Locus 8632

Sequence ID dm3.chr3RHet
Location 2,297,207 – 2,297,285
Length 78
Max. P 0.998868
window11850 window11851

overview

Window 0

Location 2,297,207 – 2,297,285
Length 78
Sequences 4
Columns 78
Reading direction forward
Mean pairwise identity 70.37
Shannon entropy 0.48438
G+C content 0.37495
Mean single sequence MFE -17.62
Consensus MFE -14.05
Energy contribution -13.93
Covariance contribution -0.13
Combinations/Pair 1.17
Mean z-score -2.37
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.12
SVM RNA-class probability 0.997540
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 2297207 78 + 2517507
UCUUGAAAUUAUAUUCUUUAUUAUUUCAACGAUUCCUAGGAGCAGGGAAGGUCCCGCUCCAUUCAAGAUCAACUCGUA
(((((((((.(((.....))).))))))).))......(((((.(((.....)))))))).................. ( -20.00, z-score =  -2.62, R)
>droEre2.scaffold_4845 22507504 69 - 22589142
-----UAUUUAGUCUGUUCA---GUUUCUUUAUUUAU-GGAGCAGGGAAGGUCCCGAUCCGUUCAAAGUAAAUUUGUC
-----..............(---((((((((....((-(((...(((.....)))..)))))..)))).))))).... ( -13.30, z-score =  -1.28, R)
>droSec1.super_123 70417 75 + 76498
UUUUUAGUUUAUAUUCACUU---UUUAUUUGAUUUGUAGGAGCAGGGAAGGUCCCGCUCCAUUCGAAGUUAAUUCGUC
....................---...............(((((.(((.....))))))))...((((.....)))).. ( -16.70, z-score =  -2.06, R)
>droSim1.chrU 10701465 74 - 15797150
UUUUCAGUUUGAAUUCACU----UUUUAUUUAUUUGUAGGAGCAGGGAAGGUCCCGCUCCAUUCGAAGUUAAUUCGUC
..........(((((.(((----((.(((......)))(((((.(((.....))))))))....))))).)))))... ( -20.50, z-score =  -3.54, R)
>consensus
UUUU_AAUUUAUAUUCACUA___UUUUAUUGAUUUGUAGGAGCAGGGAAGGUCCCGCUCCAUUCAAAGUUAAUUCGUC
......................................(((((.(((.....))))))))...((((.....)))).. (-14.05 = -13.93 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 2,297,207 – 2,297,285
Length 78
Sequences 4
Columns 78
Reading direction reverse
Mean pairwise identity 70.37
Shannon entropy 0.48438
G+C content 0.37495
Mean single sequence MFE -17.33
Consensus MFE -15.89
Energy contribution -15.32
Covariance contribution -0.56
Combinations/Pair 1.25
Mean z-score -3.23
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.53
SVM RNA-class probability 0.998868
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 2297207 78 - 2517507
UACGAGUUGAUCUUGAAUGGAGCGGGACCUUCCCUGCUCCUAGGAAUCGUUGAAAUAAUAAAGAAUAUAAUUUCAAGA
.((((.....(((((...((((((((......))))))))))))).))))((((((.(((.....))).))))))... ( -22.30, z-score =  -2.86, R)
>droEre2.scaffold_4845 22507504 69 + 22589142
GACAAAUUUACUUUGAACGGAUCGGGACCUUCCCUGCUCC-AUAAAUAAAGAAAC---UGAACAGACUAAAUA-----
.....(((((.((((...(((.((((......)))).)))-........((...)---)...)))).))))).----- ( -10.40, z-score =  -1.57, R)
>droSec1.super_123 70417 75 - 76498
GACGAAUUAACUUCGAAUGGAGCGGGACCUUCCCUGCUCCUACAAAUCAAAUAAA---AAGUGAAUAUAAACUAAAAA
..((((.....))))...((((((((......))))))))...............---.(((........)))..... ( -17.90, z-score =  -4.24, R)
>droSim1.chrU 10701465 74 + 15797150
GACGAAUUAACUUCGAAUGGAGCGGGACCUUCCCUGCUCCUACAAAUAAAUAAAA----AGUGAAUUCAAACUGAAAA
...(((((.((((.....((((((((......))))))))..............)----))).))))).......... ( -18.71, z-score =  -4.25, R)
>consensus
GACGAAUUAACUUCGAAUGGAGCGGGACCUUCCCUGCUCCUACAAAUAAAUAAAA___UAAAGAAUAUAAACU_AAAA
..((((.....))))...((((((((......))))))))...................................... (-15.89 = -15.32 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:49:11 2011