Locus 2711

Sequence ID dm3.chr2L
Location 21,439,210 – 21,439,270
Length 60
Max. P 0.998915
window3718 window3719

overview

Window 8

Location 21,439,210 – 21,439,270
Length 60
Sequences 8
Columns 67
Reading direction forward
Mean pairwise identity 68.50
Shannon entropy 0.65104
G+C content 0.32766
Mean single sequence MFE -9.81
Consensus MFE -8.40
Energy contribution -8.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.07
SVM RNA-class probability 0.997273
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21439210 60 + 23011544
AACCGUCCUUUUCAGGACGACCAAAUUAUUACCAAAGGAUUGAAAAAUUUUUUAGCUUGG-------
...((((((....)))))).((((.(((......(((((((....)))))))))).))))------- ( -12.50, z-score =  -1.94, R)
>droGri2.scaffold_14978 506109 55 + 1124632
AAACGUCCUUUUCAGGACGACCAAAAUAUGU--AAAAGA--GAUUUAAUUUUUCAUUGA--------
...((((((....))))))............--....((--((.......)))).....-------- (  -9.90, z-score =  -1.61, R)
>droWil1.scaffold_184887 3 65 - 1286
AACCGUCCUUUUCAGGACGACCAAAAAUUAA--AAGAAAUUAAUACAGUUUUCCAUCCAUGCAUAUA
...((((((....))))))............--.................................. (  -8.30, z-score =  -1.97, R)
>droPer1.super_0 3281364 54 + 11822988
AAACGUCCUUUUCAGGACGACCAAACUAUGACAAAAGAAUUAAGAGAAUUUUCA-------------
...((((((....))))))...................................------------- (  -8.50, z-score =  -1.31, R)
>dp4.Unknown_singleton_1517 23568 54 + 24252
AAACGUCCUUUUCAGGACGACCAAACUAUGACUAAAGAAUUAAGAGAAUUUUCA-------------
...((((((....))))))...................................------------- (  -8.50, z-score =  -1.21, R)
>droAna3.scaffold_8577 7840 64 - 7985
AAACGUCCUUUUCAGGACGACCACACUUUUUCAAAAGAAUAUA---AAUUUUCAACUACAAGAUUAG
...((((((....)))))).................(((....---....))).............. (  -9.20, z-score =  -2.68, R)
>droYak2.chrU 9058519 64 - 28119190
AACCGUCCUUUUCAGGACGACCAAAUUGUUACCAAAGAUUUGAAAAAUUUUUUAACUACGUUAC---
...((((((....))))))........((((..(((((((.....)))))))))))........--- ( -10.50, z-score =  -1.49, R)
>droSec1.super_91 118176 60 + 125313
AACCGUCCUUUUCAGGACGACCAAAUUAUUACCAAAGAAUUGGAAAAAUUUUACACUUGG-------
...((((((....))))))............((((((((((.....))))))....))))------- ( -11.10, z-score =  -1.65, R)
>consensus
AAACGUCCUUUUCAGGACGACCAAACUAUUACCAAAGAAUUGAAAAAAUUUUCAACU__________
...((((((....))))))................................................ ( -8.40 =  -8.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 21,439,210 – 21,439,270
Length 60
Sequences 8
Columns 67
Reading direction reverse
Mean pairwise identity 68.50
Shannon entropy 0.65104
G+C content 0.32766
Mean single sequence MFE -12.90
Consensus MFE -10.75
Energy contribution -10.75
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.55
SVM RNA-class probability 0.998915
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21439210 60 - 23011544
-------CCAAGCUAAAAAAUUUUUCAAUCCUUUGGUAAUAAUUUGGUCGUCCUGAAAAGGACGGUU
-------....((((((..(((..((((....)))).)))..))))))((((((....))))))... ( -14.90, z-score =  -2.49, R)
>droGri2.scaffold_14978 506109 55 - 1124632
--------UCAAUGAAAAAUUAAAUC--UCUUUU--ACAUAUUUUGGUCGUCCUGAAAAGGACGUUU
--------..................--......--............((((((....))))))... ( -10.40, z-score =  -1.83, R)
>droWil1.scaffold_184887 3 65 + 1286
UAUAUGCAUGGAUGGAAAACUGUAUUAAUUUCUU--UUAAUUUUUGGUCGUCCUGAAAAGGACGGUU
..........(((.((((.....(((((......--))))))))).)))(((((....))))).... ( -13.20, z-score =  -1.56, R)
>droPer1.super_0 3281364 54 - 11822988
-------------UGAAAAUUCUCUUAAUUCUUUUGUCAUAGUUUGGUCGUCCUGAAAAGGACGUUU
-------------...................................((((((....))))))... ( -10.40, z-score =  -1.53, R)
>dp4.Unknown_singleton_1517 23568 54 - 24252
-------------UGAAAAUUCUCUUAAUUCUUUAGUCAUAGUUUGGUCGUCCUGAAAAGGACGUUU
-------------...................................((((((....))))))... ( -10.40, z-score =  -1.47, R)
>droAna3.scaffold_8577 7840 64 + 7985
CUAAUCUUGUAGUUGAAAAUU---UAUAUUCUUUUGAAAAAGUGUGGUCGUCCUGAAAAGGACGUUU
(((..(((.(((..(((....---....)))..)))...)))..))).((((((....))))))... ( -13.00, z-score =  -2.50, R)
>droYak2.chrU 9058519 64 + 28119190
---GUAACGUAGUUAAAAAAUUUUUCAAAUCUUUGGUAACAAUUUGGUCGUCCUGAAAAGGACGGUU
---.....................((((((...((....))))))))(((((((....))))))).. ( -13.00, z-score =  -1.81, R)
>droSec1.super_91 118176 60 - 125313
-------CCAAGUGUAAAAUUUUUCCAAUUCUUUGGUAAUAAUUUGGUCGUCCUGAAAAGGACGGUU
-------((((((.....(((...((((....)))).))).))))))(((((((....))))))).. ( -17.90, z-score =  -3.78, R)
>consensus
__________AGUUGAAAAUUUUUUCAAUUCUUUGGUAAUAAUUUGGUCGUCCUGAAAAGGACGGUU
................................................((((((....))))))... (-10.75 = -10.75 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:56:22 2011