Locus 13438

Sequence ID dm3.chrX
Location 6,540,802 – 6,540,868
Length 66
Max. P 0.608440
window18507

overview

Window 7

Location 6,540,802 – 6,540,868
Length 66
Sequences 6
Columns 74
Reading direction forward
Mean pairwise identity 71.05
Shannon entropy 0.50085
G+C content 0.53417
Mean single sequence MFE -20.25
Consensus MFE -5.77
Energy contribution -6.49
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -2.52
Structure conservation index 0.28
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.608440
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6540802 66 + 22422827
UGGAGUUGAAGUUAGAGUAGCAGCU--------CCAUCUCCAGCUCCAGCUCCACCUAAGCACGCAUCCCAUCC
((((((((.((...((((....)))--------)...)).))))))))(((.......)))............. ( -18.70, z-score =  -3.04, R)
>droSim1.chrX 5143038 60 + 17042790
UGGAGUUGAAGUUGGAGUAGCAGCU--------------CCAUCUCCAGCUCCACCUAAGCACGCAUCCCAUCC
((((((((.((.((((((....)))--------------))).)).)))))))).................... ( -22.40, z-score =  -4.04, R)
>droSec1.super_4 5915080 66 - 6179234
UGGAGUUGAAGUUGGAGUAGCAGCU--------CCAUCUGCAGCUCCAGCUCCACCUAAGCACGCAUCCCAUCC
((((((((.((.((((((....)))--------))).)).))))))))(((.......)))............. ( -24.40, z-score =  -3.17, R)
>droYak2.chrX 2503616 74 + 21770863
UGGAGUUGAAGUUGGUCUAGCAGCUAAGCAGCUCCAUCUCCAGCCUCAGCUCCACCUAAGCACGCAUCCCAGCC
(((((((((.(((((....(.((((....)))).)....))))).))))))))).........((......)). ( -25.10, z-score =  -2.77, R)
>droEre2.scaffold_4690 15468010 60 + 18748788
UGAAGCUUGAGUUGGAGUUGGAGUU--------------GGUGUACCAGCUCCACCUAAGCACGCAUCCCAGCC
.((.((.((..((((.((.((((((--------------((....)))))))))))))).)).)).))...... ( -21.50, z-score =  -2.27, R)
>droWil1.scaffold_181096 3608901 51 + 12416693
UGGAGG-GGUGCUGAUGU-GCAAUU-------------------UUAAGCUCCACCUAAAAACGCAUUCAAU--
.((.((-(((...(((..-...)))-------------------....))))).))................-- (  -9.40, z-score =   0.18, R)
>consensus
UGGAGUUGAAGUUGGAGUAGCAGCU______________CCAGCUCCAGCUCCACCUAAGCACGCAUCCCAUCC
((((((((......................................)))))))).................... ( -5.77 =  -6.49 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:21:26 2011