| 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 | . | 94.8% | 158.6 / ‑0.2 | 38 | intergenic (+124/‑367) | oprD_1/czcR_2 | Porin D/Transcriptional activator protein CzcR |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base . (12/24); total (14/24) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.51e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. | |||||||||||
AATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGC > KT2440/44168‑44420 | aaTTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTTGCGCCCATTGGGCGCCttttttttgc > 2:313050/1‑133 (MQ=255)aaTTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCttttttttgc < 5:309170/135‑3 (MQ=255)aaTTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGATCCTTTGGTAAAAGGTGGATATTTTGCGCCCATTGGGCGCCtttttttttc > 3:65628/1‑134 (MQ=255) cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAAtt > 4:158656/1‑133 (MQ=255) cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCa < 4:304784/135‑1 (MQ=255) gCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAg < 8:170006/133‑1 (MQ=255) ccAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAg < 5:12232/135‑1 (MQ=255) aGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGc < 2:11186/135‑1 (MQ=255) ggTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCGGGTTTTTTTG‑CAAAAAATGAATTAGGGGTTCGAATGTaagga > 6:33943/1‑131 (MQ=255) tAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg < 2:239545/134‑1 (MQ=255) tAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg < 5:115951/134‑1 (MQ=255) tAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg < 4:248778/134‑1 (MQ=255) cGAGCATTACGCAGTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAg < 4:42687/135‑1 (MQ=255) gAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAg > 6:124199/1‑134 (MQ=255) aGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGtt < 4:122166/135‑1 (MQ=255) aGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGtt < 5:124199/135‑1 (MQ=255) aTTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCAt < 8:261882/135‑1 (MQ=255) ttACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATg < 7:57979/135‑1 (MQ=255) tACGCATTCACCTTGAGTGTCTTAAGTGCTCCTTTGGTATAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGTAGTTCATGa < 4:61672/135‑1 (MQ=255) tACGCATTCACCTTGAGTGGCGTAAGTGCTCCTTTGGTACAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa < 8:292110/135‑1 (MQ=255) ccTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTT‑CAAAAAATTAAAATAGGCGTTGCATTTTAAGCATCGCATGCCCGGGAAGTTAAAGACTAAACCaa > 5:278344/1‑134 (MQ=255) ccTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCaa < 2:301593/134‑1 (MQ=255) ccTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCAAAAATTAAATTAGGCGTTCGATTTTAAGCATACCATGCCCGTGAAGTTGATTACAACACCaa > 3:24505/1‑134 (MQ=255) aGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAcc < 3:227874/134‑1 (MQ=255) tGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGt < 3:158656/135‑1 (MQ=255) cTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACAAGtctc > 4:136052/1‑135 (MQ=255) tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAATTTGGCGTTCGATTGTAAGCATCGCATGCCGGTGAAGTTAAAGACTACACCACTGACCAggcgct > 4:15684/1‑129 (MQ=255) tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATTACTACACCAATGACCAGTctct > 8:208153/1‑134 (MQ=255) tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTAGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTctct > 8:213308/1‑134 (MQ=255) aaGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg < 2:5710/99‑1 (MQ=255) aaGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg > 1:5710/1‑99 (MQ=255) tCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAAtgt < 3:11969/134‑1 (MQ=255) ttGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCg > 4:16943/1‑135 (MQ=255) ggTAAAAGGTGGAAATTTGGCGCCCATTGGTCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCTTGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGa < 7:163655/134‑1 (MQ=255) tAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc < 7:102056/111‑1 (MQ=255) tAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc > 8:102056/1‑111 (MQ=255) atTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGCTTGTACGCATCGCAAGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATc > 7:53154/1‑133 (MQ=255) atTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTg < 3:167229/135‑1 (MQ=255) gcCCATTGGGCGCC‑TTTTTTTTGGGGAAAATTCAAGTAGGGGGTCGATTGTTCGCAGAGCCTGCCGGGGACGTGGATGTCTTACCCCATGCGCAGTCTCTTAAATTTGAGGGCCCGCGCCGGCATCTGGGCggga > 2:174234/1‑133 (MQ=255) cATTGTGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGa < 6:97530/135‑1 (MQ=255) gggCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGc < 7:121541/134‑1 (MQ=255) | AATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGC > KT2440/44168‑44420 |
| 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: ‑ |