Locus 6669

Sequence ID 2L_DroMel_CAF1
Location 18,709,847 – 18,709,963
Length 116
Max. P 0.759346
window10634

overview

Window 4

Location 18,709,847 – 18,709,963
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.50
Mean single sequence MFE -30.66
Consensus MFE -19.56
Energy contribution -21.20
Covariance contribution 1.64
Combinations/Pair 1.22
Mean z-score -2.59
Structure conservation index 0.64
SVM decision value 0.50
SVM RNA-class probability 0.759346
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18709847 116 + 22407834
ACGAUCAAAUAUUGUCCUAAGUCUGGCAAAUAUUUCACUUUUUAU----ACGUCGGGAGGGCAGCACAAUCUUUUGCAUCUGCAUCUCUUGACUGGAAGUUGAUAGUAGAUAGUUGGUAA
...(((((.(((((((........)))...((((((((((((...----..(((((((((((((..(((....)))...)))).))))))))).))))).))).)))))))).))))).. ( -26.70)
>DroSec_CAF1 2776 112 + 1
ACGAUCAAAUAUUGUCCUAAGUCUGGCAAAUAUUUCACUUUUUAU----ACGUCGAGAGGGCAGCACAAUCUUUUGCAUCUGCAUCUCUCGACUGGAAGUAGAUAGUG----UUUGUUAA
.......................(((((((((((((((((((...----..(((((((((((((..(((....)))...)))).))))))))).)))))).)).))))----))))))). ( -33.10)
>DroSim_CAF1 2665 116 + 1
ACGAUCAAAUAUUGUCCUAAGUCUGGCAAAUAUUUCACUUUUUAUACAUACGUCGGGAGGGCAGCACAAUCUUUUGCAUCUGCAUCUCUUGACUGGAAGUAGAUAGUG----UUUGGUAA
...(((((((((((((.((..(((((........))...............(((((((((((((..(((....)))...)))).))))))))).)))..)))))))))----)))))).. ( -32.20)
>DroEre_CAF1 2655 108 + 1
ACGACCAAAUAUUGUCCUAAGUCUGGCAAAUAUUUUACUUUUUAU----CCGUCGGGAGAGCAGCACAAUCUUUG----UUGCAUCUCUUGACUUGUAAUAGAUAUUG----UUUGGUAA
...(((((((((((((........)))))........((..((((----..(((((((((((((((.......))----)))).)))))))))..)))).))....))----)))))).. ( -32.50)
>DroYak_CAF1 2604 108 + 1
ACGAUCAAAUAUUGUCCUAAGUCUGGCAAAUAUUUUACUUUUUAU----UUGUCGGGAGGUCAGCACAAUCUUUG----UUGCAUCUCUUUACUGGCACUGGAUAUUC----UUUGGUAA
...((((((...(((((...(((.((((((((..........)))----)))))((((((((((((.......))----))).)))))))....)))...)))))...----)))))).. ( -28.80)
>consensus
ACGAUCAAAUAUUGUCCUAAGUCUGGCAAAUAUUUCACUUUUUAU____ACGUCGGGAGGGCAGCACAAUCUUUUGCAUCUGCAUCUCUUGACUGGAAGUAGAUAGUG____UUUGGUAA
...((((((..(((((........)))))......((((.(((((......(((((((((((((..(((....)))...)))).))))))))).....))))).))))....)))))).. (-19.56 = -21.20 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:52 2006