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 | 4,296,042 | 0 | C | T | 29.7% | 35.0 / 25.2 | 37 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_hsa_tpiA | 710,170 | 0 | C | T | 25.0% | 30.7 / 11.6 | 24 | intergenic (+54/+30) | chiQ/fur | chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor |
| * | NC_000913_3_hsa_tpiA | 710,173 | 0 | A | G | 24.0% | 25.0 / 11.6 | 25 | intergenic (+57/+27) | chiQ/fur | chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor |
| Marginal new junction evidence (lowest skew 10 of 27 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | = 4171785 | 28 (0.970) | 16 (0.560) | 5/276 | 3.1 | 39.2% | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| ? | NC_000913_3_hsa_tpiA | = 4213144 | 22 (0.770) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4465486 = | 28 (0.970) | 5 (0.180) | 4/264 | 3.4 | 16.8% | coding (677/1422 nt) | treB | trehalose‑specific PTS enzyme: IIB and IIC component |
| ? | NC_000913_3_hsa_tpiA | 4465514 = | 23 (0.850) | coding (649/1422 nt) | treB | trehalose‑specific PTS enzyme: IIB and IIC component | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3648122 | 21 (0.730) | 4 (0.150) | 4/264 | 3.4 | 13.4% | noncoding (60/84 nt) | agrA | inactive antisense sRNA |
| ? | NC_000913_3_hsa_tpiA | = 3648369 | 32 (1.180) | noncoding (76/84 nt) | agrB | antisense sRNA antitoxin for the DinQ toxin | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3648122 | 21 (0.730) | 4 (0.150) | 4/264 | 3.4 | 17.1% | noncoding (60/84 nt) | agrA | inactive antisense sRNA |
| ? | NC_000913_3_hsa_tpiA | = 3648138 | 19 (0.700) | noncoding (76/84 nt) | agrA | inactive antisense sRNA | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2257359 = | 28 (0.970) | 6 (0.220) | 4/270 | 3.4 | 19.1% | intergenic (‑24/+70) | psuT/psuG | putative nucleoside transporter/pseudouridine 5'‑phosphate glycosidase |
| ? | NC_000913_3_hsa_tpiA | 2257383 = | 24 (0.860) | intergenic (‑48/+46) | psuT/psuG | putative nucleoside transporter/pseudouridine 5'‑phosphate glycosidase | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2219648 = | NA (NA) | 4 (0.150) | 4/266 | 3.4 | 9.5% | noncoding (24/34 nt) | REP152 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP152 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_hsa_tpiA | = 4094342 | 38 (1.390) | noncoding (27/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 274419 | NA (NA) | 4 (0.140) | 4/270 | 3.4 | NA | coding (699/1017 nt) | insH1 | IS5 transposase and trans‑activator |
| ? | NC_000913_3_hsa_tpiA | = 274423 | NA (NA) | coding (695/1017 nt) | insH1 | IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4035358 | NA (NA) | 4 (0.140) | 4/278 | 3.5 | 100% | intergenic (+205/‑173) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon |
| ? | NC_000913_3_hsa_tpiA | = 4035386 | 0 (0.000) | intergenic (+233/‑145) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2731302 = | 13 (0.450) | 4 (0.140) | 4/278 | 3.5 | 23.7% | intergenic (‑145/+298) | rrsG/clpB | 16S ribosomal RNA of rrnG operon/protein disaggregation chaperone |
| ? | NC_000913_3_hsa_tpiA | = 4035358 | NA (NA) | intergenic (+205/‑173) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4053551 = | NA (NA) | 3 (0.120) | 3/248 | 3.6 | 9.7% | noncoding (22/84 nt) | REP294 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP294 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 4053590 = | 28 (1.100) | noncoding (61/84 nt) | REP294 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP294 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||