Locus 9945

Sequence ID 3R_DroMel_CAF1
Location 26,624,767 – 26,624,857
Length 90
Max. P 0.529228
window15850

overview

Window 0

Location 26,624,767 – 26,624,857
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 66.90
Mean single sequence MFE -25.08
Consensus MFE -8.23
Energy contribution -10.07
Covariance contribution 1.83
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.33
SVM decision value -0.01
SVM RNA-class probability 0.529228
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26624767 90 - 27905053
GUGGUGGGUGGCUGGUUGGUUGUUGGUCAGUCAGC---UGUGGGAAACUCAGCCACGGGAGUUGGCCAUUAGCCUGGCUGAAAAUCAAAUAGC
..........((((.((((((.....(((((((((---(((((..(((((........)))))..))).))).)))))))).)))))).)))) ( -31.60)
>DroSec_CAF1 216572 72 - 1
GAGGUGCGUUGG------------------UCAGC---UGUGGGAAACUCAGCCACGGGAGUUGGCCAUUAGCCUGGCUGAAAAGCAAAUAGC
.((((....(((------------------(((((---((.((....)))))).((....))))))))...)))).(((....)))....... ( -26.50)
>DroSim_CAF1 211901 72 - 1
GAGGUGGGUUGC------------------UCAGC---UGUGGGAAACUCAGCCACGGGAGUUGGCCAUCAGCCUGGCUGAAAAGCAAAUAGC
..(((((.(.((------------------((.((---((.((....)))))).....)))).).)))))......(((....)))....... ( -25.30)
>DroEre_CAF1 222989 83 - 1
GUGGUGGGUGGCUGGUUG-------GUCGGUCAGC---UGGCGAAAACUCAGCCAUGGGAGUUGGCCAUUAGCCUGGCUGAAAAGAAAAUAGC
(((((((((.((..((((-------(....)))))---..))....))))).)))).....(..((((......))))..)............ ( -27.20)
>DroYak_CAF1 219123 79 - 1
GUGGUAGGUGGGCGGUUG-----------GUCAGC---UGUGGGAAACUCAGCCGCGGGAGUUGGCCAUUAUGCUGGCUGAAAAGAAAAUAGC
......(((.((((..((-----------((((((---((.((....)))))).((....))))))))...)))).))).............. ( -26.60)
>DroPer_CAF1 266011 73 - 1
GAGGUGGGUGGCAGGAGG--AGUUGAACAAACAGAGAGAGUGGGAG----AGCCACGA-------------AAUGAGCUAAA-AUUAAACGCC
..((((..((((......--.(((.....))).......((((...----..))))..-------------.....))))..-......)))) ( -13.30)
>consensus
GAGGUGGGUGGC_GGUUG___________GUCAGC___UGUGGGAAACUCAGCCACGGGAGUUGGCCAUUAGCCUGGCUGAAAAGCAAAUAGC
..............................(((((....((((..(((((........)))))..)))).......)))))............ ( -8.23 = -10.07 +   1.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:45:24 2006