Locus 680

Sequence ID X_DroMel_CAF1
Location 1,888,258 – 1,888,359
Length 101
Max. P 0.742516
window1092

overview

Window 2

Location 1,888,258 – 1,888,359
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 89.77
Mean single sequence MFE -33.30
Consensus MFE -26.74
Energy contribution -27.93
Covariance contribution 1.19
Combinations/Pair 1.14
Mean z-score -1.72
Structure conservation index 0.80
SVM decision value 0.45
SVM RNA-class probability 0.742516
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1888258 101 + 22224390
AGGCUCCAUCAUCCAUCCACUCGAGCCUCUGCCGGCGUCGACGUCGGCGCCAAUCCACUAUGUGGCAUCCAGUGUUGCCAGCACAGCUUGGGUAUUUUCCC
..................((((((((...(((.(((((((....)))))))...........(((((........))))))))..))))))))........ ( -34.30)
>DroSec_CAF1 1846 101 + 1
AGGCUCCAUCAUCCAUCCACUCGAGCCUCUGCCGGCGUCGACGUCGGCGCCAAUCCACUAUGCGGCAUCCAGUGUUGCCAGCACAGCUCGGGUAUUUUCCC
..................((((((((...(((.(((((((....)))))))............((((........)))).)))..))))))))........ ( -35.80)
>DroEre_CAF1 1886 99 + 1
AGGCUCCAUCAUCCAGCCACUCGAGCCUCUGUCGGCGUUGACGUCGGCGCCGAUCCACUAUGCGGCAUCCAGUGUUGCCAGCACAGCCCGGC--UUUUCCC
.((((.........))))....(((((...((((((((((....))))))))))...((.(((((((........)))).))).))...)))--))..... ( -37.00)
>DroYak_CAF1 1661 95 + 1
AGGCUCCAUCAUCCAUCCACUCGAGCCUCUGCCG------ACGUCGGCGCCGAUCCACAAUGCGGCAUCCAGUGUUGCCAGCAUCGCUCUGGUUUUUUCCC
((((((................))))))..((((------....))))((((..........))))..((((.((((....))..)).))))......... ( -26.09)
>consensus
AGGCUCCAUCAUCCAUCCACUCGAGCCUCUGCCGGCGUCGACGUCGGCGCCAAUCCACUAUGCGGCAUCCAGUGUUGCCAGCACAGCUCGGGUAUUUUCCC
..................((((((((....(((((((....)))))))............(((((((........)))).)))..))))))))........ (-26.74 = -27.93 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:58 2006