Locus 6248

Sequence ID 3L_DroMel_CAF1
Location 16,621,089 – 16,621,196
Length 107
Max. P 0.633742
window10020

overview

Window 0

Location 16,621,089 – 16,621,196
Length 107
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 87.45
Mean single sequence MFE -31.14
Consensus MFE -22.74
Energy contribution -23.14
Covariance contribution 0.40
Combinations/Pair 1.09
Mean z-score -1.74
Structure conservation index 0.73
SVM decision value 0.21
SVM RNA-class probability 0.633742
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16621089 107 + 23771897
GGCUAGAAGUUUUCGGGCAAUGCGGGAUGACACACCUGCUGCAGCAGGUGGCCGAUAAGCCGUCAAUACUCAGACGAAAAGCAA----------CAAGCCAUCCAGUCAAAACAAUU
((((.(..((((((.(((....((((....).(((((((....))))))).)))....)))(((........)))).)))))..----------).))))................. ( -32.40)
>DroSec_CAF1 5845 107 + 1
GGCUAGAAGUUUUGGGGCAAUGCGGGAUGACACACCUGCUGCAGCAGGUGGCCGAUAAGCCGUCAAUACUCAGACCAAAAGCAA----------CAAGCAAUCCAGUCAAAACAAUU
((((.((..((((((.((...))(((.((((..((((((....))))))(((......)))))))...)))...))))))((..----------...))..)).))))......... ( -31.50)
>DroSim_CAF1 5927 107 + 1
GGCUAGAAGUUUUGGGGCAAUGCGGGAUGACACACCUGCUGCAGCAGGUGGCCGAUAAACCGUCAAUACUCAGACCAAAAGCAA----------CAAGCAAUCCAGUCAAAACAAUU
((((.((.(.((((((.....((((..((.(.(((((((....)))))))...).))..)))).....)))))).)....((..----------...))..)).))))......... ( -30.30)
>DroEre_CAF1 6310 116 + 1
GGCUAGAAGUU-CGGGGUAAUGCGGGAUGACACACCUGCUGCAGCAGGUGGCCGAUAAGCUGUCAAUACUCAGACGAAACGCAAUCAUCAAGUCCCAGCAAUCCAGUCAAAACAAUU
((((.(.....-).((((..(((((((((((((((((((....)))))))((......))))))........((.((.......)).))..))))).)))))))))))......... ( -33.80)
>DroYak_CAF1 5907 110 + 1
GGCUAGAAGUU-UCGGGUAAUGCGGGAUGACACACCUGCUGCAGCAGGUGGCCGAUAAGCUGUCAAUACUCA------AUACAAUCAUCAAGUCCAAACAAUCCAGUCAAAACAAUU
((((.((.(((-(.((.....((..(((((..(((((((....)))))))...(((.....)))........------......)))))..))))))))..)).))))......... ( -27.70)
>consensus
GGCUAGAAGUUUUGGGGCAAUGCGGGAUGACACACCUGCUGCAGCAGGUGGCCGAUAAGCCGUCAAUACUCAGACCAAAAGCAA__________CAAGCAAUCCAGUCAAAACAAUU
((((.((........(((....((((....).(((((((....))))))).)))....)))(((........)))..........................)).))))......... (-22.74 = -23.14 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:43 2006