Locus 7662

Sequence ID 3L_DroMel_CAF1
Location 20,572,079 – 20,572,178
Length 99
Max. P 0.615889
window12453

overview

Window 3

Location 20,572,079 – 20,572,178
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.75
Mean single sequence MFE -26.83
Consensus MFE -5.75
Energy contribution -5.35
Covariance contribution -0.40
Combinations/Pair 1.43
Mean z-score -1.77
Structure conservation index 0.21
SVM decision value 0.17
SVM RNA-class probability 0.615889
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20572079 99 + 23771897
GG--------CACAUCAGGU----GCACC------AAUUCCUGCGCCGAUUCCUAUGCCCUU---GCCCCACCAUCAACCACCCCCGGGAAAUCCACUGGGUAAGAUAUACACCAUCAAG
((--------((.(((.(((----(((..------......))))))))).....))))(((---((((.........((......))..........)))))))............... ( -24.91)
>DroSec_CAF1 17022 99 + 1
GG--------CACUUCAGGU----GCACC------AAUUCCUGCGCCGAUUCCUAUGCCCUU---ACCCCACCAUCAACCACCCCCGGGAAAUCCACUGGGUAAGAUAUACACCAUCAAG
((--------((.....(((----(((..------......))))))........))))(((---((((.........((......))..........)))))))............... ( -24.33)
>DroAna_CAF1 38588 120 + 1
GGUGCAGGAGCAGCUCAGCUCCCAGCUCCAAUGGCAAUACCGCUGCCUAUUCCCAUGCCGAUGGCAGCCCACCACCCACCGCCCCCGGUGAAGCCGCCCAACCUGGCGUAUGUCAUCAAG
((.((.(((((......)))))..)).)).((((((.(((.((((((...((.......)).))))))........(((((....)))))..((((.......))))))))))))).... ( -41.60)
>DroSim_CAF1 10518 99 + 1
GG--------CACUUCAGGU----GCACC------AAUUCCUGCGCCGAUUCCUAUGCCCUU---ACCCCAUCAUCAAGCACCCCCGGGAAAUCCACUGGGUAAGAUAUACACCAUCAAG
((--------((.....(((----(((..------......))))))........))))(((---((((............((....)).........)))))))............... ( -23.32)
>DroEre_CAF1 10287 99 + 1
GG--------CACUUCAGCU----GCACC------GAUUCCUGCGCCGAUUCCUAUGCCCUU---ACCCCACCAUCAACCACCCCCGGGAAAUCCGCUGGGUAAGAUAUACACCAUCAAG
((--------((..((.((.----(((..------......))))).))......))))(((---((((.........((......))..........)))))))............... ( -20.01)
>consensus
GG________CACUUCAGGU____GCACC______AAUUCCUGCGCCGAUUCCUAUGCCCUU___ACCCCACCAUCAACCACCCCCGGGAAAUCCACUGGGUAAGAUAUACACCAUCAAG
((...............(((...............((((........))))..............)))...............(((((........)))))...........))...... ( -5.75 =  -5.35 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:05 2006