Locus 6934

Sequence ID dm3.chr3L
Location 10,891,817 – 10,891,944
Length 127
Max. P 0.952962
window9543 window9544

overview

Window 3

Location 10,891,817 – 10,891,909
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 87.53
Shannon entropy 0.20676
G+C content 0.41464
Mean single sequence MFE -19.54
Consensus MFE -16.46
Energy contribution -16.06
Covariance contribution -0.40
Combinations/Pair 1.13
Mean z-score -1.74
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.827581
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10891817 92 - 24543557
GUUAAACGGCAACAAAAGCAAAUAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUUGAGGACAAAGAACGAGUGAGAACGAUUGUGAGA
(((..(((....)............((..(((((((((((......))))))).))))..))............))...))).......... ( -20.90, z-score =  -1.83, R)
>droSim1.chr3L 10285870 88 - 22553184
GUGAAACGGCAACAAAAGCAAAUAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUUGAGGACAAAGAACGAGUGAGAAC----GUGAGA
......((((.......))......((..(((((((((((......))))))).))))..)).........))........(----....). ( -19.90, z-score =  -1.71, R)
>droSec1.super_0 3111016 88 - 21120651
GUGAAACGGCAACAAAAUCAAAUAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUUGAGGACAAAGAACGAGUGAGAAC----GUGAGA
((...(((....)............((..(((((((((((......))))))).))))..))............))....))----...... ( -19.60, z-score =  -1.55, R)
>droYak2.chr3L 10910596 82 - 24197627
GUGAAACUGCAACAAAAGCAAACAACUUAAGCUGGGAUCUAAAAUCGGAUCUCAAGUUUGGGGACAAAGAACGAGUGUGAGA----------
.......(((.......))).....((((.((((((((((......)))))))...((((....)))).....))).)))).---------- ( -18.80, z-score =  -1.71, R)
>droEre2.scaffold_4784 10894230 82 - 25762168
GUGAAACGGCAAAAAAAGCUAAAAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUUGGGGACAAAGAACGGGUGUGAGA----------
.......(((.......)))....(((((...((((((((......))))))))..((((....))))...)))))......---------- ( -18.50, z-score =  -1.91, R)
>consensus
GUGAAACGGCAACAAAAGCAAAUAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUUGAGGACAAAGAACGAGUGAGAAC____GUGAGA
.........................(((((((((((((((......))))))).)))))))).............................. (-16.46 = -16.06 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 10,891,842 – 10,891,944
Length 102
Sequences 7
Columns 109
Reading direction reverse
Mean pairwise identity 69.25
Shannon entropy 0.61076
G+C content 0.43747
Mean single sequence MFE -25.90
Consensus MFE -7.90
Energy contribution -9.07
Covariance contribution 1.17
Combinations/Pair 1.44
Mean z-score -2.55
Structure conservation index 0.31
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.59
SVM RNA-class probability 0.952962
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10891842 102 - 24543557
GCUGGGAUAACGGCGAAAAAGGAGAAAGAGGAGCUGUUAAACGGCAACAAAAGCAAAUAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUU-------GAGGACAA
((((...(((((((..................)))))))..))))...............((..(((((((((((......))))))).)))).-------.))..... ( -29.87, z-score =  -4.34, R)
>droSim1.chr3L 10285891 102 - 22553184
GCUGGGAUAACGGCGAAAAAGGCGAAAGAGGAGCUGUGAAACGGCAACAAAAGCAAAUAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUU-------GAGGACAA
((((.....(((((........(....)....)))))....))))...............((..(((((((((((......))))))).)))).-------.))..... ( -30.20, z-score =  -3.96, R)
>droSec1.super_0 3111037 102 - 21120651
GCUGGGAUAACGGCGAAAAAGGCGAAAGAGGAGCUGUGAAACGGCAACAAAAUCAAAUAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUU-------GAGGACAA
((((.....(((((........(....)....)))))....))))...............((..(((((((((((......))))))).)))).-------.))..... ( -30.20, z-score =  -4.08, R)
>droYak2.chr3L 10910611 102 - 24197627
GCUUGGAUAACGGCGAAAAAGGCGAUAGAGGAGCUGUGAAACUGCAACAAAAGCAAACAACUUAAGCUGGGAUCUAAAAUCGGAUCUCAAGUUU-------GGGGACAA
((((...((.((.(......).)).))...))))(((.....(((.......))).....(((((((((((((((......))))))).)))))-------))).))). ( -25.70, z-score =  -2.29, R)
>droEre2.scaffold_4784 10894245 102 - 25762168
GCUUGGAUAACGGCGAAAAAGGCGAUAGCGGAGCUGUGAAACGGCAAAAAAAGCUAAAAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUU-------GGGGACAA
((((.(.((.((.(......).)).)).).))))(((.....(((.......))).....((..(((((((((((......))))))).)))).-------.)).))). ( -28.50, z-score =  -2.88, R)
>droAna3.scaffold_13337 15801334 92 - 23293914
-------AAAAAACGUGAGAUAAGGAGGAGAAACUGUGAAACUGU----------GAAAACUUGAGCUGAGACCGAAAAUCGGAUCUCGGUUUUGGGUUUCGAGGACAA
-------......(....)..............((.(((((((((----------....))..((((((((((((.....))).)))))))))..))))))).)).... ( -25.00, z-score =  -2.36, R)
>droMoj3.scaffold_6680 3475897 97 + 24764193
----GCUCAAAUUUAACAAAUUGCGAAAAGUUUCCG-GCUAGGCUUGCAAUCGAACAACACAGCAACUGCGAUU---AUCCAAACAUCAGCUGAAAG----CAGGACAA
----((................)).....((((.((-(((..((((((..............))))..))(((.---........)))))))).)))----)....... ( -11.83, z-score =   2.04, R)
>consensus
GCUGGGAUAACGGCGAAAAAGGCGAAAGAGGAGCUGUGAAACGGCAACAAAAGCAAAAAACUUGAGCUGGGAUCUAAAAUCGGAUCUCAAGUUU_______GAGGACAA
................................((((.....))))..................((((((((((((......)))))))).))))............... ( -7.90 =  -9.07 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:17:17 2011