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 | ||
| * | NC_000913 | 1,864,758 | 0 | G | A | 29.6% | 35.5 / 15.5 | 27 | intergenic (+24/+24) | yeaD/yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| * | NC_000913 | 1,864,763 | 0 | A | T | 29.6% | 34.9 / 18.6 | 27 | intergenic (+29/+19) | yeaD/yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| * | NC_000913 | 1,864,768 | 0 | T | C | 29.6% | 33.5 / 16.3 | 27 | intergenic (+34/+14) | yeaD/yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| * | NC_000913 | 3,270,194 | 0 | G | T | 28.6% | 37.3 / 10.6 | 21 | intergenic (+592/+22) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| * | NC_000913 | 3,270,195 | 0 | A | C | 27.3% | 35.4 / 12.2 | 23 | intergenic (+593/+21) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| * | NC_000913 | 2,767,462 | 1 | . | G | 23.5% | 31.0 / 15.7 | 17 | intergenic (+107/‑248) | rnlB/yfjP | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| * | NC_000913 | 3,629,495 | 0 | A | T | 23.1% | 46.8 / 11.4 | 26 | L15Q (CTG→CAG) | rbbA | ribosome‑associated ATPase: ATP‑binding protein/ATP‑binding membrane protein |
| * | NC_000913 | 4,366,854 | 0 | T | G | 21.1% | 86.5 / 18.0 | 38 | intergenic (‑81/+37) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| * | NC_000913 | 4,366,855 | 0 | C | A | 20.5% | 92.6 / 18.4 | 39 | intergenic (‑82/+36) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| * | NC_000913 | 3,470,108 | 0 | A | C | 20.0% | 48.7 / 10.4 | 25 | intergenic (‑255/+37) | chiA/tufA | periplasmic endochitinase/translation elongation factor EF‑Tu 1 |
| * | NC_000913 | 3,528,480 | 0 | A | T | 20.0% | 75.4 / 14.6 | 35 | Y671F (TAC→TTC) ‡ | yrfF | putative RcsCDB‑response attenuator, inner membrane protein |
| * | NC_000913 | 3,528,481 | 0 | C | A | 20.0% | 83.1 / 14.7 | 35 | Y671* (TAC→TAA) ‡ | yrfF | putative RcsCDB‑response attenuator, inner membrane protein |
| Marginal new junction evidence (lowest skew 10 of 24 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1886825 | 22 (0.790) | 5 (0.200) | 5/218 | 2.7 | 17.2% | intergenic (+15/+39) | yeaX/rnd | putative YeaWX dioxygenase beta subunit, reductase component/ribonuclease D |
| ? | NC_000913 | = 1886846 | 28 (1.110) | intergenic (+36/+18) | yeaX/rnd | putative YeaWX dioxygenase beta subunit, reductase component/ribonuclease D | |||||
| * | ? | NC_000913 | 1929589 = | 33 (1.190) | 5 (0.190) | 5/230 | 2.8 | 14.6% | coding (119/660 nt) | yebE | DUF533 family inner membrane protein |
| ? | NC_000913 | 1929613 = | 27 (1.010) | coding (95/660 nt) | yebE | DUF533 family inner membrane protein | |||||
| * | ? | NC_000913 | 1570598 = | 46 (1.650) | 4 (0.160) +CCGTTACCGTTAAAC |
4/210 | 2.9 | 10.2% | intergenic (‑109/+47) | gadC/gadB | glutamate:gamma‑aminobutyric acid antiporter/glutamate decarboxylase B, PLP‑dependent |
| ? | NC_000913 | 3666176 = | 35 (1.260) | intergenic (‑366/+4) | gadX/gadA | acid resistance regulon transcriptional activator; autoactivator/glutamate decarboxylase A, PLP‑dependent | |||||
| * | ? | NC_000913 | 2077179 = | 36 (1.290) | 4 (0.150) | 4/224 | 3.1 | 11.7% | coding (68/369 nt) | cbeA | CP4‑44 prophage; cytoskeleton bundling‑enhancing factor A; CbtA antitoxin |
| ? | NC_000913 | 2077221 = | 27 (1.040) | coding (110/369 nt) | cbeA | CP4‑44 prophage; cytoskeleton bundling‑enhancing factor A; CbtA antitoxin | |||||
| * | ? | NC_000913 | 1878968 = | 23 (0.830) | 4 (0.160) | 4/220 | 3.1 | 15.1% | intergenic (+20/+39) | yoaJ/yeaQ | inner membrane‑associated protein/UPF0410 family protein |
| ? | NC_000913 | 1878994 = | 24 (0.940) | intergenic (+46/+13) | yoaJ/yeaQ | inner membrane‑associated protein/UPF0410 family protein | |||||
| * | ? | NC_000913 | 1243939 = | 17 (0.610) | 4 (0.150) | 4/224 | 3.1 | 17.1% | coding (589/735 nt) | ycgR | flagellar velocity braking protein, c‑di‑GMP‑regulated |
| ? | NC_000913 | 1243983 = | 23 (0.890) | coding (545/735 nt) | ycgR | flagellar velocity braking protein, c‑di‑GMP‑regulated | |||||
| * | ? | NC_000913 | = 505644 | 52 (1.870) | 6 (0.230) | 4/226 | 3.1 | 11.4% | coding (731/1653 nt) | ushA | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| ? | NC_000913 | = 505675 | 44 (1.680) | coding (762/1653 nt) | ushA | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase | |||||
| * | ? | NC_000913 | 430986 = | NA (NA) | 4 (0.150) | 4/226 | 3.1 | NA | noncoding (19/98 nt) | REP37 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP37 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 2714290 = | NA (NA) | noncoding (8/98 nt) | RIP188 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP188 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 430986 = | NA (NA) | 4 (0.150) | 4/226 | 3.1 | NA | noncoding (19/98 nt) | REP37 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP37 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 2549473 = | NA (NA) | noncoding (8/98 nt) | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 4 (0.160) | 4/222 | 3.1 | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||