Locus 15814

Sequence ID dm3.chrX
Location 21,264,485 – 21,264,646
Length 161
Max. P 0.660988
window21793 window21794

overview

Window 3

Location 21,264,485 – 21,264,605
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 67.47
Shannon entropy 0.41323
G+C content 0.44263
Mean single sequence MFE -24.53
Consensus MFE -14.40
Energy contribution -15.40
Covariance contribution 1.00
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.660988
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21264485 120 - 22422827
GCUACUGCUUAAUACUGAUUAGAUCAGGCUCGCGACGUAUUAGCACAUAACUGCACCAGAGAACCCACCGACACUGUCCCAGAUCUUGGUGUCUUAUUCGAUCAUAGGAUCUGGAUCAAU
((((.(((......(((((...)))))(....)...))).))))......(((...)))...............((..((((((((((..(((......)))..))))))))))..)).. ( -26.10, z-score =   0.01, R)
>droSec1.super_8 3574147 92 - 3762037
---------------------------GCU-ACUGCUUAAUACUGAUUAUCUGCACUAGAAUCCCCCCGGAUAAAGUCCCAGAUCUUGGUGUCCUAUUCGACCAUAGGAUCUGGAUCAAU
---------------------------.((-(.(((.((((....))))...))).))).((((....))))...(..((((((((((..(((......)))..))))))))))..)... ( -24.50, z-score =  -2.16, R)
>droSim1.chrX 16401806 92 - 17042790
---------------------------GCU-ACUGCUUAAUACUGAUUAUCUGCACUAGAAUCCCUCCGGAUAAUGUCCCAGAUCUUUGUGUCUUAUUCCACCAUAGGAUCUGGAUCAAG
---------------------------.((-(.(((.((((....))))...))).))).((((....))))..((..(((((((((.(((........)))...)))))))))..)).. ( -23.00, z-score =  -2.42, R)
>consensus
___________________________GCU_ACUGCUUAAUACUGAUUAUCUGCACUAGAAUCCCCCCGGAUAAUGUCCCAGAUCUUGGUGUCUUAUUCGACCAUAGGAUCUGGAUCAAU
..........................................................((((((....))))......((((((((((..(((......)))..)))))))))).))... (-14.40 = -15.40 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 21,264,527 – 21,264,646
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 66.87
Shannon entropy 0.42089
G+C content 0.43865
Mean single sequence MFE -28.30
Consensus MFE -16.89
Energy contribution -17.23
Covariance contribution 0.34
Combinations/Pair 1.17
Mean z-score -1.30
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.528729
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21264527 119 + 22422827
GACAGUGUCGGUGGGUUCUCUGGUGCAGUUAUGUGCUAAUACGUCGCGAGCCUGAUCUAAUCAGUAUUAAGCAGUAGCUUCUUGGCUUGGC-AUCAGGAACGAUGGUUAUUGAAGUCGAG
(((....(((((((((((.(((((((.((.(((((....))))).))(((((((((...)))).....((((....))))...))))).))-))))))))).....))))))).)))... ( -33.10, z-score =   0.09, R)
>droSec1.super_8 3574189 92 + 3762037
--------------------------GACUUUAUCCGGGGGGAUUCUAGUGCAGAU--AAUCAGUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAG
--------------------------(((((((.((((((((...(((.(((.(((--(.....))))..))).)))))))))))....((((((......))))))...)))))))... ( -27.80, z-score =  -2.47, R)
>droSim1.chrX 16401848 92 + 17042790
--------------------------GACAUUAUCCGGAGGGAUUCUAGUGCAGAU--AAUCAGUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAG
--------------------------......((((....)))).(((.(((.(((--(.....))))..))).)))...(((((((((((((((......))))))....))))))))) ( -24.00, z-score =  -1.51, R)
>consensus
__________________________GACUUUAUCCGGAGGGAUUCUAGUGCAGAU__AAUCAGUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAG
.................................(((....)))....(((((.(((...))).)))))((((....))))(((((((((((((((......))))))....))))))))) (-16.89 = -17.23 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:06:24 2011