Locus 8402

Sequence ID dm3.chr3L
Location 22,489,141 – 22,489,242
Length 101
Max. P 0.693135
window11543 window11544

overview

Window 3

Location 22,489,141 – 22,489,242
Length 101
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 53.92
Shannon entropy 0.74604
G+C content 0.51449
Mean single sequence MFE -35.90
Consensus MFE -8.09
Energy contribution -8.15
Covariance contribution 0.06
Combinations/Pair 1.74
Mean z-score -1.97
Structure conservation index 0.23
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.693135
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22489141 101 + 24543557
GCUGAGCCCUUUAAC-UGGCCGGGAAGCAGGGAUCUUAGGGGUAAAUGCCAC-ACUGUGGUGGAGUGGCGGACUGCAAGUGCUAAUCCUAAGAUCCCAAG-ACA-----
(((...(((......-.....))).))).((((((((((((((...((((((-.((.....)).)))))).)))((....))....)))))))))))...-...----- ( -41.30, z-score =  -2.42, R)
>droSec1.super_11 2425062 101 + 2888827
GUUGGGCCCUUAAAC-UGGCCGGGAAGCAGGGGUCUUAGGGGUAUCUGCCAC-ACUGUGGUGGAGUGGCGGCCUGCAAGUGCUAAUCUGAAUAUCCCAAG-ACA-----
(((.((((.......-.))))((((..((((((((((..(((...(((((((-.((.....)).))))))))))..))).)))..))))....))))..)-)).----- ( -35.00, z-score =   0.39, R)
>droEre2.scaffold_4784 22158349 102 + 25762168
GUUG-GCCAUUAAAC-UGGCCGGGA-GCAGGCGUCUUAGGGCUCGCUACUGCCAUUGCAGUAGCGCCAGUAUCCCAAGACACUUAACC-AGUUUUUAAGG-UCAAAA--
...(-((((......-)))))((((-((.((((((....)))..((((((((....))))))))))).)).))))..(((.(((((..-.....))))))-))....-- ( -43.00, z-score =  -4.30, R)
>droGri2.scaffold_15110 14919366 107 + 24565398
GCAAAGCACUUGAAUAUGAUCAAGAGGCAGGGACGU--GGACUGCACACAAUAAGUACAGCUAAAUGGGUAGUUGAUCGUAUUUGGGAUGGUAGGGGAAUCACAAUAUC
........((..(((((((((((...((.......(--((.(((.((.......)).)))))).....))..)))))))))))..))..((((..(......)..)))) ( -24.30, z-score =  -1.57, R)
>consensus
GCUGAGCCCUUAAAC_UGGCCGGGAAGCAGGGAUCUUAGGGCUAAAUACCAC_ACUGCAGUGGAGUGGCGAACUGAAAGUACUAAUCCUAAUAUCCCAAG_ACA_____
(((...(((............))).))).((.(((...((.((.((((((((....))))))))...))...))...))).)).......................... ( -8.09 =  -8.15 +   0.06)

alignment

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secondary structure

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dotplot

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Window 4

Location 22,489,141 – 22,489,242
Length 101
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 53.92
Shannon entropy 0.74604
G+C content 0.51449
Mean single sequence MFE -31.65
Consensus MFE -5.41
Energy contribution -5.97
Covariance contribution 0.56
Combinations/Pair 1.62
Mean z-score -2.20
Structure conservation index 0.17
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.530326
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22489141 101 - 24543557
-----UGU-CUUGGGAUCUUAGGAUUAGCACUUGCAGUCCGCCACUCCACCACAGU-GUGGCAUUUACCCCUAAGAUCCCUGCUUCCCGGCCA-GUUAAAGGGCUCAGC
-----...-...(((((((((((....((....)).....(((((...........-))))).......))))))))))).(((....((((.-.......)))).))) ( -35.50, z-score =  -2.30, R)
>droSec1.super_11 2425062 101 - 2888827
-----UGU-CUUGGGAUAUUCAGAUUAGCACUUGCAGGCCGCCACUCCACCACAGU-GUGGCAGAUACCCCUAAGACCCCUGCUUCCCGGCCA-GUUUAAGGGCCCAAC
-----.((-((((((....((......((....))..(((((.(((.......)))-))))).))....))))))))...........((((.-.......)))).... ( -29.70, z-score =  -0.51, R)
>droEre2.scaffold_4784 22158349 102 - 25762168
--UUUUGA-CCUUAAAAACU-GGUUAAGUGUCUUGGGAUACUGGCGCUACUGCAAUGGCAGUAGCGAGCCCUAAGACGCCUGC-UCCCGGCCA-GUUUAAUGGC-CAAC
--..((((-((.........-))))))((((((((((.......(((((((((....)))))))))...))))))))))....-....(((((-......))))-)... ( -44.90, z-score =  -4.88, R)
>droGri2.scaffold_15110 14919366 107 - 24565398
GAUAUUGUGAUUCCCCUACCAUCCCAAAUACGAUCAACUACCCAUUUAGCUGUACUUAUUGUGUGCAGUCC--ACGUCCCUGCCUCUUGAUCAUAUUCAAGUGCUUUGC
......(((...........(((........)))..............(((((((.......))))))).)--))......((..(((((......))))).))..... ( -16.50, z-score =  -1.09, R)
>consensus
_____UGU_CUUGGGAUACUAGGAUAAGCACUUGCAGACACCCACUCCACCACAGU_GUGGCAGAUACCCCUAAGACCCCUGCUUCCCGGCCA_GUUUAAGGGCUCAAC
.................................................((((....))))......(((((.((((....(((....)))...)))).)))))..... ( -5.41 =  -5.97 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:45:00 2011