Locus 6052

Sequence ID dm3.chr3L
Location 3,327,709 – 3,327,824
Length 115
Max. P 0.995083
window8332 window8333

overview

Window 2

Location 3,327,709 – 3,327,824
Length 115
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 94.78
Shannon entropy 0.07187
G+C content 0.35072
Mean single sequence MFE -27.03
Consensus MFE -24.30
Energy contribution -25.30
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.38
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.76
SVM RNA-class probability 0.995083
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3327709 115 + 24543557
UGGGUCGAUUUUGAUACAGAAUAUAGUGUUUCAUACCCCGAUUGAAGAUAAGGCUAUAAAUAUCUAUAUCUCUUGAUCAAAACAUCGACCCAAGCCUUCACAGCCACUAGUAAUU
(((((((((((((((..((((((((((((((.(((.((..(((...)))..)).)))))))).)))))).)))..))))))..)))))))))....................... ( -28.90, z-score =  -3.42, R)
>droSec1.super_2 3319356 115 + 7591821
UGGGUCGAUUUUGAUACUGAAUAUAGUGUUCCAUACCCCGAUUGAAUAUAAGGCUAUAAAUAUCUAUAUUUCUUGAUCAAAACAUCGACCCAAGCCUUCACACCUACUAGUAAUU
(((((((((((((((...((((((((((((..(((.((..((.....))..)).))).)))).))))))))....))))))..)))))))))....................... ( -27.70, z-score =  -3.57, R)
>droSim1.chr3L 2862867 115 + 22553184
UGGGUCGAUUUUGAUACAGAAUAUAGUGUUUCAUACACCGAUUAAAUAUAAGGCUAUAAAUAUCUACAUUUCUUGAUCAAAACAUCGACCCAAGCCUUCACACCCACUAGUAAUU
(((((((((((((((..((((..((((((((.(((..((............)).)))))))).)))...))))..))))))..)))))))))....................... ( -24.50, z-score =  -3.13, R)
>consensus
UGGGUCGAUUUUGAUACAGAAUAUAGUGUUUCAUACCCCGAUUGAAUAUAAGGCUAUAAAUAUCUAUAUUUCUUGAUCAAAACAUCGACCCAAGCCUUCACACCCACUAGUAAUU
(((((((((((((((...(((((((((((((.(((.((..((.....))..)).)))))))).)))))).))...))))))..)))))))))....................... (-24.30 = -25.30 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 3,327,709 – 3,327,824
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 94.78
Shannon entropy 0.07187
G+C content 0.35072
Mean single sequence MFE -31.90
Consensus MFE -30.43
Energy contribution -30.43
Covariance contribution 0.01
Combinations/Pair 1.08
Mean z-score -2.71
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.43
SVM RNA-class probability 0.990618
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3327709 115 - 24543557
AAUUACUAGUGGCUGUGAAGGCUUGGGUCGAUGUUUUGAUCAAGAGAUAUAGAUAUUUAUAGCCUUAUCUUCAAUCGGGGUAUGAAACACUAUAUUCUGUAUCAAAAUCGACCCA
..........((((.....))))(((((((((..((((((..((((.(((((...((((((.(((.((.....)).))).))))))...)))))))))..))))))))))))))) ( -34.50, z-score =  -3.21, R)
>droSec1.super_2 3319356 115 - 7591821
AAUUACUAGUAGGUGUGAAGGCUUGGGUCGAUGUUUUGAUCAAGAAAUAUAGAUAUUUAUAGCCUUAUAUUCAAUCGGGGUAUGGAACACUAUAUUCAGUAUCAAAAUCGACCCA
..((((........)))).....(((((((((..((((((...(((.(((((...((((((.(((.((.....)).))).))))))...))))))))...))))))))))))))) ( -30.90, z-score =  -2.52, R)
>droSim1.chr3L 2862867 115 - 22553184
AAUUACUAGUGGGUGUGAAGGCUUGGGUCGAUGUUUUGAUCAAGAAAUGUAGAUAUUUAUAGCCUUAUAUUUAAUCGGUGUAUGAAACACUAUAUUCUGUAUCAAAAUCGACCCA
..((((........)))).....(((((((((..((((((..((((.(((((...(((((((((............))).))))))...)))))))))..))))))))))))))) ( -30.30, z-score =  -2.40, R)
>consensus
AAUUACUAGUGGGUGUGAAGGCUUGGGUCGAUGUUUUGAUCAAGAAAUAUAGAUAUUUAUAGCCUUAUAUUCAAUCGGGGUAUGAAACACUAUAUUCUGUAUCAAAAUCGACCCA
..((((........)))).....(((((((((..((((((..((((.(((((...((((((.(((.((.....)).))).))))))...)))))))))..))))))))))))))) (-30.43 = -30.43 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:00:26 2011