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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 2,170,734 | 0 | G | T | 45.5% | ‑2.6 / 13.7 | 34 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 4,165,449 | 0 | C | T | 26.2% | 76.7 / 29.1 | 42 | noncoding (50/85 nt) | tyrU | tRNA‑Tyr |
| * | CP009273 | 4,165,450 | 0 | A | C | 26.2% | 81.4 / 25.5 | 42 | noncoding (51/85 nt) | tyrU | tRNA‑Tyr |
| * | CP009273 | 2,222,669 | 0 | T | A | 24.2% | 108.3 / 11.1 | 71 | intergenic (+125/+248) | yohP/dusC | uncharacterized protein/tRNA‑dihydrouridine synthase C |
| * | CP009273 | 763,412 | 0 | C | A | 22.7% | 96.6 / 14.0 | 66 | P658Q (CCA→CAA) | mngA | fused 2‑O‑a‑mannosyl‑D‑glycerate specific PTS enzymes: IIA component/IIB component/IIC component |
| * | CP009273 | 1,417,757 | 0 | C | G | 20.8% | 45.4 / 12.5 | 24 | pseudogene (300/444 nt) P34R (CCG→CGG) | rzpR rzoR | pseudogene, Rac prophage; Bacteriophage Rz lysis protein family;Phage or Prophage Related; putative Rac prophage endopeptidase; completely contained in another CDS Rac prophage; putative lipoprotein |
| * | CP009273 | 910,646 | 0 | C | G | 20.3% | 175.5 / 21.2 | 74 | intergenic (‑333/+162) | ybjE/aqpZ | putative transporter/aquaporin Z |
| * | CP009273 | 1,172,674 | 0 | G | A | 20.0% | 67.0 / 11.8 | 30 | L200L (CTG→CTA) | lolD | outer membrane‑specific lipoprotein transporter subunit |
| * | CP009273 | 2,222,692 | 0 | G | C | 20.0% | 170.1 / 16.5 | 70 | intergenic (+148/+225) | yohP/dusC | uncharacterized protein/tRNA‑dihydrouridine synthase C |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 4363103 = | 23 (0.810) | 17 (0.600) | 3/220 | 2.2 | 42.5% | noncoding (90/99 nt) | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | 4364325 = | NA (NA) | noncoding (11/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | = 370616 | 65 (1.860) | 10 (0.290) +T |
4/268 | 2.2 | 13.4% | noncoding (231/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | = 372947 | NA (NA) | noncoding (157/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 233090 = | 28 (0.800) | 3 (0.090) | 3/252 | 2.4 | 10.2% | coding (537/732 nt) | dnaQ | DNA polymerase III epsilon subunit |
| ? | CP009273 | 1370463 = | 27 (0.830) | coding (173/789 nt) | ycjR | putative TIM alpha/beta barrel enzyme | |||||
| * | ? | CP009273 | = 1678612 | 19 (0.540) | 3 (0.090) | 3/264 | 2.5 | 13.2% | coding (97/930 nt) | tus | inhibitor of replication at Ter, DNA‑binding protein |
| ? | CP009273 | = 1732498 | 21 (0.610) | coding (398/1026 nt) | purR | transcriptional repressor, hypoxanthine‑binding | |||||
| * | ? | CP009273 | = 366183 | NA (NA) | 5 (0.140) | 3/266 | 2.5 | 17.5% | noncoding (193/1223 nt) | IS30 | repeat region |
| ? | CP009273 | = 610188 | 24 (0.690) | coding (576/3882 nt) | entF | enterobactin synthase multienzyme complex component, ATP‑dependent | |||||