| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | KT2440 | 44,293 | Δ1 bp | 100% | intergenic (+124/‑367) | oprD_1 → / → czcR_2 | Porin D/Transcriptional activator protein CzcR |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | KT2440 | 44,293 | 0 | T | . | 87.5% | 138.0 / 9.8 | 40 | intergenic (+124/‑367) | oprD_1/czcR_2 | Porin D/Transcriptional activator protein CzcR |
| Reads supporting (aligned to +/- strand): ref base T (2/0); major base . (12/23); minor base G (3/0); total (17/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.39e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
CTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGA > KT2440/44178‑44417 | cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAAtt > 1:151403/1‑133 (MQ=255) gggCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACATTGAGTGGCATAAGTGATCCTTTGCAAAATGGTGGATATTTGGCGCCCATTGGGAGCAGTTTTTTTTG‑CGAAAATTCaa > 3:137358/1‑134 (MQ=255) ccAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAg < 4:262837/135‑1 (MQ=255) aGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGc < 5:38856/135‑1 (MQ=255) aGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGc < 5:95255/135‑1 (MQ=255) aGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTAAAGTAGGc > 4:144113/1‑135 (MQ=255) ggTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGACTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcgca < 2:239271/135‑1 (MQ=255) tAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg < 3:306561/134‑1 (MQ=255) tAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg < 3:231771/134‑1 (MQ=255) aGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAATGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTATTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGtt < 7:233468/135‑1 (MQ=255) aGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATAGCATGCCGGTGAAGtt < 7:217890/135‑1 (MQ=255) aTTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCAt < 3:144113/135‑1 (MQ=255) tACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTT‑CCTAAAATTAAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGGGAAGTTCATGa > 8:165329/1‑135 (MQ=255) tACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa < 6:149524/135‑1 (MQ=255) tACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa > 3:344233/1‑135 (MQ=255) tACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa < 2:248757/135‑1 (MQ=255) tACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa < 4:36841/135‑1 (MQ=255) cATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTac < 2:151403/135‑1 (MQ=255) ccTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCaa > 5:87972/1‑134 (MQ=255) aGTGGCTTTAGTGCTCCTTTTGTAAAAGGTGGTTATTTGGCGCCGATTTGGCGTC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCTTGCGGGTGAAGTTCATGACTACACCAATGAcc < 4:137358/134‑1 (MQ=255) aGTGGCTTAAGTGCTCCTTTGGTAAAAGTTGGATTTTTGGCCCCCATTGGGCGCC‑GTTTTTTTGCCTAAAATTCAAGTATGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc < 4:217106/133‑1 (MQ=255) aGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAcc < 6:87972/134‑1 (MQ=255) gTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTTAAATTCAAGTAGGCGGTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACAACAATGACCa > 1:89391/1‑135 (MQ=255) tGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGt < 1:28908/135‑1 (MQ=255) ggCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTAATGTAGGCGTTCGTTTGTACGCATCGCTTGCCGGGGAAGTTAATTAGTACACCAATGCCCAGta > 3:305721/1‑134 (MQ=255) tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑GTTTTTTTGGCTAAAATTAAATTAGGCGTTCGGTTGTACGCCTCGCATGCCGGTGAAGTTGATTGCTACACCAAAGACCAGtgtcg > 3:217986/1‑133 (MQ=255) tAAGTGCTACTTTGGTAAAATCTGGATATTTGGCGCCCATTGGGCGCGGTTTTTTTTG‑CTAAAATTAAATTAGGCGTTCTATAGTAAGCCTAGCCTTACGCTGAAATTAATGACAAACCCAATAACCACtctca > 2:362004/1‑133 (MQ=255) aaGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGAGAAGTTCATGACTACACCAATGACCAGTCTCtt > 8:285421/1‑134 (MQ=255) aGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCa > 7:386892/1‑135 (MQ=255) aGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAAGGATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCttga > 7:373312/1‑133 (MQ=255) aGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGGTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCa > 6:199511/1‑135 (MQ=255) tttgTAAAACGGGGCTAATTTGCGCCCATTGGGCGCC‑GTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCg < 4:305721/132‑1 (MQ=255) aaaaGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTc < 3:309475/135‑1 (MQ=255) atTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTg < 5:71456/135‑1 (MQ=255) atTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTg > 6:71456/1‑135 (MQ=255) atTTGGCGCCCATTGGGCG‑CGGTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCCCGCCGTCATc > 7:129355/1‑133 (MQ=255) cgcCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCgg < 7:64171/134‑1 (MQ=255) cgcCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCgg < 8:135307/134‑1 (MQ=255) gcCGATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTACGGGTTCGTTTGTACGCATCGCATGCCGGGGAAGTTAATGACGACACCAAAGACCAGTCTCTACAATGTGAGCGACCTCGCCGTCATCTGAGCgg > 2:257042/1‑133 (MQ=255) cATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGa < 2:95354/135‑1 (MQ=255) | CTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGA > KT2440/44178‑44417 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |