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 | 1,544,021 | 1 | . | A | 70.6% | 77.2 / 31.1 | 34 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_hsa_tpiA | 1,544,022 | 1 | . | A | 21.9% | 73.3 / 28.3 | 32 | coding (39/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_hsa_tpiA | 4,296,042 | 0 | C | T | 21.4% | 120.5 / 29.8 | 71 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 192 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | 1269119 = | NA (NA) | 7 (0.170) | 7/268 | 4.3 | 14.2% | intergenic (+100/+49) | kdsA/ldrA | 3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase/toxic polypeptide, small |
| ? | NC_000913_3_hsa_tpiA | 1269628 = | 45 (1.040) | intergenic (+239/+75) | rdlA/ldrB | sRNA antisense regulator affects LdrA translation; proposed addiction module in LDR‑A repeat, with toxic peptide LdrA/toxic polypeptide, small | |||||
| * | ? | NC_000913_3_hsa_tpiA | 1269102 = | NA (NA) | 8 (0.200) | 7/268 | 4.3 | 28.0% | intergenic (+83/+66) | kdsA/ldrA | 3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase/toxic polypeptide, small |
| ? | NC_000913_3_hsa_tpiA | 1269110 = | 22 (0.510) | intergenic (+91/+58) | kdsA/ldrA | 3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase/toxic polypeptide, small | |||||
| * | ? | NC_000913_3_hsa_tpiA | 3423823 = | NA (NA) | 8 (0.190) | 7/274 | 4.4 | 13.4% | intergenic (‑36/+57) | rrfD/rrlD | 5S ribosomal RNA of rrnD operon/23S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_hsa_tpiA | = 3946688 | 54 (1.240) | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 3423817 = | 0 (0.000) | 8 (0.190) | 7/274 | 4.4 | 100% | intergenic (‑30/+63) | rrfD/rrlD | 5S ribosomal RNA of rrnD operon/23S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_hsa_tpiA | = 4040499 | NA (NA) | intergenic (+76/‑18) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2726200 = | NA (NA) | 8 (0.190) | 7/274 | 4.4 | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_hsa_tpiA | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 624658 | 48 (1.110) | 7 (0.170) | 7/276 | 4.4 | 12.1% | intergenic (‑148/‑227) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| ? | NC_000913_3_hsa_tpiA | = 624671 | 55 (1.310) | intergenic (‑161/‑214) | fepB/entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 228744 | 42 (0.970) | 8 (0.190) | 7/274 | 4.4 | 16.6% | intergenic (+82/‑12) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_hsa_tpiA | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4245080 = | NA (NA) | 6 (0.150) | 6/266 | 4.6 | NA | noncoding (7/126 nt) | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 4245106 = | NA (NA) | noncoding (33/126 nt) | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4542672 | 34 (0.780) | 7 (0.170) | 6/268 | 4.7 | 19.2% | 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 | 27 (0.660) | 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 | 4542664 = | 34 (0.780) | 6 (0.150) | 6/268 | 4.7 | 16.9% | 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 = | 27 (0.660) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||