (ACG→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,459 | 0 | C | A | 46.2% | 44.6 / 98.1 | 78 | T655T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 1,327,121 | 0 | C | T | 41.5% | 55.0 / 112.7 | 96 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | AE015451 | 196,579 | 0 | G | A | 36.5% | 62.8 / 75.9 | 86 | V695V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 195,559 | 0 | C | A | 32.8% | 71.6 / 40.3 | 58 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 4,348,955 | 0 | G | A | 32.7% | 68.4 / 35.4 | 52 | intergenic (‑320/+154) | PP_3820/galU | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | AE015451 | 196,879 | 0 | G | A | 31.8% | 106.7 / 86.9 | 128 | V795V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 4,169,472 | 0 | T | C | 30.8% | 45.3 / 20.2 | 40 | K141E (AAG→GAG) | katG | Catalase‑peroxidase |
| * | AE015451 | 195,634 | 0 | C | T | 29.7% | 71.4 / 40.9 | 67 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 2,038,351 | 0 | G | . | 29.4% | 37.2 / 15.2 | 17 | coding (1129/1143 nt) | rffE | UDP‑N‑acetylglucosamine‑2‑epimerase |
| * | AE015451 | 196,432 | 0 | T | C | 27.1% | 68.8 / 39.4 | 62 | T646T (ACT→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 441,326 | 0 | G | . | 25.0% | 136.6 / 47.4 | 57 | coding (207/1173 nt) | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | AE015451 | 196,372 | 0 | A | G | 24.0% | 56.5 / 24.6 | 51 | K626K (AAA→AAG) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 197,632 | 0 | T | C | 23.8% | 106.4 / 24.3 | 66 | T1046T (ACT→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,489 | 0 | T | C | 22.9% | 113.8 / 34.7 | 86 | N665N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| Marginal new junction evidence (lowest skew 10 of 15 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AE015451 | 4808174 = | 8 (0.130) | 14 (0.250) | 10/530 | 3.3 | 47.4% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | = 5988935 | 24 (0.430) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | AE015451 | = 4808179 | 9 (0.140) | 12 (0.200) | 10/576 | 3.6 | 73.5% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | 5988765 = | 0 (0.000) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | AE015451 | = 1780066 | 12 (0.190) | 6 (0.100) | 6/586 | 4.8 | 35.6% | intergenic (+25/+81) | PP_1587/dapC | NhaP‑type Na+/H+ and K+/H+ antiporters/N‑succinyl‑L,L‑diaminopimelate aminotransferase alternative |
| ? | AE015451 | 1780129 = | 10 (0.160) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+/H+ and K+/H+ antiporters/N‑succinyl‑L,L‑diaminopimelate aminotransferase alternative | |||||
| * | ? | AE015451 | = 2957080 | 21 (0.330) | 6 (0.100) | 5/590 | 5.3 | 20.8% | intergenic (+35/‑161) | PP_2588/PP_2589 | Aminotransferase, class III/Aldehyde dehydrogenase family protein |
| ? | AE015451 | 2957165 = | 25 (0.400) | intergenic (+120/‑76) | PP_2588/PP_2589 | Aminotransferase, class III/Aldehyde dehydrogenase family protein | |||||
| * | ? | AE015451 | = 4808176 | 12 (0.190) | 5 (0.080) | 4/584 | 5.6 | 25.2% | intergenic (‑285/‑270) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | 4808280 = | 18 (0.290) | intergenic (‑389/‑166) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | AE015451 | 5545080 = | 48 (0.760) | 136 (2.180) | 4/594 | 5.7 | 74.1% | intergenic (‑220/+657) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB |
| ? | AE015451 | = 5545666 | NA (NA) | intergenic (‑806/+71) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB | |||||
| * | ? | AE015451 | = 4892113 | 1 (0.020) | 4 (0.060) +GCGGC |
4/590 | 5.7 | 42.5% | coding (1275/1275 nt) coding (4/1416 nt) |
ttuD pyk |
putative hydroxypyruvate reductase Pyruvate kinase |
| ? | AE015451 | 4893627 = | 10 (0.160) | intergenic (+102/‑106) | pyk/PP_4302 | Pyruvate kinase/Urea transporter | |||||
| * | ? | AE015451 | = 1531731 | 19 (0.300) | 4 (0.060) | 4/586 | 5.7 | 17.9% | coding (145/630 nt) | PP_1344 | conserved protein of unknown function |
| ? | AE015451 | 1531839 = | 18 (0.290) | coding (37/630 nt) | PP_1344 | conserved protein of unknown function | |||||
| * | ? | AE015451 | = 337790 | 14 (0.220) | 4 (0.060) | 4/588 | 5.7 | 20.1% | intergenic (‑40/+89) | PP_0279/PP_0280 | conserved protein of unknown function/Amino acid ABC transporter, permease protein |
| ? | AE015451 | 337853 = | 18 (0.290) | intergenic (‑103/+26) | PP_0279/PP_0280 | conserved protein of unknown function/Amino acid ABC transporter, permease protein | |||||
| * | ? | AE015451 | 4969528 = | 81 (1.280) | 3 (0.050) | 3/574 | 6.1 | 3.7% | coding (715/2064 nt) | fliC | flagellin, filament structural protein |
| ? | AE015451 | = 4969524 | 77 (1.280) | coding (719/2064 nt) | fliC | flagellin, filament structural protein | |||||