Locus 3903

Sequence ID 2R_DroMel_CAF1
Location 12,870,646 – 12,870,762
Length 116
Max. P 0.530966
window6302

overview

Window 2

Location 12,870,646 – 12,870,762
Length 116
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 79.77
Mean single sequence MFE -24.51
Consensus MFE -14.50
Energy contribution -14.25
Covariance contribution -0.25
Combinations/Pair 1.05
Mean z-score -1.59
Structure conservation index 0.59
SVM decision value -0.01
SVM RNA-class probability 0.530966
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12870646 116 + 20766785
CACAUAAAACACGCCAUAAAUGUUGAUUUUCGUUAGGCCAAAAUUAACAUUUAUUACAACGCGUUAAAACUUUGAGCACGCUGGAGCAGGUCGAGCAGGGAA---AAUGCGGAGGAAAA
.............(((((((((((((((((.(.....).))))))))))))))).....((((((....(((((..(((.(((...))))).)..)))))..---))))))..)).... ( -26.60)
>DroVir_CAF1 5252 91 + 1
CACAUAAAACACGCCAUAAAUGUUGAUUUUCGUUGGG-GAAAAUUAACAUUUAUUACAACGCGUUAAAACUUUGAGCACGCAGCAGUCAGCC---------------------------
............((.((((((((((((((((......-))))))))))))))))......((((.............)))).))........--------------------------- ( -20.22)
>DroGri_CAF1 5160 91 + 1
CGCAUAAAACACGCCAUAAAUGUUGAUUUUCGUUGGG-GAAAAUUAACAUUUAUUACAACGCGUUAAAACUUUGAGCACGCAGCAGUCAGCC---------------------------
.((.........(..((((((((((((((((......-))))))))))))))))..)...((((.............)))).))........--------------------------- ( -21.32)
>DroYak_CAF1 3745 113 + 1
CACAUAAAACACGCCAUAAAUGUUGAUUUUCGUUGGGCCAAAAUUAACAUUUAUUACAACGCGUUAAAACUUUGAGCACGCAGGAGCAGGUCGAGCAGGGAA---AAUGCGGAGGG---
.............(((((((((((((((((.(.....).))))))))))))))).....((((((....(((((.((..((....))..))....)))))..---))))))..)).--- ( -25.30)
>DroMoj_CAF1 5754 91 + 1
CACAUAAAACACGCCAUAAAUGUUGAUUUUCGUUGGG-GAAAAUUAACAUUUAUUACAACGCGUUAAAACUUUGAGCACGCAGCAGUCAGCC---------------------------
............((.((((((((((((((((......-))))))))))))))))......((((.............)))).))........--------------------------- ( -20.22)
>DroAna_CAF1 4718 117 + 1
CACAUAAAACACGCCAUAAAUGUUGAUUUUCGUCGGGCCAAAAUUAACAUUUAUUACAACGCGUUAAAACUUUGAGCACGCAG--GCAGGGCGACCAGAGAGGUGGAUGGGGAACCAUA
.........(((((((((((((((((((((.(.....).)))))))))))))))......((((.............)))).)--)).((....))......))).((((....)))). ( -33.42)
>consensus
CACAUAAAACACGCCAUAAAUGUUGAUUUUCGUUGGG_CAAAAUUAACAUUUAUUACAACGCGUUAAAACUUUGAGCACGCAGCAGCAAGCC___________________________
............((.(((((((((((((((.........)))))))))))))))......((((.............))))....))................................ (-14.50 = -14.25 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:53 2006