Locus 3794

Sequence ID 3R_DroMel_CAF1
Location 10,303,786 – 10,303,876
Length 90
Max. P 0.512080
window6088

overview

Window 8

Location 10,303,786 – 10,303,876
Length 90
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 79.32
Mean single sequence MFE -28.04
Consensus MFE -17.29
Energy contribution -18.02
Covariance contribution 0.72
Combinations/Pair 1.10
Mean z-score -1.41
Structure conservation index 0.62
SVM decision value -0.04
SVM RNA-class probability 0.512080
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10303786 90 - 27905053
AGGCCUUUCUCG--------------G---GUUCUCAGGCCACACUUUUCAUUUCUUUCGGCCA-----UCGUUGGAAAGUGAGGCAACAACUCAGGCCAGCUGAGAAGAAA-
.(((((.....(--------------(---(((.....(((.(((((((((.............-----....))))))))).)))...)))))))))).............- ( -26.73)
>DroSec_CAF1 160841 91 - 1
AGGCCUUUCUCG--------------G---GUUCUCAGGCCACACUUUUCAUUUCUUUCGGCCA-----UCGUUGGAAAGUGAGGCAACAACUCAGGCCAGCUGAGAAGAAAA
.(((((.....(--------------(---(((.....(((.(((((((((.............-----....))))))))).)))...)))))))))).............. ( -26.73)
>DroSim_CAF1 161199 90 - 1
AGGCCUUUCUCG--------------G---GUUCUCAGGCCACACUUUUCAUUUCUUUCGGCCA-----UCGUUGGAAAGUGAGGCAACAACUCAGGCCAGCUGAGAAGAAA-
.(((((.....(--------------(---(((.....(((.(((((((((.............-----....))))))))).)))...)))))))))).............- ( -26.73)
>DroEre_CAF1 160503 89 - 1
AGGCCCCUCUCG--------------G---GUUCUCAGGCCACACUUUUCAUUUCUUUCGGCCA-----UCGCUGGAAAGUGAGGCAACAACUCAGCCCAGCUGAGAAGGA--
.((((((.....--------------)---)......))))............((((((.(((.-----(((((....))))))))......(((((...)))))))))))-- ( -29.50)
>DroYak_CAF1 170201 104 - 1
AGGCCCCUCUUUAGAUCUCAAAUCUCA---GUUCUCAGGCCACACUUUUCAUUUCUUUCGGCCA-----UCGUUGGAAAGUGAGGCAACAAGGCAGCCCAGCUGAGAAGAAC-
......................(((((---(((.....(((.(((((((((.............-----....))))))))).(....)..))).....)))))))).....- ( -26.63)
>DroAna_CAF1 143266 85 - 1
AUGCCUUUCCCG--------------GCCUGUUCUCAGGC-GCACUUUUCAUUUCUUUCGGUCGGUGGGUUGGGGGAAAGUGAGGCAACAAU-----------GG-GAGACA-
.....(((((((--------------(((((....)))))-((.(((....(((((..((..(....)..))..)))))..))))).....)-----------))-))))..- ( -31.90)
>consensus
AGGCCUUUCUCG______________G___GUUCUCAGGCCACACUUUUCAUUUCUUUCGGCCA_____UCGUUGGAAAGUGAGGCAACAACUCAGGCCAGCUGAGAAGAAA_
...............................((((((((((.(((((((((......................))))))))).)))..(......).....)))))))..... (-17.29 = -18.02 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:20 2006