Locus 3434

Sequence ID 2R_DroMel_CAF1
Location 11,588,087 – 11,588,190
Length 103
Max. P 0.525654
window5607

overview

Window 7

Location 11,588,087 – 11,588,190
Length 103
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.98
Mean single sequence MFE -30.52
Consensus MFE -20.24
Energy contribution -20.64
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.66
SVM decision value -0.02
SVM RNA-class probability 0.525654
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11588087 103 + 20766785
AGCCGCAGGAAAAAUUAAAUAAACUCGUUGAGGCGGCGGACAAAGCAGACAACA----------ACAAGCUAAAGG-------ACUCGAUCCAGUCGAGAAAUCCACGAUUGUUCCUGGG
..((.((((((.((((..........((((..((.((.......)).).)..))----------))........((-------(((((((...))))))...)))..)))).)))))))) ( -25.80)
>DroSec_CAF1 21644 103 + 1
AGCCGCAGGAAAAAUUAAAUAAACUCGUUGAGGCGGCGGACAAAGCAGACAACA----------ACAAGCAACAGG-------ACUCGAUCCAGUCGAGAAAUCCACGAUUGUUCCUGGG
..((.((((((.((((..........((((..((.((.......)).).)..))----------))........((-------(((((((...))))))...)))..)))).)))))))) ( -25.80)
>DroSim_CAF1 24899 103 + 1
AGCCGCAGGAAAAAUUAAAUAAACUCGUUGAGGCGGCGGACAAAGCAGACAACA----------ACGAGCAACAGG-------ACUCGAUCCGGUCGAGAAAUCCACGAUUGUUCCUGGG
..((.((((((.((((.......(((((((..((.((.......)).).)..))----------))))).....((-------(((((((...))))))...)))..)))).)))))))) ( -31.60)
>DroEre_CAF1 22454 102 + 1
AGCCGCAGGAAAAAUUAAAUAAACUUGUUGAGGCGGCGGACAAAGCAGGCAAC-----------ACAAGCAACAGG-------ACUCGAUCCAGCCGAGAAAUUUACGAUUGUUCCUGGG
..((.((((((.((((.......(((((((.....((.......)).(....)-----------.....)))))))-------.((((.......))))........)))).)))))))) ( -26.30)
>DroYak_CAF1 22425 120 + 1
AGCCGCAGGAAAAAUUAAAUAAACUUGUUGAGGCCGCGGACAAAGCGGGCAUCAACGAGCAGCAACAAGCAACAGGACUCAGGACUCGAUCCAGUCGAGAUAUCCACGAUUUUUCCUGGG
..((.(((((((((((.......(((((((((.((((.......)))).).))))))))..((.....))...........(((((((((...))))))...)))..))))))))))))) ( -43.10)
>consensus
AGCCGCAGGAAAAAUUAAAUAAACUCGUUGAGGCGGCGGACAAAGCAGACAACA__________ACAAGCAACAGG_______ACUCGAUCCAGUCGAGAAAUCCACGAUUGUUCCUGGG
..((.((((((.((((..........((((..((..........))...))))...............................((((((...))))))........)))).)))))))) (-20.24 = -20.64 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:27 2006