Locus 1741

Sequence ID dm3.chr2L
Location 13,461,389 – 13,461,496
Length 107
Max. P 0.970727
window2388 window2389

overview

Window 8

Location 13,461,389 – 13,461,496
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 92.70
Shannon entropy 0.12843
G+C content 0.60607
Mean single sequence MFE -44.02
Consensus MFE -37.02
Energy contribution -38.06
Covariance contribution 1.04
Combinations/Pair 1.03
Mean z-score -1.75
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.658876
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13461389 107 + 23011544
GGAGCGUGAGUCCUUUCGGUUCGAAGGACUCGGUCGUCGGUGCUUGGCCAAGUCAUGGCUCGGCUCCGCAUCCUUACCUGGCCGAGCUUCGUCCUGGCUUUGUUUAC
(((((..(((((((((......)))))))))((....(((.(((((((((.((...((..((....))...))..)).))))))))).))).))..)))))...... ( -43.20, z-score =  -1.88, R)
>droSim1.chr2L 13243713 107 + 22036055
GGAGCGUGAGUCCUUUCGGUUCGAAGGAUUCGGUCGUCGGUGCUUGGCCAAGUCAUGGCUCGGCUCGGCAUCCUUACCUGGCCGAGCUUCGUCCUGGCUUUGUUUAC
.(((((.(((((((((......)))))))))(((((........)))))((((((.(((..((((((((...........))))))))..))).))))))))))).. ( -42.40, z-score =  -1.70, R)
>droSec1.super_16 1607461 107 + 1878335
GGAGCGUGAGUCCUUUCGGUUCGAAGGACUCGGGCGUCGGUGCUUGGCCAAGUCAUGGCUCGGCUUCGCAACCUUACCUGGCCGAGCUUCGUCCUGGCUUUGUUUAC
(..((.((((((((((......)))))))))).))..)...((..(((((.(.(..(((((((((..(........)..)))))))))..).).)))))..)).... ( -46.50, z-score =  -2.47, R)
>droYak2.chr2L 9889251 106 + 22324452
GGAGCGGAAGUCCUUC-GGUUCUCAGGACUCGGGCGUCUCUGCUUGGCCAAGUCAUGGCUCGGCUCCGCAUCCUUACCUGGCCGAGCUUCGUCCUGGCUUUGUUUAC
.(((((((.((((...-((((.....)))).))))...)))))))(((((.(.(..(((((((((..(........)..)))))))))..).).)))))........ ( -40.20, z-score =  -1.11, R)
>droEre2.scaffold_4929 14653840 106 - 26641161
GGAGCGGGAGUCCUUU-GGCUCGAAGGACUCGGUCGUCGGUGCUGGGCCAAGUCACGGCUCGGCUCCGCAUCCCUACCUGGCGGAGCUUCGUCCUGGCUUUGUUUAC
((((.(((((((((((-(...))))))))))....(.(((.((((((((.......)))))))).))))..)))).)).(((((((((.......)))))))))... ( -47.80, z-score =  -1.61, R)
>consensus
GGAGCGUGAGUCCUUUCGGUUCGAAGGACUCGGUCGUCGGUGCUUGGCCAAGUCAUGGCUCGGCUCCGCAUCCUUACCUGGCCGAGCUUCGUCCUGGCUUUGUUUAC
(((((..(((((((((......)))))))))((.((.....(((((((((.((...((..((....))...))..)).)))))))))..)).))..)))))...... (-37.02 = -38.06 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 13,461,389 – 13,461,496
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 92.70
Shannon entropy 0.12843
G+C content 0.60607
Mean single sequence MFE -38.74
Consensus MFE -35.04
Energy contribution -35.68
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -2.35
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.84
SVM RNA-class probability 0.970727
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13461389 107 - 23011544
GUAAACAAAGCCAGGACGAAGCUCGGCCAGGUAAGGAUGCGGAGCCGAGCCAUGACUUGGCCAAGCACCGACGACCGAGUCCUUCGAACCGAAAGGACUCACGCUCC
.............(((((..(((.((((((((..((...((....))..))...)))))))).)))..........((((((((((...)).)))))))).)).))) ( -40.70, z-score =  -3.05, R)
>droSim1.chr2L 13243713 107 - 22036055
GUAAACAAAGCCAGGACGAAGCUCGGCCAGGUAAGGAUGCCGAGCCGAGCCAUGACUUGGCCAAGCACCGACGACCGAAUCCUUCGAACCGAAAGGACUCACGCUCC
.........((((((.((..(((((((..((((....))))..)))))))..)).))))))..(((..(((.(........).)))..((....))......))).. ( -37.80, z-score =  -3.03, R)
>droSec1.super_16 1607461 107 - 1878335
GUAAACAAAGCCAGGACGAAGCUCGGCCAGGUAAGGUUGCGAAGCCGAGCCAUGACUUGGCCAAGCACCGACGCCCGAGUCCUUCGAACCGAAAGGACUCACGCUCC
........(((..((.((..(((.((((((((..((((.((....))))))...)))))))).)))..))...)).((((((((((...)).))))))))..))).. ( -41.40, z-score =  -3.16, R)
>droYak2.chr2L 9889251 106 - 22324452
GUAAACAAAGCCAGGACGAAGCUCGGCCAGGUAAGGAUGCGGAGCCGAGCCAUGACUUGGCCAAGCAGAGACGCCCGAGUCCUGAGAACC-GAAGGACUUCCGCUCC
.........((((((.((..((((((((..(((....))).).)))))))..)).))))))......(((.((...(((((((.......-..))))))).))))). ( -37.60, z-score =  -1.86, R)
>droEre2.scaffold_4929 14653840 106 + 26641161
GUAAACAAAGCCAGGACGAAGCUCCGCCAGGUAGGGAUGCGGAGCCGAGCCGUGACUUGGCCCAGCACCGACGACCGAGUCCUUCGAGCC-AAAGGACUCCCGCUCC
........(((..((.((......)))).(((..((.(((((.((((((......)))))))).)))))....)))((((((((......-.))))))))..))).. ( -36.20, z-score =  -0.67, R)
>consensus
GUAAACAAAGCCAGGACGAAGCUCGGCCAGGUAAGGAUGCGGAGCCGAGCCAUGACUUGGCCAAGCACCGACGACCGAGUCCUUCGAACCGAAAGGACUCACGCUCC
.............(((((..(((.((((((((..((...((....))..))...)))))))).)))..........((((((((........)))))))).)).))) (-35.04 = -35.68 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:37:52 2011