Locus 888

Sequence ID X_DroMel_CAF1
Location 2,505,330 – 2,505,441
Length 111
Max. P 0.627635
window1442

overview

Window 2

Location 2,505,330 – 2,505,441
Length 111
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.49
Mean single sequence MFE -20.85
Consensus MFE -16.26
Energy contribution -16.57
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.19
SVM RNA-class probability 0.627635
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2505330 111 - 22224390
--AGCCAUAUAAUUCCGACUUUUAGUCGUUUCAAGCGCGUCAUCGUAAACGUCA-------UUAUGCCAUACAUACAAAAACAACAAGCAAACAAUGUAAAUCGAGACGUGCAAAUAUUU
--.............((((.....))))......(((((((.(((...((((..-------((.(((....................)))))..))))....))))))))))........ ( -20.75)
>DroSec_CAF1 4042 109 - 1
--A-CCAUAUAAUUCCGACUUUUCGUCGAUUCAAGCGCGUCAUCGUAAGCGUCA-------UUAUGCCAUAAAUACAAAAACAACAAGCUGA-AAUGUAAAUCGAGACGUGCAAAUAUUU
--.-...........((((.....))))......(((((((.(((...((((..-------..))))......((((....((......)).-..))))...))))))))))........ ( -21.20)
>DroEre_CAF1 4306 112 - 1
CAAGCCAUAUAAUUUCGACUUUUGCUCGUUUUAAGCGCGUCAUCGUAAGCGUCA-------AUAUGCCAUAAAUACAAAAACAACAAGCUGA-AAUGUUAAUCGAGACGUGCAAAUAUUU
.........(((...((((....).)))..))).(((((((.(((...((((..-------..))))...............((((......-..))))...))))))))))........ ( -18.20)
>DroYak_CAF1 5305 114 - 1
-----CAUAACAUUUCGACUUUUGGUCGUAUUAAGCGCGUCAUCGUUAGCGAUAAAUACAAAAAUGCCAUAAAUACAAAAACAACAAGCAGA-AAUGUAAAUCGAGACGUGCAAAUAUUU
-----..........((((.....))))......(((((((((((....))))...((((....(((....................)))..-..))))......)))))))........ ( -23.25)
>consensus
__A_CCAUAUAAUUCCGACUUUUGGUCGUUUCAAGCGCGUCAUCGUAAGCGUCA_______AUAUGCCAUAAAUACAAAAACAACAAGCAGA_AAUGUAAAUCGAGACGUGCAAAUAUUU
...............((((.....))))......(((((((.(((...((((..........................................))))....))))))))))........ (-16.26 = -16.57 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:20 2006