Locus 5215

Sequence ID X_DroMel_CAF1
Location 13,621,448 – 13,621,564
Length 116
Max. P 0.507690
window8456

overview

Window 6

Location 13,621,448 – 13,621,564
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.84
Mean single sequence MFE -39.18
Consensus MFE -26.58
Energy contribution -30.02
Covariance contribution 3.44
Combinations/Pair 1.11
Mean z-score -1.75
Structure conservation index 0.68
SVM decision value -0.05
SVM RNA-class probability 0.507690
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13621448 116 + 22224390
GCAAAUGCCUAUGGUCGCAACAUUGGUUAAUCAUUUUCCUGCGUGUAUGCAAGGUGGGUGGCAAUUUUCGGUGGUGGCUGUCGCCUGCCAGCGGGAAAAUGGAAAAGUGA---GCGUU-G
((....))..(((.(((((((....)))..((((((((((((((....))..((..(((((((.(..(.....)..).)))))))..)).))))))))))))....))))---.))).-. ( -41.10)
>DroSec_CAF1 7241 119 + 1
GCAAGUGCCUAUGGUCGCAACAUUGGUUAAUCAUUUUCCUGCGUGUAUGCAAGGUGGGUGGCAAUUUUCGGUGGUGGCUGUUGCCUGCCAGCGGGAAAAUGGAAAAGUGUGAUGGGUU-G
......((((((.(.((((((....)))..((((((((((((((....))..((..((..(((.(..(.....)..).)))..))..)).))))))))))))....)))).)))))).-. ( -42.10)
>DroSim_CAF1 7268 119 + 1
GCAAAUGCCUAUGGUCGCAACAUUGGUUAAUCAUUUUCCUGCGUGUAUGCAAGGUGGGUGGCAAUUUUCGGUGGUGGCUGUUGCCUGCCAGCGGGAAAAUGGAAAAGUGUGAUGGGUU-G
......((((((.(.((((((....)))..((((((((((((((....))..((..((..(((.(..(.....)..).)))..))..)).))))))))))))....)))).)))))).-. ( -42.10)
>DroEre_CAF1 7235 102 + 1
GCAAAUGCCUAUGGUCGCAACAUGGGUUAAUCAUUUUCCUGCGUGUAUGCAAGGUGGGUGGCAAUUUUCGGGGGUGGCUGGCGCCUG---------------AAAAGUGA---GGGGGAG
((....(((((((.......)))))))....((((..((((((....))).)))..))))))..((((((((.((.....)).))))---------------))))....---....... ( -30.50)
>DroYak_CAF1 6700 115 + 1
GAAAAUGCCUAUGGUCGCAACGUUGGUUAAUCAUUUCCCAGCGUGUAUGCAAGGUGGGUGGCAAUUUUCGGGGGUGACUGGCGCCUGCCAGCGGGGAAAUGGAAAAGUGA---GGGCU--
......((((....(((((((....)))..(((((((((.((((....))..((..((((.((.........(....))).))))..)).)).)))))))))....))))---)))).-- ( -40.10)
>consensus
GCAAAUGCCUAUGGUCGCAACAUUGGUUAAUCAUUUUCCUGCGUGUAUGCAAGGUGGGUGGCAAUUUUCGGUGGUGGCUGUCGCCUGCCAGCGGGAAAAUGGAAAAGUGA___GGGUU_G
......((((....(((((((....)))..((((((((((((((....))..(((((((((((.(..(.....)..).))))))))))).))))))))))))....))))...))))... (-26.58 = -30.02 +   3.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:31 2006