Locus 8477

Sequence ID dm3.chr3L
Location 23,247,330 – 23,247,405
Length 75
Max. P 0.583445
window11640

overview

Window 0

Location 23,247,330 – 23,247,405
Length 75
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 59.62
Shannon entropy 0.62180
G+C content 0.34406
Mean single sequence MFE -18.65
Consensus MFE -4.20
Energy contribution -5.45
Covariance contribution 1.25
Combinations/Pair 1.30
Mean z-score -2.37
Structure conservation index 0.22
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.583445
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23247330 75 + 24543557
----------------CAAAAAAAAUAUAAUCAAAAGUCGAAAUAGACAUCCACGCAUAGUUAAAGAACCUUUCUGCGUGGUUUGGUAAGU
----------------.............((((((.(((......)))..(((((((..(((....))).....))))))))))))).... ( -16.40, z-score =  -3.43, R)
>droSim1.chr3L 22415864 91 + 22553184
CAAACGACUACUAAUUUUAUUUAAGUAUAAUCAACAGUCGAAAUAGACUUGCGCGCACAGUUAAAGAACUUUUCUGUGUGGUUUCGUAAGU
....(((((....(((.(((....))).)))....)))))......((((((((((((((..((.....))..)))))))....))))))) ( -20.50, z-score =  -1.76, R)
>droSec1.super_41 162493 91 + 296808
CAAACGACUACUAAUUUUAUUUAAGUAUAAUUAAAAGUCGAAAUAGACUUGCGCGCACAGUUAAAGAACUUUUCUGUGUGGUUUCGUAAGU
....(((((..(((((.(((....))).)))))..)))))......((((((((((((((..((.....))..)))))))....))))))) ( -23.80, z-score =  -3.09, R)
>droYak2.chrU 205731 73 - 28119190
----------------UCAAAAAAAUAUACGCUAUGGU--GCACACGCUCUUAACCAUGGUUUAACACGUCUUUGUCGAGGAUGAAUAUCU
----------------...........((.((((((((--((....)).....)))))))).))...(((((((...)))))))....... ( -13.90, z-score =  -1.19, R)
>consensus
________________UUAAAAAAAUAUAAUCAAAAGUCGAAAUAGACUUGCACGCACAGUUAAAGAACUUUUCUGCGUGGUUUCGUAAGU
....................................(((......))).....(((((((.............)))))))........... ( -4.20 =  -5.45 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:46:18 2011