Locus 5327

Sequence ID 3R_DroMel_CAF1
Location 13,959,150 – 13,959,245
Length 95
Max. P 0.987440
window8684

overview

Window 4

Location 13,959,150 – 13,959,245
Length 95
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 74.77
Mean single sequence MFE -17.48
Consensus MFE -7.65
Energy contribution -7.17
Covariance contribution -0.48
Combinations/Pair 1.44
Mean z-score -2.38
Structure conservation index 0.44
SVM decision value 2.08
SVM RNA-class probability 0.987440
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13959150 95 + 27905053
AACAAAA---GUUACAUUUAAAAUCGGUAAAUGGAAUUUUCGUGUGCUAA----A--AAACGAGAAACUUGUUUAACGGAAACGGAAACG------ACGAAAAAACUUAA
.....((---(((.((((((.......))))))...(((((((((.....----.--(((((((...)))))))..((....))...)).------)))))))))))).. ( -19.30)
>DroSec_CAF1 230030 89 + 1
AACAAAA---GUUACUUUUAAAAUCGGAAAAUGGAAUUUUCGUGUGCUAA----A---AACGAGAAACUUGUUUAACGGAAACGGAAACG------A-----AAACUUAA
.....((---(((..........(((..(((..(..(((((((.......----.---.)))))))..)..)))..)))...((....))------.-----.))))).. ( -17.20)
>DroSim_CAF1 238479 89 + 1
AACAAAA---GUUACUUUUAAAAUCGGAAAAUGAAAUUUUCGUGUGCUAA----A---AACGAAAAACUUGUUUAACGGAAACGGAAACG------A-----AAACUUAA
.....((---(((..........(((..(((..(..(((((((.......----.---.)))))))..)..)))..)))...((....))------.-----.))))).. ( -17.10)
>DroEre_CAF1 221434 99 + 1
AACAAAA---GUUACUUUUA-AAUCGAAAAACGGAAUUUCCGUGUGCUAG----A---AACGAGAAACUUGUUUUACGAAAACUGAAACGGAAACGGAAACGAAACUUAA
.....((---(((.(((((.-..(((....((((.....))))......(----(---((((((...)))))))).))).........((....)))))).).))))).. ( -19.10)
>DroAna_CAF1 224040 91 + 1
AACAAAAAAGAUUAAUUUUA-AUUCGGAAAGCGGAAUAUUCGUGUGCUAAUUGGAAGCGAUGAGGAAAUCGUCUAGCCA-------AGUG------A-----AAACUGAA
....................-.(((((..(((((....(((((.((((.......)))))))))....))).))..)).-------(((.------.-----..)))))) ( -14.70)
>consensus
AACAAAA___GUUACUUUUAAAAUCGGAAAAUGGAAUUUUCGUGUGCUAA____A___AACGAGAAACUUGUUUAACGGAAACGGAAACG______A_____AAACUUAA
.......................(((..((((((..(((((((................)))))))..))))))..)))............................... ( -7.65 =  -7.17 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:02 2006