Locus 4226

Sequence ID X_DroMel_CAF1
Location 11,069,508 – 11,069,603
Length 95
Max. P 0.633985
window6945

overview

Window 5

Location 11,069,508 – 11,069,603
Length 95
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 79.97
Mean single sequence MFE -43.27
Consensus MFE -28.87
Energy contribution -31.00
Covariance contribution 2.12
Combinations/Pair 1.22
Mean z-score -1.70
Structure conservation index 0.67
SVM decision value 0.21
SVM RNA-class probability 0.633985
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11069508 95 + 22224390
CGGUAGCUGUGACGGAUCUGCUGGUGGCGCAGGUGGUGCAGGUGGACCAGGUGCUGCUGCAGC---UGCUGCUGCUCCAGCUUUCGAUAGCGAAGCAG
((((((((((..(((.....)))(..((((...((((.(....).)))).))))..).)))))---)))))(((((...(((......)))..))))) ( -40.70)
>DroSec_CAF1 21535 95 + 1
CGGUAGCUGUGACGGAUCUGCUGGUGGCGCAGGUGGUGCAGGUGGACCAGGUGCUGCUGCAGA---UGCGGCUGCUGCAGCUUUCGAUAGCGGAGCAG
((((((((((.....((((((.((..((((...((((.(....).)))).))))..)))))))---)))))))))))..((((.((....)))))).. ( -43.40)
>DroSim_CAF1 23215 95 + 1
CGGUAGCUGUGACGGAUCUGCUGGUGGCGCAGGUGGUGCAGGUGGACCAGGUGCUGCUGCAGA---UGCUGCUGCUCCAGCUUUCGAUAGCGGAGCAG
.((((((........((((((.((..((((...((((.(....).)))).))))..)))))))---)))))))(((((.(((......)))))))).. ( -43.80)
>DroMoj_CAF1 145 92 + 1
CGGCGGCAACGGCGGG---GCAGGUGGUGCAAGCGGUGCAGGCGGCGCAGGCGGUGCUGGCGUUGUUGCUGCCACAGCUGCUUUGG---GCGCUGCAG
.(((((((((((((..---...((((.(((..(((.((....)).)))..))).))))..))))))))))))).((((.((.....---))))))... ( -45.20)
>consensus
CGGUAGCUGUGACGGAUCUGCUGGUGGCGCAGGUGGUGCAGGUGGACCAGGUGCUGCUGCAGA___UGCUGCUGCUCCAGCUUUCGAUAGCGGAGCAG
.((((((.........(((((.((((((((...((((.(....).)))).)))))))))))))....))))))(((((.(((......)))))))).. (-28.87 = -31.00 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:40 2006