Locus 3183

Sequence ID 2R_DroMel_CAF1
Location 10,877,656 – 10,877,750
Length 94
Max. P 0.969150
window5239

overview

Window 9

Location 10,877,656 – 10,877,750
Length 94
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 89.05
Mean single sequence MFE -28.53
Consensus MFE -25.24
Energy contribution -25.27
Covariance contribution 0.03
Combinations/Pair 1.19
Mean z-score -2.25
Structure conservation index 0.88
SVM decision value 1.64
SVM RNA-class probability 0.969150
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10877656 94 - 20766785
AAUCGCA----CAAUUUUCC--CCUCUAGCCGCCCUGCCGAUGAAAAUCGAAUCGCAAACAGCAACAAUGACACGGGAAAAGCCCCGGAUUGGGGUGGCA
.......----.........--......((((((((..((((....))))((((((.....))..........((((......)))))))))))))))). ( -31.90)
>DroSec_CAF1 9323 93 - 1
AAUCGCA----CAAUUUUCC--CCUCUUGCCGCCC-GCCGAUGAAAAUCGAAUCGCAAACAGCAACAAUGACACGGGAAAAGCCCCGGAUUGGGGUGGCA
.......----.........--.....((((((((-..((((....))))((((((.....))..........((((......)))))))).)))))))) ( -31.00)
>DroSim_CAF1 5995 93 - 1
AAUCGCA----CAAUUUUCC--CCUCUAGCCGCCC-GCCGAUGAAAAUCGAAUCGCAAACAGCAACAAUGACACGGGAAAAGCCCCGGAUUGGGGUGGCA
.......----.........--......(((((((-..((((....))))((((((.....))..........((((......)))))))).))))))). ( -31.10)
>DroEre_CAF1 6054 93 - 1
AAUCGCA----CAAUUUUCC--CCACCAGCCGCCC-GCCGAUGAAAAUCGAAUCGCAAACAGCAACAAUGACACGGGAAAAGCCCCUGAUUGGGGUGGCA
.......----.........--......(((((((-..((((....))))((((((.....))...........(((......))).)))).))))))). ( -28.40)
>DroYak_CAF1 9990 95 - 1
AAUCGCA----CAGUUUUCCCCCCGCCAGCCACCC-GCCGAUGAAAAUCGAAUCGCAAACAGCAACAAUGACACGGGAAAAGCCCCAGAUUGGGGUGGCA
.......----.................(((((((-..((((....))))((((((.....))...........(((......))).)))).))))))). ( -29.50)
>DroAna_CAF1 5634 96 - 1
AAUCGCAGUCGCACUUGGAA--UCACU--UCACCCUCCUGUUCAAAAUCGAAUCGCAAACAGCAACAAUGACACGGGAAAAGCUCCGGAUUGGGGUGGAA
....((....))........--....(--(((((((...((((...........((.....))............(((.....))))))).)))))))). ( -19.30)
>consensus
AAUCGCA____CAAUUUUCC__CCUCUAGCCGCCC_GCCGAUGAAAAUCGAAUCGCAAACAGCAACAAUGACACGGGAAAAGCCCCGGAUUGGGGUGGCA
............................(((((((...((((....))))((((((.....))..........((((......)))))))).))))))). (-25.24 = -25.27 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:28 2006