Locus 5941

Sequence ID 3L_DroMel_CAF1
Location 15,918,999 – 15,919,117
Length 118
Max. P 0.617622
window9487

overview

Window 7

Location 15,918,999 – 15,919,117
Length 118
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 87.29
Mean single sequence MFE -29.65
Consensus MFE -21.23
Energy contribution -21.73
Covariance contribution 0.50
Combinations/Pair 1.22
Mean z-score -1.61
Structure conservation index 0.72
SVM decision value 0.17
SVM RNA-class probability 0.617622
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15918999 118 + 23771897
CUGCUUUAACAGACACAUUGCCUGCGAAAAGUCGGAAAAUUGUAAUAAAUGUGGGAUUUUCCCAAGUGUAGGAGUACCAGCAGACUUUUCGUCAGCAGUGAAUUUUUAAAUAUUCCAA
(((......)))...((((((..((((((((((((((((((.((.......)).))))))))....(((.((....)).)))))))))))))..)))))).................. ( -35.10)
>DroSec_CAF1 20640 118 + 1
CUGCUUUAACAGACACAUUGCCUGCGAAAAGUCGGAAAAUUGUAAUAAAUGUAGGAUUUUCCCAAGUGUAGGAGUUUCAGCAGACAUUUCGUCAGCAGCGAAUUUUUAAAUAUUCCAA
(((......))).....((((..((((((.(((((((((((.((.......)).))))))))....(((.((....)).)))))).))))))..)))).((((........))))... ( -24.60)
>DroSim_CAF1 20991 118 + 1
CUGCUUAAACAGACACAUUGCCUGCGAAAAGUCGGAAAAUUGUAAUAAAUGUGGGAUUUUCCCAAGUGUAGGAGUUUCAGCAGACUUUUCGUCAGCAGGGAAUUUUUAAAUAUUCCAA
(((......))).....((((..((((((((((.((((.((.((....((.((((.....)))).)).)).)).))))....))))))))))..))))(((((........))))).. ( -34.20)
>DroYak_CAF1 18853 113 + 1
CGGCUUUAACAGACAUAUU--CUGUGGAAAACCGGGAUAUUGCGAUAAA--UGGGUUUUUUCUAAGUGUGGGAGUUUCAGCAGACAUUUCGGCAGCGGCGAAUU-UUGAAUAUUCCUA
.((.(((.(((((.....)--))))..))).))((((((((.(((....--((((.....))))..(((.(((((.((....)).))))).)))..........-))))))))))).. ( -24.70)
>consensus
CUGCUUUAACAGACACAUUGCCUGCGAAAAGUCGGAAAAUUGUAAUAAAUGUGGGAUUUUCCCAAGUGUAGGAGUUUCAGCAGACAUUUCGUCAGCAGCGAAUUUUUAAAUAUUCCAA
(((((....(((.(.....).)))(((((((((((((((((.((.......)).))))))))....(((.((....)).))))))))))))..))))).((((........))))... (-21.23 = -21.73 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:40 2006