Locus 6596

Sequence ID 3R_DroMel_CAF1
Location 17,359,905 – 17,360,001
Length 96
Max. P 0.873945
window10740

overview

Window 0

Location 17,359,905 – 17,360,001
Length 96
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 79.33
Mean single sequence MFE -20.12
Consensus MFE -12.88
Energy contribution -12.88
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.64
SVM decision value 0.88
SVM RNA-class probability 0.873945
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17359905 96 + 27905053
CGCGGCAAGAGGAGCGAACG------GAAGCGAAAGGAGCAAAAGGAGCGGGCAGCCGCAAUCAUAAAAAUAAUAACCACAUUAUUGUGUUUAAUAAUGAAA
.(((((.......((...(.------...)(....)..)).......(....).)))))....................((((((((....))))))))... ( -20.20)
>DroSec_CAF1 8312 96 + 1
CGCGGCAAGAGGAGCGAACG------UGAGCGAAAGGAGCAAAAGGAGCGGGCAGCCGCAAUCAUAAAAAUAAUAACCACAUUAUUGUGUUUAAUAAUGAAA
.(((((.......((...(.------...)(....)..)).......(....).)))))....................((((((((....))))))))... ( -20.20)
>DroSim_CAF1 17675 77 + 1
CGCGGCAAGAGGAGCGA-------------------------AAGGAGCGGGCAGCCGCAAUCAUAAAAAUAAUAACCACAUUAUUGUGUUUAAUAAUGAAA
.(((((.......((..-------------------------.....)).....)))))....................((((((((....))))))))... ( -17.10)
>DroEre_CAF1 10970 93 + 1
UGUGGUAAGAGGAGCGAGCAGCGAAAGGAGCGAA---------AGGAGCGGGCAGCCGCAAUCAUAAAAAUAAUAACCACAUUAUUGUGUUUAAUAAUGAAA
((((((...........((..(....)..))...---------....((((....))))................))))))(((((((.....))))))).. ( -21.70)
>DroYak_CAF1 18756 102 + 1
UGUGGUAAGAGGAGCGAGCAGCGAAAGGAGCGAAAGAAGCUAAAGGAGCGGGCAGCCGCAAUCAUAAAAAUAAUAACCACAUUAUUGUGUUUAAUAAUGAAA
((((((..........(((..(....)...(....)..)))......((((....))))................))))))(((((((.....))))))).. ( -23.20)
>DroAna_CAF1 5587 84 + 1
CC-------AGGAGCCAGAACC-----------CAGUAGCCAGAGGAGCGGGCAACCGCAAUCAUAAAAAUAAUAACCACAUUAUUGUGUUUAAUAAUGAAA
..-------.((........((-----------(........).)).((((....)))).................)).((((((((....))))))))... ( -18.30)
>consensus
CGCGGCAAGAGGAGCGAGCA______GGAGCGAAAG_AGC_AAAGGAGCGGGCAGCCGCAAUCAUAAAAAUAAUAACCACAUUAUUGUGUUUAAUAAUGAAA
...............................................((((....))))....................((((((((....))))))))... (-12.88 = -12.88 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:28 2006