Locus 4015

Sequence ID 3R_DroMel_CAF1
Location 10,945,544 – 10,945,643
Length 99
Max. P 0.621398
window6433

overview

Window 3

Location 10,945,544 – 10,945,643
Length 99
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 68.72
Mean single sequence MFE -18.68
Consensus MFE -6.46
Energy contribution -7.74
Covariance contribution 1.28
Combinations/Pair 1.10
Mean z-score -1.80
Structure conservation index 0.35
SVM decision value 0.18
SVM RNA-class probability 0.621398
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10945544 99 - 27905053
--AAA-UAAA---UAAUAUAGAUAGCAAUAUA-GCCAU-U-CGCAUAAAUU------AU-AUAUGUAGUUCACUUAAGACCAGUGAACACUUUAGCCAUUGAAGAGGCAGUUAAA
--...-....---((((....(((....))).-(((.(-(-((((((....------..-.))))).(((((((.......)))))))............)))..))).)))).. ( -17.20)
>DroSec_CAF1 14735 93 - 1
--AAA-UAAA---UAAUAUA-------AUAUU-GCUAU-UACGCAUAAAUU------AU-AUAUGUAGUUCACUUUAGACCAGUGAACACUUUAGCCAUAGAAGCGGCAGUUAAA
--...-....---..(((((-------((..(-((...-...)))...)))------))-)).....(((((((.......)))))))......(((........)))....... ( -18.30)
>DroSim_CAF1 22524 93 - 1
--AAA-UAAA---UAAUAUA-------AUAUU-GCUAU-UUCGCAUAAAUU------AU-AUAUGUAGUUCACUUCAGACCAGUGAACACUUUAGCCAUAGAAGAGGCAGUUAAA
--...-....---.......-------..(((-(((.(-((((((((....------..-.))))).(((((((.......)))))))............)))).)))))).... ( -18.80)
>DroEre_CAF1 15473 98 - 1
UUAAA-UAAA---UAAUUCUAAUUGCAAUGUAUG-CAA-UGCGCAUAAAUU------AU-AU----AGUUCACUUUAGACCAGUGAUCACUUUAGCCAUCGACGAGGCAGUUAAA
.....-....---......((((((((((.((((-(..-...))))).)))------..-..----.(.(((((.......))))).)..................))))))).. ( -15.70)
>DroAna_CAF1 15036 105 - 1
--GAAAUAUUUGGCAUUAAA-------GUAUU-GCUCUUUUCGUAAGAAUUUGAGUCAUAAUCCGUGAUCCUUUUUAGCCAAUUUCUCCUUUUCGGGAUCAACCAGUCAGCCAAA
--......((((((......-------.(((.-((((..(((....)))...)))).))).....(((((((....((..........))....)))))))........)))))) ( -23.40)
>consensus
__AAA_UAAA___UAAUAUA_______AUAUU_GCUAU_UUCGCAUAAAUU______AU_AUAUGUAGUUCACUUUAGACCAGUGAACACUUUAGCCAUAGAAGAGGCAGUUAAA
...................................................................(((((((.......)))))))......(((........)))....... ( -6.46 =  -7.74 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:54 2006