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 | 39.7% | 40.1 / 34.4 | 74 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,475,299 | 0 | C | A | 26.4% | 148.6 / 14.9 | 88 | M119I (ATG→ATT) | emrY | putative multidrug efflux system |
| * | CP009273 | 2,170,766 | 0 | C | A | 26.4% | 126.9 / 21.1 | 72 | intergenic (‑83/+225) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,463,951 | 0 | G | T | 25.7% | 62.3 / 14.7 | 35 | intergenic (+10/‑343) | gtrS/tfaS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage/pseudogene, CPS‑53 (KpLE1) prophage; tail fiber assembly protein fragment;Phage or Prophage Related |
| * | CP009273 | 104,042 | 0 | A | T | 23.4% | 123.3 / 10.3 | 47 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 2,998,305 | 0 | G | T | 22.7% | 117.2 / 13.4 | 75 | Q281K (CAA→AAA) | ygeV | putative sigma‑54‑interacting transcriptional activator |
| * | CP009273 | 2,170,772 | 0 | T | A | 20.6% | 165.5 / 19.5 | 69 | intergenic (‑89/+219) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,170,746 | 0 | C | A | 20.5% | 135.4 / 10.6 | 74 | intergenic (‑63/+245) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 4362020 = | 99 (1.160) | 3 (0.040) | 3/260 | 6.5 | 3.2% | coding (1179/1647 nt) | groL | Cpn60 chaperonin GroEL, large subunit of GroESL |
| ? | CP009273 | = 4481305 | 84 (1.010) | coding (1038/1320 nt) | idnT | L‑idonate and D‑gluconate transporter | |||||
| * | ? | CP009273 | 4198362 = | NA (NA) | 3 (0.040) +TGC |
3/260 | 6.5 | 9.6% | noncoding (288/1542 nt) | rrsE | 16S ribosomal RNA of rrnE operon |
| ? | CP009273 | 4286120 = | 29 (0.340) | noncoding (398/530 nt) | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | CP009273 | 4198362 = | NA (NA) | 3 (0.040) +TGC |
3/260 | 6.5 | 6.7% | noncoding (288/1542 nt) | rrsE | 16S ribosomal RNA of rrnE operon |
| ? | CP009273 | 4285894 = | 43 (0.500) | noncoding (172/530 nt) | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences | RIP321 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | CP009273 | = 874762 | 78 (0.920) | 3 (0.040) | 3/258 | 6.5 | 3.1% | coding (565/1116 nt) | yliI | soluble aldose sugar dehydrogenase |
| ? | CP009273 | = 3298585 | 111 (1.340) | coding (592/1245 nt) | mtr | tryptophan transporter of high affinity | |||||
| * | ? | CP009273 | 4270936 = | 106 (1.240) | 3 (0.040) | 3/264 | 6.6 | 2.8% | coding (1029/1650 nt) | yjcE | putative cation/proton antiporter |
| ? | CP009273 | 4488862 = | NA (NA) | coding (451/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | 184470 = | 74 (0.870) | 3 (0.040) | 3/262 | 6.6 | 2.9% | coding (668/2673 nt) | glnD | uridylyltransferase |
| ? | CP009273 | = 3965512 | 125 (1.490) | coding (893/1263 nt) | wecC | UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase | |||||