Locus 5607

Sequence ID dm3.chr3LHet
Location 1,996,805 – 1,996,901
Length 96
Max. P 0.964546
window7701 window7702

overview

Window 1

Location 1,996,805 – 1,996,901
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 57.29
Shannon entropy 0.61638
G+C content 0.43019
Mean single sequence MFE -23.70
Consensus MFE -12.95
Energy contribution -12.73
Covariance contribution -0.21
Combinations/Pair 1.39
Mean z-score -1.36
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.74
SVM RNA-class probability 0.964546
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1996805 96 + 2555491
CUUAAUUUCGAUGGGAUCAUUGGCCUCGACUUGCUAGUGCAAGCUGGGGCAUCGCUUUGCCUGGUCUCCGGCCAGCUUAAAUGGGGCACGGAAGUU
...((((((...(((((((...((((((.(((((....))))).))))))...((...)).)))))))(((((..(......).))).)))))))) ( -32.40, z-score =  -0.48, R)
>droPer1.super_109 48952 96 - 183219
ACUACAUUUUAUGAGAUCAUAGGACUUGACCUACUAAAACAAGUAGGGGCAGUAUUAUGUCUUGAUGAAGACACAAUAAAAAUAGGUGCAACUUCG
.........((((....))))(.(((((.((((((......)))))).....((((.((((((....)))))).))))....))))).)....... ( -21.10, z-score =  -2.03, R)
>dp4.Unknown_group_9 5316 76 + 53872
ACUACAUUCGAUGGGAUCAUAUGACUUGACCUACUAAAACAAGUAGGGGCAGUAUUAUGUCUUGAUGAAGGCACAA--------------------
......((((.(((((.((((..(((...((((((......))))))...)))..))))))))).)))).......-------------------- ( -17.60, z-score =  -1.58, R)
>consensus
ACUACAUUCGAUGGGAUCAUAGGACUUGACCUACUAAAACAAGUAGGGGCAGUAUUAUGUCUUGAUGAAGGCACAAU_AAA___GG__C_______
......(((((((....))))))).....((((((......))))))...........(((((....)))))........................ (-12.95 = -12.73 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,996,805 – 1,996,901
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 57.29
Shannon entropy 0.61638
G+C content 0.43019
Mean single sequence MFE -20.37
Consensus MFE -9.02
Energy contribution -9.80
Covariance contribution 0.78
Combinations/Pair 1.27
Mean z-score -1.68
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.936470
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1996805 96 - 2555491
AACUUCCGUGCCCCAUUUAAGCUGGCCGGAGACCAGGCAAAGCGAUGCCCCAGCUUGCACUAGCAAGUCGAGGCCAAUGAUCCCAUCGAAAUUAAG
...(((.(((...((((...(((.((((....)..)))..)))...(((.(.((((((....)))))).).))).))))....))).)))...... ( -24.40, z-score =  -0.59, R)
>droPer1.super_109 48952 96 + 183219
CGAAGUUGCACCUAUUUUUAUUGUGUCUUCAUCAAGACAUAAUACUGCCCCUACUUGUUUUAGUAGGUCAAGUCCUAUGAUCUCAUAAAAUGUAGU
..................(((((((((((....)))))))))))((((.((((((......))))))........((((....))))....)))). ( -21.70, z-score =  -2.83, R)
>dp4.Unknown_group_9 5316 76 - 53872
--------------------UUGUGCCUUCAUCAAGACAUAAUACUGCCCCUACUUGUUUUAGUAGGUCAAGUCAUAUGAUCCCAUCGAAUGUAGU
--------------------...(((.(((.....((((((..(((...((((((......))))))...)))..)))).)).....))).))).. ( -15.00, z-score =  -1.61, R)
>consensus
_______G__CC___UUU_AUUGUGCCUUCAUCAAGACAUAAUACUGCCCCUACUUGUUUUAGUAGGUCAAGUCCUAUGAUCCCAUCGAAUGUAGU
....................(((((((((....))))))))).......((((((......))))))............................. ( -9.02 =  -9.80 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:51:40 2011