mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 252 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002745 | 1,831,581 | 0 | A | T | 74.3% | 1920.3 / inf | 956 | I148I (ATA→ATT) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,428 | 0 | C | T | 72.9% | 1679.0 / inf | 952 | F97F (TTC→TTT) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,587 | 0 | C | T | 72.3% | 1449.1 / inf | 862 | D150D (GAC→GAT) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,590 | 0 | A | T | 72.3% | 1578.6 / inf | 862 | T151T (ACA→ACT) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,623 | 0 | G | T | 71.2% | 1252.2 / inf | 778 | V162V (GTG→GTT) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,618 | 0 | C | T | 70.5% | 1181.9 / inf | 785 | L161L (CTA→TTA) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,416 | 0 | T | C | 70.5% | 1456.0 / inf | 903 | G93G (GGT→GGC) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,605 | 0 | G | A | 70.5% | 1165.5 / inf | 786 | L156L (TTG→TTA) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,611 | 0 | G | A | 70.5% | 1158.6 / inf | 786 | V158V (GTG→GTA) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,597 | 0 | T | C | 70.4% | 1252.4 / inf | 786 | L154L (TTA→CTA) ‡ | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,614 | 0 | C | T | 70.3% | 1154.2 / inf | 787 | S159S (AGC→AGT) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,593 | 0 | T | A | 70.2% | 1274.0 / inf | 786 | T152T (ACT→ACA) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,617 | 0 | T | C | 70.2% | 1312.1 / inf | 786 | N160N (AAT→AAC) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,596 | 0 | T | A | 70.2% | 1269.9 / inf | 786 | S153S (TCT→TCA) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,608 | 0 | C | T | 69.9% | 1161.7 / inf | 791 | I157I (ATC→ATT) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,602 | 0 | T | C | 69.8% | 1272.6 / inf | 791 | P155P (CCT→CCC) | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,831,599 | 0 | A | T | 69.6% | 1310.1 / inf | 794 | L154F (TTA→TTT) ‡ | arsB | arsenite efflux transporter membrane subunit ArsB |
| * | NC_002745 | 1,856,529 | 0 | T | C | 68.2% | 685.3 / inf | 447 | intergenic (‑139/‑6) | SA_RS14770/pepA1 | IS3 family transposase/type I toxin‑antitoxin system Fst family toxin PepA1 |
| * | NC_002745 | 1,856,530 | 1 | . | T | 68.0% | 1222.7 / inf | 447 | intergenic (‑140/‑5) | SA_RS14770/pepA1 | IS3 family transposase/type I toxin‑antitoxin system Fst family toxin PepA1 |
| * | NC_002745 | 1,856,533 | 0 | A | C | 67.9% | 860.0 / inf | 449 | intergenic (‑143/‑2) | SA_RS14770/pepA1 | IS3 family transposase/type I toxin‑antitoxin system Fst family toxin PepA1 |
| Marginal new junction evidence (lowest skew 10 of 52 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002745 | = 1691151 | NA (NA) | 19 (0.070) | 10/464 | 8.9 | NA | pseudogene (535/540 nt) | radC | DNA repair protein RadC |
| ? | NC_002745 | 2671111 = | NA (NA) | intergenic (‑4/+228) | SA_RS13640/SA_RS13645 | serine protease/class I SAM‑dependent methyltransferase | |||||
| * | ? | NC_002745 | 866875 = | NA (NA) | 22 (0.080) | 10/464 | 8.9 | NA | intergenic (+2/‑133) | SA_RS04340/SA_RS04345 | DUF1963 domain‑containing protein/tyrosine‑type recombinase/integrase |
| ? | NC_002745 | = 873586 | NA (NA) | pseudogene (1/291 nt) | SA_RS04375 | DUF1963 domain‑containing protein | |||||
| * | ? | NC_002745 | 777410 = | 304 (1.130) | 16 (0.060) | 9/464 | 9.2 | 4.5% | intergenic (+399/+480) | SA_RS03870/SA_RS03880 | 5'‑3'‑deoxyribonucleotidase/diacylglycerol kinase family lipid kinase |
| ? | NC_002745 | = 2526748 | 379 (1.400) | intergenic (+228/+134) | SA_RS12920/SA_RS12925 | CPBP family intramembrane metalloprotease/MFS transporter | |||||
| * | ? | NC_002745 | 777410 = | 304 (1.130) | 16 (0.060) | 9/464 | 9.2 | 5.6% | intergenic (+399/+480) | SA_RS03870/SA_RS03880 | 5'‑3'‑deoxyribonucleotidase/diacylglycerol kinase family lipid kinase |
| ? | NC_002745 | 1066550 = | 240 (0.890) | intergenic (+64/+182) | SA_RS05320/SA_RS05325 | TrkA family potassium uptake protein/ribonuclease J | |||||
| * | ? | NC_002745 | 777410 = | 306 (1.130) | 7 (0.030) | 7/464 | 10.0 | 2.0% | intergenic (+399/+480) | SA_RS03870/SA_RS03880 | 5'‑3'‑deoxyribonucleotidase/diacylglycerol kinase family lipid kinase |
| ? | NC_002745 | 2808693 = | 376 (1.390) | intergenic (‑234/+217) | SA_RS14280/noc | DUF3147 family protein/nucleoid occlusion protein | |||||
| * | ? | NC_002745 | 777410 = | 306 (1.130) | 7 (0.030) | 7/464 | 10.0 | 1.9% | intergenic (+399/+480) | SA_RS03870/SA_RS03880 | 5'‑3'‑deoxyribonucleotidase/diacylglycerol kinase family lipid kinase |
| ? | NC_002745 | = 2635228 | 435 (1.610) | intergenic (+458/‑80) | SA_RS13435/copZ | heavy metal translocating P‑type ATPase/copper chaperone CopZ | |||||
| * | ? | NC_002745 | = 612200 | 219 (0.810) | 10 (0.040) | 7/460 | 10.0 | 4.4% | coding (3758/4158 nt) | sdrD | MSCRAMM family adhesin SdrD |
| ? | NC_002745 | 612207 = | 214 (0.800) | coding (3765/4158 nt) | sdrD | MSCRAMM family adhesin SdrD | |||||
| * | ? | NC_002745 | 607597 = | 173 (0.640) | 8 (0.030) +GCTGTCTGAGTCTGAG |
6/432 | 10.1 | 3.8% | coding (2383/2862 nt) | sdrC | MSCRAMM family adhesin SdrC |
| ? | NC_002745 | = 607832 | 265 (0.980) | coding (2618/2862 nt) | sdrC | MSCRAMM family adhesin SdrC | |||||
| * | ? | NC_002745 | = 776241 | 257 (0.950) | 14 (0.050) +GCCGGCAAGGT |
6/442 | 10.2 | 6.1% | intergenic (+111/‑228) | hisC/SA_RS03870 | histidinol‑phosphate transaminase/5'‑3'‑deoxyribonucleotidase |
| ? | NC_002745 | 1952189 = | 192 (0.710) | intergenic (+194/+237) | SA_RS09785/SA_RS09790 | aromatic acid exporter family protein/hypothetical protein | |||||
| * | ? | NC_002745 | = 776241 | 257 (0.950) | 14 (0.050) +GCCG |
6/456 | 10.4 | 4.3% | intergenic (+111/‑228) | hisC/SA_RS03870 | histidinol‑phosphate transaminase/5'‑3'‑deoxyribonucleotidase |
| ? | NC_002745 | 2808686 = | 375 (1.390) | intergenic (‑227/+224) | SA_RS14280/noc | DUF3147 family protein/nucleoid occlusion protein | |||||