Locus 3222

Sequence ID 2R_DroMel_CAF1
Location 10,999,029 – 10,999,137
Length 108
Max. P 0.760314
window5295

overview

Window 5

Location 10,999,029 – 10,999,137
Length 108
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 90.90
Mean single sequence MFE -35.66
Consensus MFE -27.70
Energy contribution -30.54
Covariance contribution 2.84
Combinations/Pair 1.03
Mean z-score -1.74
Structure conservation index 0.78
SVM decision value 0.50
SVM RNA-class probability 0.760314
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10999029 108 + 20766785
CCCAAGGCCAACCG-----ACUCGGAAAUUGGGUUAAAGCCCCGUUGAUCCCCGUGAAUCUUUAAAGGCAGCGCAGCGAGGUACAAGUUUUGUGUCACGGGGAUUUUCGGGAA
(((((..((.....-----....))...))))).......((((..(((((((((((..........((......))....((((.....)))))))))))))))..)))).. ( -39.10)
>DroSec_CAF1 111288 107 + 1
CCCAAGGCCAACCG-----ACUCG-AAAUUGGGUUAAAGCCCCGUUGAUCCCCGUGAAUCUUUAAAGGCAGCGCAGCGAGAUACAAGUUUUAUGUCACGGGGAUUUUCGGGAA
.....((....))(-----(((((-....)))))).....((((..(((((((((((..........((......))(((((....)))))...)))))))))))..)))).. ( -35.40)
>DroSim_CAF1 113685 107 + 1
CCCAAGGCCAACCG-----ACUCG-AAAUUGGGUUAAAGCCCCGUUGAUCCCCGUGAAUCUUUAAAGGCAGCGCAGCGAGAUACAAGUUUUAUGUCACGGGGAUUUUCGGGAA
.....((....))(-----(((((-....)))))).....((((..(((((((((((..........((......))(((((....)))))...)))))))))))..)))).. ( -35.40)
>DroEre_CAF1 114460 108 + 1
GCCAAGGCCAACCG-----ACUCGGAAAUUGGGUUAAAGCCCCGUUGAUCCCCGUGAAUCUUUAAGGGCAUCGCAGCGAGAUACAAGUUUUGUGUCACGGGGAUUUUCGGGAA
.((((..((.....-----....))...))))........((((..(((((((((((..........((...)).(((((((....))))))).)))))))))))..)))).. ( -38.50)
>DroYak_CAF1 116358 103 + 1
CCCAAGGCCAACCGAACAGACUCGGAAAUUGGGUUAAAGCCCCGUUGAUCCCCGUGUAUCUUUAAAGGCAGCGCAGCGAGAUACAUGUUUUGUA----------UUUCGGGAA
(((...(((..((((......)))).(((.((((....)))).)))....................)))........((((((((.....))))----------))))))).. ( -29.90)
>consensus
CCCAAGGCCAACCG_____ACUCGGAAAUUGGGUUAAAGCCCCGUUGAUCCCCGUGAAUCUUUAAAGGCAGCGCAGCGAGAUACAAGUUUUGUGUCACGGGGAUUUUCGGGAA
(((((......(((........)))...))))).......((((..(((((((((((..........((...)).(((((((....))))))).)))))))))))..)))).. (-27.70 = -30.54 +   2.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:23 2006