Locus 3482

Sequence ID 3L_DroMel_CAF1
Location 10,227,539 – 10,227,650
Length 111
Max. P 0.556763
window5438

overview

Window 8

Location 10,227,539 – 10,227,650
Length 111
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 87.54
Mean single sequence MFE -23.60
Consensus MFE -16.31
Energy contribution -16.23
Covariance contribution -0.08
Combinations/Pair 1.10
Mean z-score -1.82
Structure conservation index 0.69
SVM decision value 0.05
SVM RNA-class probability 0.556763
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10227539 111 + 23771897
GACCAAAGUUUUUCCCCA--GCCAGUGCU-UAAAACAAUAAAAAGAACUGGGGAAGAAA--ACAGCAAACCAAGUGAACUGUAAUAAGAGAUGGGGGAAAAACGGUGCCGGAAAAG
..((...((((((((((.--.(((((.((-(...........))).)))))........--((((...((...))...))))...........))))))))))(....)))..... ( -27.50)
>DroSec_CAF1 103475 111 + 1
GACCAAAGUUUUUCCUCU--GCCAUUGCC-UAAAACAAUAAAAAGAACUGGGGGAGAAA--ACAGCAAACCAAGUGAACUGUAAUAAGAGAUGGGGGUAAAACGGUGCCGGAAAAG
..((...(((((.(((((--..(.((.((-((................)))).))....--((((...((...))...)))).......)..))))).)))))(....)))..... ( -17.89)
>DroSim_CAF1 108891 111 + 1
GACCAAAGUUUUUCCUCU--GCCAGUGCU-UAAAACAAUAAAAAGAACUGGGGGAGAAA--ACAGCAAGCCAAGUGAACUGUAAUAAGAGAUGGGGGUAAAACGGUGCCGGAAAAG
..((...((((((.((((--.(((((.((-(...........))).))))).))))...--((((...((...))...))))....)))))).))((((......))))....... ( -24.40)
>DroEre_CAF1 109617 115 + 1
GGCCAAAGUUUUUCCUCUCCUCCACUGCUCUAAAACAAUAAAAAGAUCUGGGUAAAAAAAUAAAACAAGCCAAGGGAACUGCAAUAAGAGAA-GGGGAAAAACGGUGCCGGAAAAG
((((...(((((((((((.(((...(((((...................)))))..............((..((....)))).....))).)-)))))))))).).)))....... ( -29.11)
>DroYak_CAF1 109398 108 + 1
GACCAAAGUUUUUCCUCU-----ACUGCUCUAAAACAAUAAAAAGAACUGGGGAUAAAA--AAAAUAAACCAAGUGAACUGUAAUAAGGAAA-GGGGAAAAACGGUGCCGGAAAAG
..((...(((((((((((-----.......................(((.((..((...--....))..)).)))...((......))...)-))))))))))(....)))..... ( -19.10)
>consensus
GACCAAAGUUUUUCCUCU__GCCACUGCU_UAAAACAAUAAAAAGAACUGGGGAAGAAA__ACAGCAAACCAAGUGAACUGUAAUAAGAGAUGGGGGAAAAACGGUGCCGGAAAAG
..((...((((((((((.............................(((.((.................)).)))...((......)).....))))))))))(....)))..... (-16.31 = -16.23 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:13 2006