Locus 4504

Sequence ID X_DroMel_CAF1
Location 11,890,606 – 11,890,714
Length 108
Max. P 0.653004
window7408

overview

Window 8

Location 11,890,606 – 11,890,714
Length 108
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 70.75
Mean single sequence MFE -19.92
Consensus MFE -8.79
Energy contribution -9.85
Covariance contribution 1.06
Combinations/Pair 1.18
Mean z-score -2.08
Structure conservation index 0.44
SVM decision value 0.25
SVM RNA-class probability 0.653004
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11890606 108 - 22224390
AAUUGGACCACCU------------UUACCCCCUUCAACCCGUUUACAUUUUGUAAAUUCGUCCAAUUUACGUGUGUGUUUCGGCGUGCAAAAUAAAAUCAUCAGCAGUCAAUUAAUCAA
.....(((.....------------............(((((..(((((..((((((((.....)))))))).)))))...))).))((...............)).))).......... ( -15.86)
>DroSec_CAF1 1153 102 - 1
AAUUGGAUCACCCGAAGGGGUAAAUUUCAA--------CCCCUUUGCAU--UGCAAAUUCGUCCAAUUGAA--------ACCAAAAAUAAAAAUAAAAUCAUCAGCAGUCAAUUAAUCAA
((((((((((..(((((((((........)--------))))))))...--)).......))))))))...--------......................................... ( -19.01)
>DroSim_CAF1 1961 110 - 1
AAUUGGAUCACCCGAAG-GGUAAAUUUCAACCCCUCAACCCCUUUGCAU--UGCAAAUUCGUCCAAUUGAAA-------AUCAAAAAUAAAAAUAAAAUCAUCAGCAGUCAAUUAAUCAA
((((((((.....((.(-(((........)))).))......(((((..--.)))))...))))))))....-------......................................... ( -16.40)
>DroYak_CAF1 1955 108 - 1
AAUUGUACCACCCGAACGCGUAAAUUUCAA--------CUCUUUUGCAU--UGUAAAUUGGUUCAAUUUACGUG--UGUUUGGGCGUGCAAAAUGGAAUCAUCAGCAGUCAAUUAAUCAA
..((((((..((((((((((((((((..((--------((..(((((..--.)))))..)))).))))))))).--.))))))).))))))............................. ( -28.40)
>consensus
AAUUGGACCACCCGAAG_GGUAAAUUUCAA________CCCCUUUGCAU__UGCAAAUUCGUCCAAUUGAAG_______AUCAAAAAGAAAAAUAAAAUCAUCAGCAGUCAAUUAAUCAA
((((((((.((((....)))).....................(((((.....)))))...)))))))).................................................... ( -8.79 =  -9.85 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:46 2006