Locus 1546

Sequence ID 2R_DroMel_CAF1
Location 5,850,007 – 5,850,105
Length 98
Max. P 0.668584
window2602

overview

Window 2

Location 5,850,007 – 5,850,105
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 92.61
Mean single sequence MFE -20.64
Consensus MFE -15.64
Energy contribution -15.80
Covariance contribution 0.16
Combinations/Pair 1.14
Mean z-score -1.83
Structure conservation index 0.76
SVM decision value 0.29
SVM RNA-class probability 0.668584
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5850007 98 - 20766785
AACAAAAACAAACGCCAAACAGGCAAGGAGCAGUAGGAGUACAGAUUCCACCGAGAAAUGUGAGAUGGGAUAGACUCCAAAAAUUGCGAGUACUGUAA
.......(((.(((((.....))).....(((((.(((((....((((((.(...........).))))))..)))))....)))))..))..))).. ( -22.20)
>DroSec_CAF1 3375 97 - 1
AACAAAAACAAACGCCAAACAAGCAAGAAGCAGUAGGAGUACAGAUUCCACCGAGAAAUGUGAGAUGGGAUGGACUCUAAA-AGUGCGAGUACUGUAA
.............((.......)).....((((((...(((((((.((((((.(...........).)).)))).)))...-.))))...)))))).. ( -19.00)
>DroSim_CAF1 2977 97 - 1
AACAAAAACAAACGCCAAACAAGCAAGAAGCAGUAGGAGUACAGAUUCCACCGAGAAAUGUGAGAUGGGAUGGACUCUAAA-AGUGCGAGUACUGUAA
.............((.......)).....((((((...(((((((.((((((.(...........).)).)))).)))...-.))))...)))))).. ( -19.00)
>DroEre_CAF1 5994 97 - 1
AAUAAAAACAAAAGCCAAACAGGCAAGGAGCAGUAGGAGUAUAGAUUCCAUCGAGAAAUGUGAGAUGGGAUGGAUUCCGAA-AGUGCGAGGACUGUAA
.......(((...(((.....))).....(((.(.(((((....((((((((...........))))))))..)))))...-).)))......))).. ( -23.40)
>DroYak_CAF1 3426 97 - 1
AACAAAAACAAACGCCAAACAGGCAAGGAGCAGUAGGAAUCCAGAUUCCACCGAGAAAUGUGAGAUGGGAUGGUUUCUAAA-AGUGCGAGUACUGUAA
.............(((.....))).....(((((((((((....)))))..((........(((((......)))))....-....))..)))))).. ( -19.59)
>consensus
AACAAAAACAAACGCCAAACAGGCAAGGAGCAGUAGGAGUACAGAUUCCACCGAGAAAUGUGAGAUGGGAUGGACUCUAAA_AGUGCGAGUACUGUAA
.............(((.....))).....(((((((((((....((((((.(...........).))))))..)))))............)))))).. (-15.64 = -15.80 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:15 2006