Locus 8524

Sequence ID 3L_DroMel_CAF1
Location 22,310,946 – 22,311,052
Length 106
Max. P 0.896643
window13960

overview

Window 0

Location 22,310,946 – 22,311,052
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 79.75
Mean single sequence MFE -31.94
Consensus MFE -20.18
Energy contribution -21.12
Covariance contribution 0.94
Combinations/Pair 1.15
Mean z-score -2.14
Structure conservation index 0.63
SVM decision value 0.99
SVM RNA-class probability 0.896643
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22310946 106 + 23771897
AGACACCA-------CACCUCGAAAAUUAAAAUUGCAGACUGCAGAAAGAGGGAAAAGAAGAGGAAGAUGCAGCA-------UGCUGCAGCACAUUGCUGUUGUAGGGUGCAGUGGCACA
.....(((-------(.((((...........((((.....))))...............))))........(((-------(.((((((((......)))))))).)))).)))).... ( -29.87)
>DroSec_CAF1 69662 95 + 1
AGACACCA-------CACCUCGAAAAUGAAAAUUGCAGACUGCAGAAAGGGG-----------GAAGAUGCAGCU-------UGCUGCAGCACAUUGCUGUUGUAGGGUGCAGCGGCACA
.....((.-------(.((((...(((....)))((.....)).....))))-----------.....((((.((-------(((.(((((.....))))).))))).))))).)).... ( -29.60)
>DroEre_CAF1 68094 105 + 1
AGACACCGCCGACUGCACCUCGAAAACGAAAAUUGCAGACUGCAGAAAGGGG-----------AAAGAUGCGGCAUGCGGCAUGCUG---CAUA-UGCUGUUGUUGGGUGCAGCGGCACA
.......((((.(((((((.(((.(((.....((((.....)))).....((-----------....((((((((((...)))))))---))).-..))))).))))))))))))))... ( -44.10)
>DroYak_CAF1 48172 92 + 1
AGACACCG-------CACCUCGAAAAUGAAAAUUGCAGACUGCAGAAAGGGG-----------AAAGAUGCGACG-------UGCUG---CAUAUUGCUGUUGUUGGGUGCAGCGGCACA
((.(((((-------((((((...(((....)))((.....)).....))))-----------.....))))..)-------)))).---.....(((((((((.....))))))))).. ( -24.20)
>consensus
AGACACCA_______CACCUCGAAAAUGAAAAUUGCAGACUGCAGAAAGGGG___________AAAGAUGCAGCA_______UGCUG___CACAUUGCUGUUGUAGGGUGCAGCGGCACA
.................((((...........((((.....))))...))))..............(.((((((((.....)))))))).)....(((((((((.....))))))))).. (-20.18 = -21.12 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:58 2006