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 | 34.3% | 132.9 / 95.8 | 108 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_hsa_tpiA | 3,439,588 | 0 | G | C | 25.0% | 185.1 / 68.3 | 88 | intergenic (‑79/+28) | yhdN/rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 |
| * | NC_000913_3_hsa_tpiA | 3,439,589 | 0 | G | C | 25.0% | 187.0 / 68.2 | 89 | intergenic (‑80/+27) | yhdN/rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 |
| * | NC_000913_3_hsa_tpiA | 4,051,259 | 0 | G | T | 20.4% | 137.8 / 27.4 | 54 | noncoding (224/245 nt) | csrC | CsrC sRNA sequesters CsrA, a carbon flux regulator |
| * | NC_000913_3_hsa_tpiA | 4,088,091 | 0 | G | C | 20.3% | 151.5 / 36.7 | 64 | intergenic (+34/+16) | yiiG/frvR | DUF3829 family lipoprotein/putative frv operon regulator; contains a PTS EIIA domain |
| * | NC_000913_3_hsa_tpiA | 3,156,590 | 0 | C | A | 20.3% | 181.8 / 37.3 | 74 | intergenic (+72/‑33) | yqhD/dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| Marginal new junction evidence (lowest skew 10 of 509 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | = 3944978 | NA (NA) | 17 (0.260) | 16/250 | 5.2 | 51.2% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_hsa_tpiA | = 4038811 | 17 (0.240) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 381292 = | NA (NA) | 16 (0.250) | 15/244 | 5.3 | NA | intergenic (‑32/‑59) | yaiX/insC1 | pseudogene, interrupted by IS2A; hexapeptide transferase superfamily; putative transferase/IS2 repressor TnpA |
| ? | NC_000913_3_hsa_tpiA | 381312 = | NA (NA) | intergenic (‑52/‑39) | yaiX/insC1 | pseudogene, interrupted by IS2A; hexapeptide transferase superfamily; putative transferase/IS2 repressor TnpA | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2727891 = | NA (NA) | 16 (0.240) | 15/250 | 5.5 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_hsa_tpiA | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 227052 | 33 (0.470) | 16 (0.240) | 15/250 | 5.5 | 33.7% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_hsa_tpiA | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 382205 | NA (NA) | 22 (0.320) | 14/260 | 6.1 | NA | coding (532/906 nt) | insD1 | IS2 transposase TnpB |
| ? | NC_000913_3_hsa_tpiA | = 382224 | NA (NA) | coding (551/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 274419 | NA (NA) | 19 (0.280) | 13/252 | 6.2 | 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 | = 3943635 | NA (NA) | 12 (0.180) | 12/248 | 6.4 | 35.5% | intergenic (+125/‑69) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_hsa_tpiA | = 4037446 | 23 (0.330) | intergenic (+111/‑73) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4583119 | 83 (1.190) | 13 (0.200) | 12/250 | 6.5 | 15.2% | intergenic (‑89/+112) | hsdM/hsdR | DNA methyltransferase M/endonuclease R Type I restriction enzyme |
| ? | NC_000913_3_hsa_tpiA | = 4583206 | 66 (0.990) | intergenic (‑176/+25) | hsdM/hsdR | DNA methyltransferase M/endonuclease R Type I restriction enzyme | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 2035297 | 78 (1.120) | 12 (0.190) | 11/238 | 6.5 | 14.8% | intergenic (+54/‑538) | yedS/hchA | pseudogene, outer membrane protein homology; putative outer membrane protein/glyoxalase III and Hsp31 molecular chaperone |
| ? | NC_000913_3_hsa_tpiA | = 2035305 | 67 (1.060) | intergenic (+62/‑530) | yedS/hchA | pseudogene, outer membrane protein homology; putative outer membrane protein/glyoxalase III and Hsp31 molecular chaperone | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4162121 = | NA (NA) | 13 (0.200) | 11/240 | 6.6 | NA | intergenic (+9/+31) | yijD/trmA | DUF1422 family inner membrane protein/tRNA m(5)U54 methyltransferase, SAM‑dependent; tmRNA m(5)U341 methyltransferase |
| ? | NC_000913_3_hsa_tpiA | 4162147 = | NA (NA) | intergenic (+35/+5) | yijD/trmA | DUF1422 family inner membrane protein/tRNA m(5)U54 methyltransferase, SAM‑dependent; tmRNA m(5)U341 methyltransferase | |||||