Locus 4954

Sequence ID X_DroMel_CAF1
Location 12,944,393 – 12,944,487
Length 94
Max. P 0.500000
window8073

overview

Window 3

Location 12,944,393 – 12,944,487
Length 94
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 69.18
Mean single sequence MFE -28.34
Consensus MFE -3.86
Energy contribution -3.58
Covariance contribution -0.28
Combinations/Pair 1.33
Mean z-score -1.78
Structure conservation index 0.14
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12944393 94 + 22224390
ACAGUGACCGCUUGGAAAGUAUAACUUGUUGAUUGGGCGGUUUCUAAGGGG-AAACUAGAAGUCUC-------------AUUAUGGGGAACACGUGUUGUGCCCAGGA
..((.(((((((..(.(((.....))).....)..))))))).))...(((-.(((......((((-------------......))))......)))...))).... ( -24.70)
>DroSec_CAF1 3057 83 + 1
ACAGUG---------AAGGUAUAACUUGUUGAUUGGGCGGUUUCUAG--GG-AAACUAGAUGUCUC-------------AUUAUGAGACACACGUGUGUUGCCCAGGA
.(((..---------(.(......))..))).((((((((..(((((--..-...)))))((((((-------------.....))))))........)))))))).. ( -25.70)
>DroSim_CAF1 3156 81 + 1
ACAGUGACCGCUCGGAAAGUAUAACUUGUUGAUUGGGCGGUUUCUAC--GG-AAACUAGAAGUCCC-------------AUUAUGGGACACACGUGU-----------
(((((((((((((((.(((.....))).....)))))))))(((((.--(.-...))))))(((((-------------.....))))).))).)))----------- ( -29.40)
>DroEre_CAF1 2922 99 + 1
ACAGUGGCCGCUCGGAAACUAUAACUUGUUGAUUAGAGGGUUUCUGG--GC------AGACUUGGCAGACUUCUAUCUAAUAAUGGGGCACACGUGUGGC-CCCAGGA
..(((.((((((((((((((.((((.....).)))...)))))))))--))------......)))..)))............((((((.((....))))-))))... ( -32.50)
>DroYak_CAF1 3289 91 + 1
ACAGUGCCCGCUCGAGAACUACAACUUGUUGAUUAGAAGGUUUCUGG--GUGCCACUAGAUGUGGC-------------AUAAUGGGGCACACGUGCUGU--CCAGGA
...(((((((((((..((((....((........))..))))..)))--))(((((.....)))))-------------......)))))).........--...... ( -29.40)
>consensus
ACAGUGACCGCUCGGAAAGUAUAACUUGUUGAUUGGGCGGUUUCUAG__GG_AAACUAGAAGUCGC_____________AUUAUGGGGCACACGUGUGGU_CCCAGGA
...(((.((............(((....)))..((((.....)))).......................................)).)))................. ( -3.86 =  -3.58 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:48 2006