| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913_3_pae_tpiA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_pae_tpiA | 2,173,361 | 0 | C | . | 96.9% | 134.7 / ‑1.5 | 33 | pseudogene (2/442 nt) | gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base . (18/13); total (19/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 | |||||||||||
| * | NC_000913_3_pae_tpiA | 2,173,362 | 0 | C | . | 96.9% | 135.1 / ‑2.5 | 33 | pseudogene (1/442 nt) | gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| Reads supporting (aligned to +/- strand): ref base C (1/0); major base . (18/13); minor base T (0/1); total (19/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.38e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
GAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCC > NC_000913_3_pae_tpiA/2173215‑2173494 || aaaCAGATAACCACGATGCACGACGACCGCGATCGCCACGAAGAAGCCGATGGTGGCAAGAGCACCAAACAGCA‑ACACCGGATTACCCGGCACACAAACAGCAATAAAAATGTGTAGTCGGATAAAAATCAGGCTTGCGGATACCAccc > 2:18902/2‑149 (MQ=255) aGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATaccaccgccgt < 1:135787/149‑6 (MQ=255) cACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGACCGTGGGGTACAAATCAGGCTTGCCGATACCA‑‑CCGCCGTCTGTccc > 2:130057/1‑149 (MQ=255) cACGGCGACCGCCATCGCCACGAAGAAGACGAGGGGGACAAGCTGGCCAAGCGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑ACGCCGTATGTCCCAgcagca > 1:89426/1‑149 (MQ=255) ccGGCGACCGCGATCGGCACGAAGAAGCCGAGGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATGAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCaa < 2:548327/148‑1 (MQ=255) cGACCGCCATAGCCACGAAGAAGCCGCTGGTGGCAAGACCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATAC‑‑CCCCGCCGCATGTCCCAGCATCAACGcc > 2:284145/1‑149 (MQ=255) gCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GGACCTGATTACCCGGCACACAAACAGCAATTAAAAGGGGGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATc < 1:284145/149‑1 (MQ=255) aTCGCCACGAAGAAGCCGATGGTGGCAAGACCGCCAAACGGCA‑GCCCATGATTACCCGGCACACAAACAGCAATTAAAATGGTGGGCTCGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAg < 1:518979/149‑1 (MQ=255) tCGCCACGAAGAAGCCGAGGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAgg < 1:430688/149‑1 (MQ=255) cACGAATAATCTGATGGTGCCATATACTCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCaa > 2:601477/1‑149 (MQ=255) cACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCaa > 1:526623/1‑149 (MQ=255) aCGAAGAAGCTGTTGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAAt > 2:149700/1‑149 (MQ=255) aCGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAAt < 1:149700/149‑1 (MQ=255) cGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAAGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCCACGCCGCATCAATGCCAATc > 2:239796/1‑149 (MQ=255) aaataagCCGATGGGGGCAAGATCGCCAAAGGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCa < 2:554247/145‑1 (MQ=255) aagaagCCGATGGTGGCAAGATCGCGAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAg < 2:464709/149‑1 (MQ=255) aagCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAGACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGaa > 1:370381/1‑149 (MQ=255) aagCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGaa < 2:248517/149‑1 (MQ=255) gCCGATGATGGCAAGATCGCCCACCAGAATGCACC‑GATTACCCGGCACACAAACAGCCATTAAAATGGTAAGTAGGACAAAAATCAGCCTTGCCGATTTCA‑‑CCGCCCTATCTCCCACCAGCAACTCCCGACCACGCCCCATCTGCAAcc > 2:135383/1‑148 (MQ=255) aTGGTGGCAAGATCGCCAAACGGCA‑GCACCTGAGTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGGCCCAGCAGCAGCGCCGGATCAAGGCCAATCAGGAACTCCTg > 2:3636/1‑149 (MQ=255) tggtggCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGa > 1:465352/1‑149 (MQ=255) cAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGcc > 1:77589/1‑149 (MQ=255) gATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGa > 2:23876/1‑149 (MQ=255) cccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGa < 1:506405/90‑1 (MQ=255) cccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGa > 2:506405/1‑90 (MQ=255) ccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCTGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGc > 1:608964/1‑149 (MQ=255) ccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGc > 1:80957/1‑149 (MQ=255) acaAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTa < 2:549440/145‑1 (MQ=255) acaAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTa > 1:549440/1‑145 (MQ=255) acaAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGa > 1:393453/1‑149 (MQ=255) aGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCg > 2:418795/1‑149 (MQ=255) gTGGGACAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCatgatg < 1:23876/149‑1 (MQ=255) aaaaaTCAGGATTGCCGATAC‑‑GTTCGCCGTATGTCCCAGCAGCATCGCCGGATCAAGGCCAATCAGGAACTCCTGCCCGCCGAACTCCGCCTGTAAACGACGACGAGCCTGCTGAGCGATGGGCGTTAAACCATCCATGATGGGTTTaa < 2:580910/149‑1 (MQ=255) aaTCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCa < 1:567726/149‑1 (MQ=255) cAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCAccc < 1:601477/149‑1 (MQ=255) || GAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCA‑GCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCC > NC_000913_3_pae_tpiA/2173215‑2173494 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |