Locus 15832

Sequence ID dm3.chrX
Location 21,363,628 – 21,363,766
Length 138
Max. P 0.836226
window21817 window21818

overview

Window 7

Location 21,363,628 – 21,363,726
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.18
Shannon entropy 0.47821
G+C content 0.44557
Mean single sequence MFE -22.15
Consensus MFE -12.78
Energy contribution -12.62
Covariance contribution -0.16
Combinations/Pair 1.08
Mean z-score -1.47
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.85
SVM RNA-class probability 0.836226
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21363628 98 + 22422827
-------------------CAUAAGUAAGUGGAUAAGCAAUUGAAUAAUUCCCUUCCCAAUGCAAAUGCACUUAAGCCCUUCUC---GCAAGAUGGCUUGAUGCACUCGAUAAACCCAAC
-------------------..........(((....(((.(((..............))))))...((((.(((((((....((---....)).)))))))))))..........))).. ( -20.24, z-score =  -1.62, R)
>droSim1.chrX 16497591 101 + 17042790
-------------------AUUUUGCCAAGUCCCAAGCAAUUGAAUAAUUCCCUUCCCAAUGUAAAUGCACUUAAGCCCUCCUCCUCGCAAGAUGGCUUGAUGCACUCGAUAAAGCCAAC
-------------------.....((...(((.(((....))).......................((((.(((((((.......((....)).)))))))))))...)))...)).... ( -16.40, z-score =  -0.84, R)
>droSec1.super_8 3676583 96 + 3762037
-------------------AUUUUG-----UCCCAAGCAAUUGAAUAAUUCCCUUCCCAAUGUAAAUGCACUUAAGCCCUCCUCCUCGCAAGAUGGCUUGAUGCACUCGAUAAAGCCAAC
-------------------.(((((-----((.(((....))).......................((((.(((((((.......((....)).)))))))))))...)))))))..... ( -18.60, z-score =  -2.17, R)
>droYak2.chrX 20536898 117 + 21770863
GAGAGCUGAAAAGUUGAUGUCCGGAAGUAGUCGCAAUCAAUUGAAUAAUCCGCCUCCCGAUGUAAAUGCACUUAAGCCCUCCUG---GCUAGAUGGCUUGAUGCACUCAAUAAAGCCAAC
(((((((....)))).(((((.(((.(..(...(((....)))......)..).))).)))))...((((.(((((((.((...---....)).))))))))))))))............ ( -26.70, z-score =  -0.78, R)
>droEre2.scaffold_4690 17882812 114 + 18748788
---AGUUGGACAGUCGGGGUCACGAAAUAUCCCCAAUCAAUAGAACAAUACCCUUUCCAAUUUAAAUGCACUUAAGCCCUCCGC---GCGAGAUGGCUUGAUGCACUCGAUAAAGCCAAC
---.(((((...(((((((...........))))................................((((.(((((((.(((..---..).)).)))))))))))...)))....))))) ( -28.80, z-score =  -1.91, R)
>consensus
___________________ACUUGGAAAAGUCCCAAGCAAUUGAAUAAUUCCCUUCCCAAUGUAAAUGCACUUAAGCCCUCCUC___GCAAGAUGGCUUGAUGCACUCGAUAAAGCCAAC
..................................................................((((.(((((((.((..........)).)))))))))))............... (-12.78 = -12.62 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,363,649 – 21,363,766
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.27
Shannon entropy 0.15541
G+C content 0.37632
Mean single sequence MFE -22.41
Consensus MFE -18.54
Energy contribution -19.06
Covariance contribution 0.52
Combinations/Pair 1.10
Mean z-score -1.57
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.545613
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21363649 117 + 22422827
UUGAAUAAUUCCCUUCCCAAUGCAAAUGCACUUAAGCCCUUCUC---GCAAGAUGGCUUGAUGCACUCGAUAAACCCAACCAGAAAUAACAAAAGCGUAUUUAUUUAUGACAUUUAUAUA
...................((((...((((.(((((((....((---....)).))))))))))).((..............))..........))))...................... ( -17.34, z-score =  -1.14, R)
>droSim1.chrX 16497612 120 + 17042790
UUGAAUAAUUCCCUUCCCAAUGUAAAUGCACUUAAGCCCUCCUCCUCGCAAGAUGGCUUGAUGCACUCGAUAAAGCCAACCAGAAAUAACAAAAGCGUAUUUAUUUAUGGCAUUUAUAUA
...................(((((((((((.(((((((.......((....)).))))))))))..........((((.....(((((.(......)))))).....)))))))))))). ( -23.20, z-score =  -1.91, R)
>droSec1.super_8 3676599 120 + 3762037
UUGAAUAAUUCCCUUCCCAAUGUAAAUGCACUUAAGCCCUCCUCCUCGCAAGAUGGCUUGAUGCACUCGAUAAAGCCAACCAGAAAUAACAAAAGCGUAUUUAUUUAUGGCAUUUAUAUA
...................(((((((((((.(((((((.......((....)).))))))))))..........((((.....(((((.(......)))))).....)))))))))))). ( -23.20, z-score =  -1.91, R)
>droYak2.chrX 20536938 117 + 21770863
UUGAAUAAUCCGCCUCCCGAUGUAAAUGCACUUAAGCCCUCCUG---GCUAGAUGGCUUGAUGCACUCAAUAAAGCCAACCAGAAAUAAUAAAAGCGUAUUUAUUUAUGGCAUUUAUAUA
...........(((.......((((((((.(((.((((.....)---)))...((((((.((.......)).))))))..............))).))))))))....)))......... ( -25.50, z-score =  -1.62, R)
>droEre2.scaffold_4690 17882849 116 + 18748788
UAGAACAAUACCCUUUCCAAUUUAAAUGCACUUAAGCCCUCCGC---GCGAGAUGGCUUGAUGCACUCGAUAAAGCCAACCAGGAAUAACAAA-GCGUAUUUAUUUAUGGCAUUUAUACA
..........................((((.(((((((.(((..---..).)).)))))))))))....(((((((((.....(((((.....-...))))).....)))).)))))... ( -22.80, z-score =  -1.26, R)
>consensus
UUGAAUAAUUCCCUUCCCAAUGUAAAUGCACUUAAGCCCUCCUC___GCAAGAUGGCUUGAUGCACUCGAUAAAGCCAACCAGAAAUAACAAAAGCGUAUUUAUUUAUGGCAUUUAUAUA
...................(((((((((((.(((((((.((..........)).))))))))))..........((((.....(((((.(......)))))).....)))))))))))). (-18.54 = -19.06 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:06:44 2011