Locus 1085

Sequence ID X_DroMel_CAF1
Location 3,199,008 – 3,199,115
Length 107
Max. P 0.570169
window1758

overview

Window 8

Location 3,199,008 – 3,199,115
Length 107
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 84.80
Mean single sequence MFE -32.86
Consensus MFE -22.30
Energy contribution -22.30
Covariance contribution 0.00
Combinations/Pair 1.12
Mean z-score -1.58
Structure conservation index 0.68
SVM decision value 0.07
SVM RNA-class probability 0.570169
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3199008 107 + 22224390
UGCGCUGGCGACGACGGUUGUUUGAAAAAAAG--AGAAAGCAAAAAACAGGACAUGCCGCUUGAAGUGCCGAUCGUAAGCGAGUCCUUUCGAUUCGCA---AAUCGUCGGCA
...((((((((((((((((((((.........--...))))).....((((........))))....)))).))))..(((((((.....))))))).---...))))))). ( -34.50)
>DroSec_CAF1 8484 104 + 1
UGCGCUGGCGACGACGGUUGUUUGAAAGAGAGAAAGAAAGCAA-----AGGACAUGCCGCUUGAAAUGCCGAUCGUUAGCGAGUCCUUUCGUUUCGCA---AGUCGUCGGCA
...((((((((((((((((((((....))).......((((..-----.((.....)))))).......)))))))).(((((.........))))).---.))))))))). ( -33.20)
>DroEre_CAF1 8675 97 + 1
UGCGCUGGCGACGACGGUUGUUUGAAAA-GUG----AAGGAAA-----AGGACAUGCCGCUUGAAAUGUCGAUCGUAGGCGAGUCCUUUCGUUUCGCA---AA--GUCGGCA
...(((((((((....))).........-(((----(((..((-----(((((.((((...(((........)))..)))).)))))))..)))))).---..--)))))). ( -34.40)
>DroYak_CAF1 10383 101 + 1
UGCGCUGGCGACGACGGUUGUUUGAAAAUGAG----AAGGAAA-----AGGACAUGCCGCUUGAAAUGCCGAUCGUAAGCGAGUCCUUUCGCUUAAAAUGCAA--GUCGGCA
...((((((..((((((((((((.........----.......-----.))))).)))).)))...(((......((((((((....))))))))....))).--)))))). ( -29.33)
>consensus
UGCGCUGGCGACGACGGUUGUUUGAAAAAGAG____AAAGAAA_____AGGACAUGCCGCUUGAAAUGCCGAUCGUAAGCGAGUCCUUUCGUUUCGCA___AA__GUCGGCA
...((((((....(((((((.............................((.....))((.......)))))))))(((((((....)))))))...........)))))). (-22.30 = -22.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:10 2006