Locus 6193

Sequence ID dm3.chr3L
Location 4,545,657 – 4,545,777
Length 120
Max. P 0.830688
window8510 window8511

overview

Window 0

Location 4,545,657 – 4,545,777
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.66
Shannon entropy 0.11143
G+C content 0.45472
Mean single sequence MFE -30.02
Consensus MFE -27.30
Energy contribution -27.74
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -1.68
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.83
SVM RNA-class probability 0.830688
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 4545657 120 + 24543557
AUAUGAUCCCCUCCAUCGGGGGUUAUGAGUAAUGCCCUGCACUUUAUGUGCAAAACAGGAAACUUCGCCAUCCGUGUCCUGAAUAACGAAUACAUGCAACUAUGUACUUUCUACAACCGC
.((((((((((......)))))))))).(((......(((((.....)))))...(((((.((..........)).)))))......(((((((((....))))))..))))))...... ( -31.40, z-score =  -2.34, R)
>droSim1.chr3L 4077259 120 + 22553184
AUAUGAUCCCCUUCAUCGGGGGUUAUGAGUAAUGCCCUGCACUUUAUGUGCAAAACAGGAAACUUCGCCAUCCGUGUCCUGAAUGACGAAUACAUGCAACGAUGUACUUUCUACAACCGC
.((((((((((......)))))))))).(((......(((((.....)))))...(((((.((..........)).)))))......((((((((......)))))..))))))...... ( -31.10, z-score =  -1.66, R)
>droSec1.super_2 4528276 120 + 7591821
AUAUGAUCUCCUGCAUCGGGGGUUAUGAGUAAUGCCCUGCACUUUAUGUGCAAAACAGGAAACUUCGCCAUCCGUGUCCUGAAUAACGAAUACAUGCAACUAUGUACUUUCUACCACCGC
.((((((((((......))))))))))..........(((((.....)))))...(((((.((..........)).)))))......(((((((((....))))))..)))......... ( -27.60, z-score =  -0.81, R)
>droYak2.chr3L 5118456 118 + 24197627
ACAUGAUCCC--UCCUUGGGGGUUAUGAGUAAUGCCCUGCACUUUAUGUGCAAAACAGGAAACUUCGACAUCCCUGUCCUGAAUAACGAAUACAUGCAACUAUGUUCUUUCUACGACCGC
.(((((((((--(....)))))))))).(((......(((((.....)))))...(((((......(....)....)))))......(((.(((((....)))))...))))))...... ( -28.50, z-score =  -1.75, R)
>droEre2.scaffold_4784 7254193 118 + 25762168
ACAUGAUCCC--UCCUUGGGGGUUAUGAGUAAUGCCCUGCACUUUAUGUGCAAAACAGGAAACUUCGCCAUCCGUGUCCUGAAUAGCGAAUACAUGCAACUAUGUACUUUCCACAACCGC
.(((((((((--(....))))))))))..........(((((.....))))).....(((((.(((((.((.((.....)).)).)))))((((((....)))))).)))))........ ( -31.50, z-score =  -1.85, R)
>consensus
AUAUGAUCCCCUUCAUCGGGGGUUAUGAGUAAUGCCCUGCACUUUAUGUGCAAAACAGGAAACUUCGCCAUCCGUGUCCUGAAUAACGAAUACAUGCAACUAUGUACUUUCUACAACCGC
.((((((((((......)))))))))).((.......(((((.....)))))...(((((.((..........)).)))))....))(((((((((....))))))..)))......... (-27.30 = -27.74 +   0.44)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 4,545,657 – 4,545,777
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.66
Shannon entropy 0.11143
G+C content 0.45472
Mean single sequence MFE -35.00
Consensus MFE -31.12
Energy contribution -31.84
Covariance contribution 0.72
Combinations/Pair 1.05
Mean z-score -1.51
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.651012
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 4545657 120 - 24543557
GCGGUUGUAGAAAGUACAUAGUUGCAUGUAUUCGUUAUUCAGGACACGGAUGGCGAAGUUUCCUGUUUUGCACAUAAAGUGCAGGGCAUUACUCAUAACCCCCGAUGGAGGGGAUCAUAU
..((((((.((((.(((((......)))))((((((((((.......)))))))))).)))).((((((((((.....))))))))))......))))))(((......)))........ ( -35.70, z-score =  -1.69, R)
>droSim1.chr3L 4077259 120 - 22553184
GCGGUUGUAGAAAGUACAUCGUUGCAUGUAUUCGUCAUUCAGGACACGGAUGGCGAAGUUUCCUGUUUUGCACAUAAAGUGCAGGGCAUUACUCAUAACCCCCGAUGAAGGGGAUCAUAU
..((((((.((((.(((((......)))))((((((((((.......)))))))))).)))).((((((((((.....))))))))))......))))))(((......)))........ ( -37.60, z-score =  -2.15, R)
>droSec1.super_2 4528276 120 - 7591821
GCGGUGGUAGAAAGUACAUAGUUGCAUGUAUUCGUUAUUCAGGACACGGAUGGCGAAGUUUCCUGUUUUGCACAUAAAGUGCAGGGCAUUACUCAUAACCCCCGAUGCAGGAGAUCAUAU
((..(.(((.....)))...)..)).....((((((((((.......))))))))))(((((((((..(((((.....)))))(((..(((....)))..)))...)))))))))..... ( -34.00, z-score =  -1.33, R)
>droYak2.chr3L 5118456 118 - 24197627
GCGGUCGUAGAAAGAACAUAGUUGCAUGUAUUCGUUAUUCAGGACAGGGAUGUCGAAGUUUCCUGUUUUGCACAUAAAGUGCAGGGCAUUACUCAUAACCCCCAAGGA--GGGAUCAUGU
..(((((((((((..((((......)))).((((.(((((.......))))).)))).)))).((((((((((.....)))))))))).)))......((((...)).--)))))).... ( -27.10, z-score =   0.36, R)
>droEre2.scaffold_4784 7254193 118 - 25762168
GCGGUUGUGGAAAGUACAUAGUUGCAUGUAUUCGCUAUUCAGGACACGGAUGGCGAAGUUUCCUGUUUUGCACAUAAAGUGCAGGGCAUUACUCAUAACCCCCAAGGA--GGGAUCAUGU
..(((((((((((.(((((......)))))((((((((((.......)))))))))).)))))((((((((((.....))))))))))......))))))(((.....--)))....... ( -40.60, z-score =  -2.75, R)
>consensus
GCGGUUGUAGAAAGUACAUAGUUGCAUGUAUUCGUUAUUCAGGACACGGAUGGCGAAGUUUCCUGUUUUGCACAUAAAGUGCAGGGCAUUACUCAUAACCCCCGAUGAAGGGGAUCAUAU
..((((((.((((.(((((......)))))((((((((((.......)))))))))).)))).((((((((((.....))))))))))......))))))(((.......)))....... (-31.12 = -31.84 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:02:55 2011