Locus 1939

Sequence ID X_DroMel_CAF1
Location 5,311,354 – 5,311,448
Length 94
Max. P 0.967870
window3149

overview

Window 9

Location 5,311,354 – 5,311,448
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.70
Mean single sequence MFE -24.04
Consensus MFE -13.20
Energy contribution -13.32
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -2.04
Structure conservation index 0.55
SVM decision value 1.62
SVM RNA-class probability 0.967870
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5311354 94 + 22224390
----------------AAUGCGCAUU-----CGAAUAAAUCGCUCUACAUUGCGAAAGU-----GAACCCUUGUGGCGAAAGUCAAAAUCGGCAAGAGUGAAAAUCGGAGACAAAGACAA
----------------.....(..((-----(((.....(((((((...(..(....).-----.).((....((((....)))).....))..)))))))...)))))..)........ ( -24.60)
>DroSec_CAF1 48100 86 + 1
----------------GUUAGC-----------UACAAAUCGCUCUACAUUGCCAAAGU-----GAACCCUUGUGGCAAAAGUCAA-AUCGGCAAGAGUGAAAAUCGGAGACAAAGACA-
----------------(((...-----------......(((((((...(((((((((.-----.....))).))))))..(((..-...))).))))))).....(....)...))).- ( -22.20)
>DroSim_CAF1 39604 86 + 1
----------------GUUAGC-----------UACAAAUCGCUCUACAUUGCCAAAGU-----GAACCCUUGUGGCAAAAGUCAA-AGCGGCAAGAGUGAAAAUCGGAGACAAAGACA-
----------------(((...-----------......(((((((...(((((((((.-----.....))).))))))..(((..-...))).))))))).....(....)...))).- ( -22.20)
>DroEre_CAF1 50813 100 + 1
----------------UGUCCAUGUUUUCGCCGCAUAAAUCGCUCUACAGUGCUUUAGUUAGCCGAACCC--AUGGCAAAAGUCAA-AUCAGCAAGAGUGAAAAUCGGAGACAAAGACA-
----------------.(((..((((((((.........(((((((...(.(((......))))......--.((((....)))).-.......)))))))....))))))))..))).- ( -23.52)
>DroYak_CAF1 50662 111 + 1
CAGUCAUGUUUCCAUGUUUCCAUGUUUCCAGCGAAUAAAACGCUGUUCAGUGCUUUAGU-----GAACCC--AUGGCAAAAGUCAA-AUCAGCGAGAGUGAAAAUCGGAGACAAAGACU-
.((((.(((((((...((((((((.....((((.......))))(((((.((...)).)-----)))).)--)))).)))......-.(((.(....)))).....)))))))..))))- ( -27.70)
>consensus
________________GUUACA__UU_____CGAAUAAAUCGCUCUACAUUGCCAAAGU_____GAACCCUUGUGGCAAAAGUCAA_AUCGGCAAGAGUGAAAAUCGGAGACAAAGACA_
.......................................(((((((....((((...((.......)).....((((....)))).....))))))))))).....(....)........ (-13.20 = -13.32 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:18 2006