Locus 7496

Sequence ID dm3.chr3L
Location 15,164,136 – 15,164,228
Length 92
Max. P 0.526811
window10325 window10326

overview

Window 5

Location 15,164,136 – 15,164,228
Length 92
Sequences 8
Columns 92
Reading direction forward
Mean pairwise identity 62.96
Shannon entropy 0.73312
G+C content 0.52038
Mean single sequence MFE -26.81
Consensus MFE -12.00
Energy contribution -10.61
Covariance contribution -1.39
Combinations/Pair 1.89
Mean z-score -0.51
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.526811
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15164136 92 + 24543557
UUGCUGCGUUGUGAAUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCCGAACAAUGGGCGAUUGCUCCACUAGGAUU
(((((.((((((.....((((..(.(.(((.((((((...))))))...))).)...)..)))).)))))))))))....(((....))).. ( -28.10, z-score =  -0.34, R)
>droSim1.chr3L 14498476 92 + 22553184
UUGCUGCGAAGUGAGUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCAGAACAAUGGGCGUUUGCCCCACUAAGAUU
.........((((..((((((.((((.(((.((((((...))))))...)))..)))).)))))).....((((....))))))))...... ( -29.90, z-score =  -0.98, R)
>droSec1.super_0 7276794 92 + 21120651
UUGCUGCAAAGUGAAUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUUGAUAAGUCCCGAACAAUGGGCGUUUGCCCCACUAAGAUU
.........((((....((((..(.(((((.((((((...))))))...)))))...)..))))......((((....))))))))...... ( -26.80, z-score =  -0.28, R)
>droYak2.chr3L 17671566 91 + 24197627
UUGCUGCGAAGUGAAUCCGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCCGAACAAUGGG-GGCUGCCGCACCAAGAUU
((((..(((..((....))...)))..))))((((((...))))))..((((((...((((((........))-)))).))))))....... ( -35.60, z-score =  -2.08, R)
>droEre2.scaffold_4784 17425998 91 + 25762168
UUGCUGCGAAGGGAAUCUGGGGUUGUGGCAGGACCGAAGUCUGGUCAAGUGUGCAUAAGUCCCGAACAAUGGG-GGUUGCCACACUAAGAUU
((((..(((.((....))....)))..))))(((((.....))))).((((((..(((.(((((.....))))-).))).))))))...... ( -28.80, z-score =  -0.69, R)
>droAna3.scaffold_13337 5468248 79 - 23293914
------------UUACCAGGGGACUUAAUAAGACUAGGACGUGGUCAAGUGUGGAUAAGACUCGAACAGUGAG-AAGGACUGUCUUGGGACU
------------...((((....).......(((((.....))))).....)))......((((((((((...-....))))).)))))... ( -16.70, z-score =   0.51, R)
>dp4.chrXR_group6 12741728 79 - 13314419
-----------UUGCUGGAAGGGAGGGGCCCAAGUAGCAAAUG-UCAAAUGUGGCCACGAUGUGAA-AUUGUGGGCAGUUCUCCCCAGGACU
-----------((((((...(((.....)))...))))))...-.......((.(((((((.....-))))))).))(((((....))))). ( -24.30, z-score =  -0.13, R)
>droPer1.super_12 1159853 79 - 2414086
-----------UUGCUGGAAGGGAGGGGCCCAAGUAGCAAAUG-UCAAAUGUGGCCACGAUGUGAA-AUUGUGGGCAGUUCUCCCCAGGACU
-----------((((((...(((.....)))...))))))...-.......((.(((((((.....-))))))).))(((((....))))). ( -24.30, z-score =  -0.13, R)
>consensus
UUGCUGCGAAGUGAAUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCCGAACAAUGGG_GAUUGCCCCACUAAGAUU
....................(((.((((((.(((((.....)))))..............((((.....))))....)))))))))...... (-12.00 = -10.61 +  -1.39)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,164,136 – 15,164,228
Length 92
Sequences 8
Columns 92
Reading direction forward
Mean pairwise identity 62.96
Shannon entropy 0.73312
G+C content 0.52038
Mean single sequence MFE -26.81
Consensus MFE -12.00
Energy contribution -10.61
Covariance contribution -1.39
Combinations/Pair 1.89
Mean z-score -0.51
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.526811
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15164136 92 + 24543557
UUGCUGCGUUGUGAAUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCCGAACAAUGGGCGAUUGCUCCACUAGGAUU
(((((.((((((.....((((..(.(.(((.((((((...))))))...))).)...)..)))).)))))))))))....(((....))).. ( -28.10, z-score =  -0.34, R)
>droSim1.chr3L 14498476 92 + 22553184
UUGCUGCGAAGUGAGUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCAGAACAAUGGGCGUUUGCCCCACUAAGAUU
.........((((..((((((.((((.(((.((((((...))))))...)))..)))).)))))).....((((....))))))))...... ( -29.90, z-score =  -0.98, R)
>droSec1.super_0 7276794 92 + 21120651
UUGCUGCAAAGUGAAUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUUGAUAAGUCCCGAACAAUGGGCGUUUGCCCCACUAAGAUU
.........((((....((((..(.(((((.((((((...))))))...)))))...)..))))......((((....))))))))...... ( -26.80, z-score =  -0.28, R)
>droYak2.chr3L 17671566 91 + 24197627
UUGCUGCGAAGUGAAUCCGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCCGAACAAUGGG-GGCUGCCGCACCAAGAUU
((((..(((..((....))...)))..))))((((((...))))))..((((((...((((((........))-)))).))))))....... ( -35.60, z-score =  -2.08, R)
>droEre2.scaffold_4784 17425998 91 + 25762168
UUGCUGCGAAGGGAAUCUGGGGUUGUGGCAGGACCGAAGUCUGGUCAAGUGUGCAUAAGUCCCGAACAAUGGG-GGUUGCCACACUAAGAUU
((((..(((.((....))....)))..))))(((((.....))))).((((((..(((.(((((.....))))-).))).))))))...... ( -28.80, z-score =  -0.69, R)
>droAna3.scaffold_13337 5468248 79 - 23293914
------------UUACCAGGGGACUUAAUAAGACUAGGACGUGGUCAAGUGUGGAUAAGACUCGAACAGUGAG-AAGGACUGUCUUGGGACU
------------...((((....).......(((((.....))))).....)))......((((((((((...-....))))).)))))... ( -16.70, z-score =   0.51, R)
>dp4.chrXR_group6 12741728 79 - 13314419
-----------UUGCUGGAAGGGAGGGGCCCAAGUAGCAAAUG-UCAAAUGUGGCCACGAUGUGAA-AUUGUGGGCAGUUCUCCCCAGGACU
-----------((((((...(((.....)))...))))))...-.......((.(((((((.....-))))))).))(((((....))))). ( -24.30, z-score =  -0.13, R)
>droPer1.super_12 1159853 79 - 2414086
-----------UUGCUGGAAGGGAGGGGCCCAAGUAGCAAAUG-UCAAAUGUGGCCACGAUGUGAA-AUUGUGGGCAGUUCUCCCCAGGACU
-----------((((((...(((.....)))...))))))...-.......((.(((((((.....-))))))).))(((((....))))). ( -24.30, z-score =  -0.13, R)
>consensus
UUGCUGCGAAGUGAAUCUGGGGUUGUGGCAGGACCGGAAUCUGGUCAAGUGUGGAUAAGUCCCGAACAAUGGG_GAUUGCCCCACUAAGAUU
....................(((.((((((.(((((.....)))))..............((((.....))))....)))))))))...... (-12.00 = -10.61 +  -1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:28:04 2011