Locus 7540

Sequence ID 3R_DroMel_CAF1
Location 20,194,597 – 20,194,688
Length 91
Max. P 0.654696
window12170

overview

Window 0

Location 20,194,597 – 20,194,688
Length 91
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 78.21
Mean single sequence MFE -24.23
Consensus MFE -13.93
Energy contribution -14.23
Covariance contribution 0.31
Combinations/Pair 1.14
Mean z-score -1.70
Structure conservation index 0.57
SVM decision value 0.25
SVM RNA-class probability 0.654696
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20194597 91 + 27905053
AAACAAGGCAAAGUGGUCGAAAUGGACCACUCCUUCCCCAAAGUGGGAAUCCAAAUGGAAUC-----------------AGAACAAGUACAGUGGAGCAUGGCAAUCG
.......((...((((((......))))))((((((((......)))))(((....)))...-----------------..............))))).......... ( -22.90)
>DroVir_CAF1 8033 103 + 1
CAACAAGACCAGAUGGUCGAAAUGGACUACACCAGCGCCGAAGUGGUCAGCCAACUGGACAAGUCACUGGCCCAGACUUAGACCAAACGCAGUUGU-----CGAAUCU
((((..((((....))))....(((......)))(((......(((((.(((....)).)(((((.........))))).)))))..))).)))).-----....... ( -25.70)
>DroSec_CAF1 6109 91 + 1
AAACAAGGCAAAGUGGUCGAAAUGGACCACACCUUCCCCGAAGUGGGAAUCCAAAUGGAAUC-----------------AGAACAAGUACAGUGGAGCAUGGCAAUCA
.......((...((((((......)))))).(((((((......)))))(((....)))...-----------------..............)).)).......... ( -22.20)
>DroSim_CAF1 6137 91 + 1
AAACAAGGCAAAGUGGUCAAAAUGGACCACACCUUCGCCAAAGUGGGAAUCCAAAUGGAAUC-----------------AGAACAAGUACAGUGGAGCAUGGCAAUCA
....((((....((((((......)))))).)))).((((..((..((.(((....))).))-----------------...))..((........)).))))..... ( -23.10)
>DroEre_CAF1 6142 91 + 1
CAACAAGGCAAAGUGGUCGAAAUGGACCACACAUUCGCCAAAGUGGAAAUCCAAAUGGAGUC-----------------AGCACAAGUACAGUGCAGCCUGGCAAUCG
.....((((...((((((......)))))).......(((...(((....)))..)))....-----------------.((((.......)))).))))........ ( -27.70)
>DroYak_CAF1 6133 91 + 1
AAGCAAGGCAAAGUGGUCGAAAUGGAGCACACCUUCGCCAAAGUGGGAAUCCAAAUGGAAGC-----------------AGCACAAGUACAGUGGAGCCUGGCAGUCG
..((.((((...(((.((......)).)))...(((((....(((.(..(((....)))..)-----------------..))).......))))))))).))..... ( -23.80)
>consensus
AAACAAGGCAAAGUGGUCGAAAUGGACCACACCUUCGCCAAAGUGGGAAUCCAAAUGGAAUC_________________AGAACAAGUACAGUGGAGCAUGGCAAUCG
.......((...((((((......)))))).......(((...(((....)))..)))...........................................))..... (-13.93 = -14.23 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:22 2006