Locus 8249

Sequence ID 3L_DroMel_CAF1
Location 21,665,122 – 21,665,242
Length 120
Max. P 0.803799
window13493

overview

Window 3

Location 21,665,122 – 21,665,242
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.22
Mean single sequence MFE -51.20
Consensus MFE -26.58
Energy contribution -27.61
Covariance contribution 1.04
Combinations/Pair 1.41
Mean z-score -2.02
Structure conservation index 0.52
SVM decision value 0.63
SVM RNA-class probability 0.803799
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21665122 120 + 23771897
GUCCGGAGGUCCAUAGGUGUUAUCAGGCGGCAGAUAAGUGUUCUCCGGCUUGACAGUCGAACUGGGUAAAUCGAAGGGAACACUCGGGGUGAUGCCCGCCUCCGGAUAUCCGGUGGGCGA
........((((((.((...((((.((.(((.....(((((((((((..(((.(((.....)))..)))..))..)))))))))..(((.....)))))).)).)))).)).)))))).. ( -46.40)
>DroVir_CAF1 1400 120 + 1
GUCCGGUGGUCCAUAUGUGUUAUCCGGUGGUAAAUAACUGGCUUCCGGUUGGGCGGUUGAGCUUGGCAGUUCGAAUGGUACCUCGGGAGUAAUGCCCGCCUCCGGAUAGCCAGUGGGCGC
........((((((.((.(((((((((.(((....((((((...))))))(((((.(((((((....)))))))....((((....).))).)))))))).))))))))))))))))).. ( -48.50)
>DroPse_CAF1 9389 120 + 1
AUCCGGAGGUCCAUAGGUAUUAUCUGGAGGCAGAUAAGUCACAUCCGGCUUGGCGGUAGAGCUGGGGAGAUCGAACGGAACCUCGGGUGUAAUGCCCGCCUCUGGAUACCCUGUAGGAGC
.(((((....))(((((...((((..(((((....(((((......)))))((((.((.(.((((((...((.....)).)))))).).)).)))).)))))..)))).))))).))).. ( -46.70)
>DroGri_CAF1 1269 118 + 1
--CCGGUGGCCCAUAUGUGUUAUCCGGCGGCAGAUAACUCACUUCCGGCUGCACAGUUGAGCUGGGCAACUCGAAGGGCACAUCGGGUGUUAUGCCCGCCGCCGGAUAACCUGUGGGCGC
--......(((((((.(.(((((((((((((.(((...((.((((.((.(((.(((.....))).))).)).))))))...)))((((.....))))))))))))))))))))))))).. ( -61.20)
>DroMoj_CAF1 1405 120 + 1
GUCCGGUGGUCCAUAGGUAUUAUCUGGAGGCAGAUACUUCACUUCCGGCUGUGCAGUGGAGCUUGGCAGCUCAAAGGGCACUUCGGGAGUGAUGCCAGCCUCUGGGUAGCCGGUGGGCGC
........((((((.(((..((((..(((((.......((((((((((..((((....(((((....))))).....)))).)))))))))).....)))))..))))))).)))))).. ( -57.50)
>DroAna_CAF1 1477 120 + 1
GUCCGGAGGACCAUAAGUGUUAUCGGGUGGUAGAUAGGUGUUUUCCGGCUUUGCCGUCGAGCUGGGGAGAUCGAAGGGUACACUGGGUGUGACACCGGCCUCUGGGUAGCCCGUAGGCGC
.(((((((((((((..(......)..))))).....((((((.(((((...((((.((((.((....)).))))..))))..)))))...))))))..))))))))..(((....))).. ( -46.90)
>consensus
GUCCGGAGGUCCAUAGGUGUUAUCCGGAGGCAGAUAAGUCACUUCCGGCUGGGCAGUCGAGCUGGGCAGAUCGAAGGGAACAUCGGGUGUGAUGCCCGCCUCCGGAUAGCCGGUGGGCGC
........((((((....(((((((((.(((.........((((((((........((((.((....)).))))........)))))))).......))).)))))))))..)))))).. (-26.58 = -27.61 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:30 2006