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_3_hsa_tpiA | 1,100,746 | 0 | A | C | 73.1% | 79.9 / 31.7 | 52 | K151Q (AAG→CAG) | ycdZ | DUF1097 family inner membrane protein |
| * | NC_000913_3_hsa_tpiA | 11,155 | 0 | C | A | 71.1% | 46.2 / 29.0 | 45 | G68* (GGA→TGA) | yaaW | UPF0174 family protein |
| * | NC_000913_3_hsa_tpiA | 3,815,814 | 0 | C | A | 68.4% | 60.3 / 40.4 | 57 | intergenic (‑46/+20) | pyrE/rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| * | NC_000913_3_hsa_tpiA | 1,212,080 | 1 | . | C | 59.2% | 83.6 / 78.4 | 49 | intergenic (‑77/+623) | iraM/ycgX | RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein |
| * | NC_000913_3_hsa_tpiA | 4,296,042 | 0 | C | T | 29.6% | 126.9 / 63.4 | 98 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_hsa_tpiA | 3,815,809 | 0 | G | . | 25.4% | 134.2 / 48.8 | 56 | intergenic (‑41/+25) | pyrE/rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| Marginal new junction evidence (lowest skew 10 of 30 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | = 4542672 | 39 (0.650) | 11 (0.200) | 10/264 | 5.4 | 20.5% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_hsa_tpiA | = 4542968 | 49 (0.870) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4094310 = | NA (NA) | 7 (0.130) +GCAATAGTTGTAG |
7/256 | 6.5 | 7.7% | intergenic (‑38/+413) | rhaD/rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| ? | NC_000913_3_hsa_tpiA | 4094633 = | 93 (1.550) | noncoding (318/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4094310 = | NA (NA) | 7 (0.130) +GCAATAGTTGTAG |
7/256 | 6.5 | 7.0% | intergenic (‑38/+413) | rhaD/rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| ? | NC_000913_3_hsa_tpiA | 4094449 = | 103 (1.710) | noncoding (134/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 59280 = | 71 (1.180) | 6 (0.110) | 6/248 | 6.8 | 8.7% | intergenic (+1/+407) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913_3_hsa_tpiA | 59320 = | 63 (1.190) | intergenic (+41/+367) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4542664 = | 39 (0.650) | 6 (0.110) | 6/264 | 7.2 | 12.3% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_hsa_tpiA | 4542978 = | 49 (0.870) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 458737 | 65 (1.080) | 7 (0.120) | 6/268 | 7.3 | 10.5% | intergenic (+37/‑151) | clpX/lon | ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La |
| ? | NC_000913_3_hsa_tpiA | = 458748 | 57 (1.000) | intergenic (+48/‑140) | clpX/lon | ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4094310 = | NA (NA) | 5 (0.090) +GCAATAGTTGTAG |
5/256 | 7.5 | NA | intergenic (‑38/+413) | rhaD/rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| ? | NC_000913_3_hsa_tpiA | 4285325 = | NA (NA) | noncoding (42/77 nt) | REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4094310 = | NA (NA) | 5 (0.090) +GCAATAGTTGTAG |
5/256 | 7.5 | 5.8% | intergenic (‑38/+413) | rhaD/rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| ? | NC_000913_3_hsa_tpiA | 4094541 = | 89 (1.480) | noncoding (226/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4094310 = | NA (NA) | 5 (0.090) +GCAATAGTTGTAG |
5/256 | 7.5 | NA | intergenic (‑38/+413) | rhaD/rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| ? | NC_000913_3_hsa_tpiA | 4094357 = | NA (NA) | noncoding (42/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 1502326 | 52 (0.870) | 5 (0.090) | 5/262 | 7.7 | 9.6% | intergenic (+171/‑131) | tehB/ydcL | tellurite, selenium methyltransferase, SAM‑dependent; tellurite, selenium resistance protein/lipoprotein |
| ? | NC_000913_3_hsa_tpiA | = 1502348 | 46 (0.820) | intergenic (+193/‑109) | tehB/ydcL | tellurite, selenium methyltransferase, SAM‑dependent; tellurite, selenium resistance protein/lipoprotein | |||||