Locus 5759

Sequence ID 3L_DroMel_CAF1
Location 15,632,575 – 15,632,694
Length 119
Max. P 0.652632
window9142

overview

Window 2

Location 15,632,575 – 15,632,694
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.13
Mean single sequence MFE -40.78
Consensus MFE -31.91
Energy contribution -33.98
Covariance contribution 2.06
Combinations/Pair 1.03
Mean z-score -1.64
Structure conservation index 0.78
SVM decision value 0.25
SVM RNA-class probability 0.652632
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15632575 119 + 23771897
AGGACUAGAAAGCUCACAGGACUCUGGUCACUGGAGACAGGACACUGGGCGGUGAUCCUUUCCGGCCCACCACACAGAU-AUGAAAGUGGACUGAAGUGAGGGGUUGUCAAAAACUUUAG
..(((..(((((.((((..(.(((..(((.(((....))))))...)))).))))..))))).(((((..(((.(((.(-((....)))..)))..)))..))))))))........... ( -39.30)
>DroSec_CAF1 54825 120 + 1
AGGACCAGAACGCUCACAGGACACUGGUCACUGGAGACAGGAAACUGGGCGGUGAUCCUUUCGGGCCCAGGACACAGUUCAUUUCUGUGGACUGAAGUGAGGGGUUGUCAAAAACUUUAG
..(((.((..(.(((((.........(((.(((....)))....((((((..(((.....))).))))))))).((((((((....))))))))..))))))..)))))........... ( -42.90)
>DroSim_CAF1 55781 120 + 1
GGGACCAGAAUGCUCACAGGACACUGGUCACUGGAGACAGGAAACUGGGCGGUGAUCCUUUCGGGCCCAGGACACAGUUCAUUUCUGUGGACUGAAGUGAGGGGUUGUCAAAAACUUUAG
..((((((..((.((....)))))))))).((((((.(((....)))...((..(((((((...((.(((..(((((.......)))))..)))..)))))))))..)).....)))))) ( -42.60)
>DroYak_CAF1 59465 119 + 1
AGGACCAGAACGCUCGCAGGACUCUGGUCACUGGAGACAGGACACUGGGCGGUGAUCCUUUCGGGUCCAGCACACAGAU-ACGAAACUGAACUGAAGUGCGGGGUUGUCAAAAACUUUAG
.(((((.(((.((((.((((((....))).)))))).)((((((((....)))).))))))).))))).((((.(((..-...........)))..))))((((((......)))))).. ( -38.32)
>consensus
AGGACCAGAACGCUCACAGGACACUGGUCACUGGAGACAGGAAACUGGGCGGUGAUCCUUUCGGGCCCAGCACACAGAU_AUGAAAGUGGACUGAAGUGAGGGGUUGUCAAAAACUUUAG
..(((((((...((....))..))))))).((((((.(((....)))...((..(((((((......(((..(((((.......)))))..)))....)))))))..)).....)))))) (-31.91 = -33.98 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:05 2006