Locus 1122

Sequence ID X_DroMel_CAF1
Location 3,317,515 – 3,317,634
Length 119
Max. P 0.725792
window1808

overview

Window 8

Location 3,317,515 – 3,317,634
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 74.96
Mean single sequence MFE -34.18
Consensus MFE -14.79
Energy contribution -15.85
Covariance contribution 1.06
Combinations/Pair 1.38
Mean z-score -2.03
Structure conservation index 0.43
SVM decision value 0.41
SVM RNA-class probability 0.725792
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3317515 119 + 22224390
AGAAAUUUUCGCAAAAUAUCGAGUCAGUUUUUGCAAAUGCCAGUGCAAAAAAUCGAUAUGGCCGUUUUAAUACGCAUCUACGAAUGGAUGCUGAACGAGGAGAAAACCUUUGUCGUUGG
..........((...(((((((.....((((((((........)))))))).))))))).))...........(((((((....)))))))..(((((.(((......))).))))).. ( -30.70)
>DroSec_CAF1 32149 119 + 1
AGAAAUUUUCGCAAAUUGUCGAGUCCAUUUUUGCAAAUACCAGUGCAAAAAAUCGAAAUGGCCAUUUUAGCCCGCAUCUACGAAUGGAUGCUGGACGAGGAAGAAAGCUUUCUCGUUAA
........((((.....).)))(((((((((((((........))))))))........(((.......))).(((((((....))))))))))))(((((((....)))))))..... ( -33.40)
>DroSim_CAF1 763 119 + 1
AGAAAUUUUCGCAAAUUGUCGAGUCCAUUUUUGCAAAUACCAGUGCAAAGAAUCGAAAUGGCCAUUUUAGCCCGCAUCUACGAAUGGAUGCUGGACGAGGAAGAAAGCUUCCUCGUUAA
........((((.....).)))(((((((((((((........))))))))........(((.......))).(((((((....))))))))))))(((((((....)))))))..... ( -36.40)
>DroEre_CAF1 24965 119 + 1
CGCAAUUUCCGCGACUUUUCGAGUCCCUUCUUGCAAAUGCCAGUGCAAAAAGUCCAAAUGGCCCUGGUAGUUCGCAUCUACGAAUGGAUGCUGGAGGAGCAGAAAAGCUUCUCCAUUGG
.((((.....(.(((((...))))))....))))...((((((.((..............)).))))))....(((((((....)))))))(((((((((......))))))))).... ( -37.74)
>DroYak_CAF1 23487 119 + 1
CGCAAUUUUCGCGAUUUUUCGAGCCAAUUUUUGCAAAUGCCAGUGCAAAAAGUCGAAAUGGCCCUUAUAGUUCGCAUCUACGAAUGGAUGCUGAACGAGGAGGAAAACUUUGCCAUUGG
(((.......))).....((((.....((((((((........)))))))).))))((((((((((...(((((((((((....))))))).))))...))))........)))))).. ( -35.30)
>DroAna_CAF1 112 119 + 1
ACCAAUUUUCGCGAUAUGCGUGGCAGUUUUUUGCAAUUUCCAGUCUGUAAAAUCGGUAUGGAAUUGGUGAUGGAACUCUACGAUUGGAUGGUAACCGACAACAAGACCAUCGAUAUCAA
............(((((.(((((.(((((((..(...(((((..(((......)))..)))))...)..).)))))))))))....((((((.............)))))).))))).. ( -31.52)
>consensus
AGAAAUUUUCGCAAAUUGUCGAGUCCAUUUUUGCAAAUGCCAGUGCAAAAAAUCGAAAUGGCCAUUUUAGUCCGCAUCUACGAAUGGAUGCUGAACGAGGAGAAAAGCUUCGUCAUUAA
.....((((((.....((((((.....((((((((........)))))))).))))))............((.(((((((....))))))).)).)))))).................. (-14.79 = -15.85 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:56 2006