Locus 682

Sequence ID 2R_DroMel_CAF1
Location 3,366,128 – 3,366,228
Length 100
Max. P 0.779064
window1205

overview

Window 5

Location 3,366,128 – 3,366,228
Length 100
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 79.80
Mean single sequence MFE -21.10
Consensus MFE -15.63
Energy contribution -16.47
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 0.74
SVM decision value 0.55
SVM RNA-class probability 0.779064
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3366128 100 - 20766785
CCACCCUGCGCCCACAUCU------CGCCCUGCUCCCAUCCCGACCGCCUGUAAUUAGGCUCCAUACCAAACAUCAAUAGCAUUGCCGAGCUGAUGCCGCAGUGCA
.....(((((..((((.((------(((..((((..(.....)...(((((....)))))..................))))..).)))).)).)).))))).... ( -21.50)
>DroSec_CAF1 6788 100 - 1
CCACCCCACGCCCACAUCG------CACCCCACUCACAUCCCGACCGCCUGUAAUUAGGCUCCAUACCAAACAUCAAUAGCAUUGCCGAGCUGAUGCCGCAGUGCA
.........((.......)------)....................(((((....)))))...................(((((((.(.((....)))))))))). ( -20.00)
>DroSim_CAF1 11281 100 - 1
CCACCCCACGCCCACAUCG------CGCCCCACUCACAUUCCGACCGCCUGUAAUUAGGCUCCAUACCAAACAUCAAUAGCAUUGCCGAGCUGAUGCCGCAGUGCA
........(((.......)------))...................(((((....)))))...................(((((((.(.((....)))))))))). ( -21.30)
>DroEre_CAF1 6995 84 - 1
CCAUCCCGCACCCACA----------------------UCCCGACUGCCUGUAAUUAGGCUCCAUACCAAACAUCAAUAGCAUUGCCGAGCUGAUGCCGCAGUGCA
................----------------------........(((((....)))))...................(((((((.(.((....)))))))))). ( -19.30)
>DroYak_CAF1 6867 106 - 1
CCAUCCCGCACCCACAUUGCCCCCGCCCCCCACUGGCAUCCCGACCGCCUGUAAUUAGGCUCCAUACCAAACAUCAAUAGCAUUGCCGAGCUGAUGCCGCAGUGCA
.......((((.......((....))........((((((......(((((....)))))..................(((........)))))))))...)))). ( -24.40)
>DroPer_CAF1 5858 86 - 1
CCAUCUUU---CCG-------------UCUCUCGCAUAUCCUGGUC----GUAAUUAGGCUCCAUUCCGAACAUCAAUAGCAUUGCGGAUCUGAUGCCGCAGUGCA
........---...-------------....(((.....((((((.----...))))))........))).........(((((((((........))))))))). ( -20.12)
>consensus
CCACCCCGCGCCCACAUCG______C_CCCCACUCACAUCCCGACCGCCUGUAAUUAGGCUCCAUACCAAACAUCAAUAGCAUUGCCGAGCUGAUGCCGCAGUGCA
..............................................(((((....)))))...................(((((((.(.((....)))))))))). (-15.63 = -16.47 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:33 2006