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 | 1,070,246 | 2 | . | A | 77.8% | 70.4 / 16.2 | 27 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger related‑protein |
| * | AE015451 | 1,070,246 | 1 | . | G | 76.9% | 69.4 / 16.7 | 27 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger related‑protein |
| * | AE015451 | 2,550,125 | 0 | G | A | 66.2% | 22.7 / 60.4 | 72 | noncoding (1436/1522 nt) | PP_16SF | 16S ribosomal RNA |
| * | AE015451 | 699,722 | 0 | A | G | 59.0% | 29.8 / 136.7 | 123 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | AE015451 | 196,438 | 0 | T | C | 49.4% | 21.6 / 122.3 | 90 | S648S (AGT→AGC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,459 | 0 | C | A | 45.0% | 53.2 / 128.8 | 102 | T655T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,495 | 0 | G | C | 44.3% | 49.6 / 152.3 | 107 | T667T (ACG→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 1,327,121 | 0 | C | T | 42.6% | 62.4 / 134.3 | 109 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | AE015451 | 4,348,705 | 0 | A | G | 41.3% | 62.3 / 129.0 | 109 | intergenic (‑70/+404) | PP_3820/galU | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | AE015451 | 195,559 | 0 | C | A | 39.0% | 69.4 / 79.1 | 84 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 195,634 | 0 | C | T | 35.7% | 47.8 / 68.5 | 89 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,579 | 0 | G | A | 35.7% | 72.7 / 96.9 | 119 | V695V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,432 | 0 | T | C | 35.3% | 79.3 / 69.0 | 89 | T646T (ACT→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,879 | 0 | G | A | 31.4% | 105.1 / 71.7 | 118 | V795V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,372 | 0 | A | G | 28.4% | 81.1 / 43.0 | 75 | K626K (AAA→AAG) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,489 | 0 | T | C | 26.2% | 145.3 / 45.7 | 106 | N665N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 197,632 | 0 | T | C | 25.4% | 82.1 / 18.7 | 56 | T1046T (ACT→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 441,326 | 0 | G | . | 25.4% | 134.2 / 48.9 | 55 | coding (207/1173 nt) | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | AE015451 | 195,505 | 0 | C | G | 23.9% | 133.3 / 38.1 | 67 | A337A (GCC→GCG) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 196,795 | 0 | G | C | 23.4% | 109.5 / 30.7 | 81 | T767T (ACG→ACC) | PP_0168 | putative surface adhesion protein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AE015451 | = 4022305 | 29 (0.430) | 9 (0.140) | 9/580 | 4.3 | 26.9% | coding (1/942 nt) | PP_3547 | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
| ? | AE015451 | 4022806 = | 21 (0.320) | intergenic (‑501/+167) | PP_3547/emrB | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/multidrug efflux transport system ‑ permease subunit | |||||
| * | ? | AE015451 | 4808174 = | 1 (0.010) | 6 (0.100) | 5/530 | 5.4 | 28.0% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | = 5988935 | 30 (0.500) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | AE015451 | = 5201567 | 18 (0.260) | 5 (0.070) | 5/594 | 5.9 | 24.5% | intergenic (‑53/‑127) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase |
| ? | AE015451 | 5201666 = | 13 (0.190) | intergenic (‑152/‑28) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase | |||||
| * | ? | AE015451 | 5496516 = | 104 (1.530) | 4 (0.060) | 4/578 | 6.2 | 3.8% | coding (169/1332 nt) | cobG | putative precorrin‑3B synthase |
| ? | AE015451 | = 5496512 | 102 (1.550) | coding (173/1332 nt) | cobG | putative precorrin‑3B synthase | |||||
| * | ? | AE015451 | 5545080 = | 53 (0.780) | 156 (2.310) | 4/594 | 6.3 | 74.8% | 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 | 973724 = | 81 (1.190) | 4 (0.060) | 4/598 | 6.3 | 5.2% | coding (143/909 nt) | secF | Sec translocation complex subunit SecF |
| ? | AE015451 | 3952435 = | 64 (0.940) | coding (115/657 nt) | PP_3488 | Sco1/SenC family protein | |||||
| * | ? | AE015451 | 274147 = | 88 (1.290) | 3 (0.050) | 3/582 | 6.7 | 3.4% | coding (423/801 nt) | PP_0221 | methionine ABC transporter periplasmic‑binding lipoprotein (metQ‑like protein) |
| ? | AE015451 | = 274143 | 86 (1.300) | coding (427/801 nt) | PP_0221 | methionine ABC transporter periplasmic‑binding lipoprotein (metQ‑like protein) | |||||
| * | ? | AE015451 | 71309 = | 95 (1.390) | 3 (0.040) | 3/592 | 6.8 | 4.0% | coding (596/2055 nt) | glyS | glycine‑tRNA ligase beta subunit |
| ? | AE015451 | = 2773920 | 50 (0.740) | coding (924/1053 nt) | calA | coniferyl alcohol dehydrogenase | |||||
| * | ? | AE015451 | = 264198 | 66 (0.970) | 3 (0.040) | 3/600 | 6.9 | 4.4% | coding (949/1443 nt) | gabD‑I | succinate‑semialdehyde dehydrogenase (NADP+) |
| ? | AE015451 | = 2410920 | 65 (0.950) | coding (528/2742 nt) | acnA‑I | aconitate hydratase 1 | |||||