Locus 12889

Sequence ID dm3.chrX
Location 3,022,661 – 3,022,740
Length 79
Max. P 0.709471
window17723

overview

Window 3

Location 3,022,661 – 3,022,740
Length 79
Sequences 5
Columns 88
Reading direction reverse
Mean pairwise identity 71.98
Shannon entropy 0.49798
G+C content 0.30409
Mean single sequence MFE -8.56
Consensus MFE -5.08
Energy contribution -5.36
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -1.14
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.47
SVM RNA-class probability 0.709471
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3022661 79 - 22422827
CAUUUGUGCACCGAAAGAAACAAACAAACAAAU---------GACAUCCAAGAAUACAUCUAAAAAAAAAAAUACUAUUUAAAUUUGC
(((((((....................))))))---------)............................................. (  -4.55, z-score =  -0.26, R)
>droEre2.scaffold_4690 448729 84 - 18748788
CAUUCGUGCACCGAAAGAAACAAACGAAUGACCC----UAGAAAUACACAAUAUUACAAUAUUACAAACGUGUAUUUUCCAAGUUUGA
(((((((....(....)......)))))))....----..(((((((((....................))))))))).......... ( -14.85, z-score =  -2.82, R)
>droYak2.chrX 16424131 88 + 21770863
CAUUUGUGCACCGAGAGAAACAAACAAAUCAGCCAAAAAAAAAAAAAACACAAAUAUGGCACUACAAAAGUAAAACUUUUAAGUUUGC
....................(((((......((((.....................)))).....(((((.....)))))..))))). (  -9.60, z-score =  -0.33, R)
>droSec1.super_10 2753129 83 - 3036183
CAUUUGUGCACCGAAAGAAACAAACAAAUGAAC-----CAAAAACACCAAGAAAUAUCACACUACAAAAUAAUACUUUUCAAAUUUGC
(((((((....(....)......)))))))...-----.................................................. (  -6.90, z-score =  -1.24, R)
>droSim1.chrX 2147045 83 - 17042790
CAUUUGUGCACCGAAAGAAACAAACAAAUGAGC-----CAAAAACACCAAGAAAUAUCACACUACAAAAUAAUACUUUUCAAAUAUGC
(((((((....(....)......)))))))...-----.................................................. (  -6.90, z-score =  -1.07, R)
>consensus
CAUUUGUGCACCGAAAGAAACAAACAAAUGAAC_____CAAAAACACCCAAAAAUAUAACACUACAAAAGAAUACUUUUCAAAUUUGC
(((((((....(....)......))))))).......................................................... ( -5.08 =  -5.36 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:10:45 2011