Locus 4957

Sequence ID 3R_DroMel_CAF1
Location 13,040,485 – 13,040,578
Length 93
Max. P 0.538622
window8111

overview

Window 1

Location 13,040,485 – 13,040,578
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 85.84
Mean single sequence MFE -17.54
Consensus MFE -11.69
Energy contribution -13.06
Covariance contribution 1.37
Combinations/Pair 1.05
Mean z-score -1.57
Structure conservation index 0.67
SVM decision value 0.01
SVM RNA-class probability 0.538622
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13040485 93 - 27905053
GCAAGCAUUUCCGUUUCAAUAAAGUUUGUUUGCAUUUCGCGGCGAAUGGAUAAAAAUUCGCACCCAUUCCAAGGUUCAUUAACCUUUAAAAAA
(((((((...................)))))))........((((((........)))))).........((((((....))))))....... ( -18.61)
>DroSec_CAF1 60609 93 - 1
GCAAGCAUUUCCGUUUCAAUAAAGUUUGUUUGCAUUCCGCAGCGAAUUAACAAAAAUUCGCACCCAUUCCAAGGUUCAUUAACCUUUAAAAAA
(((((((...................)))))))........(((((((......))))))).........((((((....))))))....... ( -19.01)
>DroSim_CAF1 52800 92 - 1
GCAAGCAAUUCCGUUUCAAUAAAGUUUGUUUGCAUUCCGCAGCGAAUGAACAAAAAUUCGCACCCAUUCCGAGGUUCAUUAAC-UUAAAAAAA
((((((((.................))))))))........((((((........))))))(((........)))........-......... ( -16.93)
>DroYak_CAF1 62431 91 - 1
GCAAGCAUUUCCGCUACAAUGAAGACUGUUUACAUUCCGCAGCAAAUGGA-AAAAAGUCGCACCA-AUCCAGGGUUCAUUAACCGCAGAACAA
((.(((......)))..((((((((((.......(((((.......))))-)...))))...((.-.....)).))))))....))....... ( -15.60)
>consensus
GCAAGCAUUUCCGUUUCAAUAAAGUUUGUUUGCAUUCCGCAGCGAAUGAACAAAAAUUCGCACCCAUUCCAAGGUUCAUUAACCUUAAAAAAA
(((((((...................)))))))........((((((........)))))).........((((((....))))))....... (-11.69 = -13.06 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:58 2006