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 91 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 65.2% | 14.3 / 22.8 | 23 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 64.5% | ‑0.5 / 20.5 | 31 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 1,673,561 | 0 | A | C | 60.0% | 9.7 / 13.7 | 15 | Y293S (TAC→TCC) | ydgH | DUF1471 family protein YdgH |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 59.0% | 6.2 / 69.0 | 61 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 766,368 | 0 | A | T | 57.9% | 2.3 / 19.9 | 19 | intergenic (+301/‑546) | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 57.4% | 13.9 / 68.6 | 61 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,571,502 | 0 | A | C | 57.1% | 9.0 / 16.6 | 14 | L79V (TTA→GTA) | maeB | NADP‑dependent oxaloacetate‑decarboxylating malate dehydrogenase |
| * | NZ_CP009273 | 353,586 | 0 | A | T | 56.2% | 0.8 / 41.5 | 32 | N272K (AAT→AAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 353,591 | 0 | T | C | 55.2% | 16.8 / 33.2 | 29 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 1,571,380 | 0 | A | C | 54.8% | 28.9 / 38.9 | 31 | V166G (GTA→GGA) | yddB | TonB‑dependent receptor plug domain‑containing protein |
| * | NZ_CP009273 | 642,203 | 0 | T | G | 53.3% | 4.3 / 20.3 | 15 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase CitG |
| * | NZ_CP009273 | 2,356,900 | 0 | T | C | 52.9% | 7.0 / 20.8 | 17 | G71G (GGA→GGG) | yfaY | nicotinamide mononucleotide deamidase‑related protein YfaY |
| * | NZ_CP009273 | 2,852,477 | 0 | G | A | 52.6% | 6.3 / 18.4 | 19 | E676K (GAA→AAA) | mutS | DNA mismatch repair protein MutS |
| * | NZ_CP009273 | 1,906,007 | 0 | T | G | 52.4% | 16.5 / 27.1 | 23 | H276P (CAC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 3,344,212 | 0 | A | C | 51.5% | 35.5 / 51.4 | 33 | S725A (TCA→GCA) | arcB | aerobic respiration two‑component sensor histidine kinase ArcB |
| * | NZ_CP009273 | 70,068 | 0 | A | C | 50.0% | 41.4 / 13.7 | 36 | V314G (GTA→GGA) | thiP | thiamine/thiamine pyrophosphate ABC transporter permease ThiP |
| * | NZ_CP009273 | 349,999 | 0 | T | G | 49.2% | 74.2 / 30.8 | 63 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NZ_CP009273 | 4,058,958 | 0 | G | A | 48.6% | 29.3 / 19.9 | 35 | L57L (CTG→TTG) | yihO | MFS transporter |
| * | NZ_CP009273 | 595,032 | 0 | T | G | 48.1% | 11.1 / 26.1 | 27 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 1,377,979 | 0 | G | A | 47.8% | 11.8 / 13.6 | 23 | F80F (TTC→TTT) | ycjW | LacI family DNA‑binding transcriptional regulator |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 1203246 = | 24 (0.590) | 3 (0.090) | 3/134 | 2.4 | 14.5% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 16 (0.480) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 3401657 | 78 (1.910) | 3 (0.070) | 3/166 | 2.8 | 3.6% | coding (692/1452 nt) | panF | sodium/pantothenate symporter |
| ? | NZ_CP009273 | = 3401664 | 82 (2.010) | coding (699/1452 nt) | panF | sodium/pantothenate symporter | |||||