Locus 11086

Sequence ID dm3.chr3R
Location 18,641,393 – 18,641,486
Length 93
Max. P 0.972444
window15226 window15227

overview

Window 6

Location 18,641,393 – 18,641,486
Length 93
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 79.91
Shannon entropy 0.35017
G+C content 0.56235
Mean single sequence MFE -36.73
Consensus MFE -21.40
Energy contribution -22.24
Covariance contribution 0.84
Combinations/Pair 1.23
Mean z-score -1.88
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.662978
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18641393 93 + 27905053
CUCAUCCGCGGUGAAUGGCGAGUGCAGUUU------------GCUGUUGUAGUAGAAGGGCACAAAGCCAUUGGCCGUGGUGCCAAGGGAGGAU---UGCGAAUGGCG
.....(((((((.((((((..((((..(((------------((((...)))))))...))))...)))))).))))))).((((.(.((...)---).)...)))). ( -39.60, z-score =  -3.35, R)
>droSim1.chr3R 18453265 93 + 27517382
CUCAUCCGCGGUGAAUGGUGAGUGCAGUUU------------GCUGUUGUAAUAGAAGGGCACAAAGCCAUUGGCCGUGGUGCCAAGGGAGGAU---UGCGGAUGGCG
.(((((((((((.((((((..((((.....------------.((((....))))....))))...)))))).)))......((......))..---.)))))))).. ( -35.90, z-score =  -2.34, R)
>droSec1.super_0 19002121 93 + 21120651
CUCAUCCGCGGUGAAUGGCGAGUGCAGUUU------------GCUGUUGUAGUAGAAGGGCACAAAGCCAUUGGCCGUGGUGCCAAGGGAGGAU---UGCGGAUGGCG
.(((((((((((.((((((..((((..(((------------((((...)))))))...))))...)))))).)))......((......))..---.)))))))).. ( -41.10, z-score =  -3.67, R)
>droYak2.chr3R 19494224 106 + 28832112
CUCAUCCGCCGUGAAUGUCUGCUGCGGCUGCAGCUGCAGUUUGCUGUUGUAGUAGAAGGGCACAAAGCCAUUGGCCGUGGUGCCAAGGGAGGAUUGGUGCGGAUGG--
..(((((((((((....(((((((((((.(((((....).)))).)))))))))))....)))....((.(((((......))))).)).......).))))))).-- ( -45.30, z-score =  -1.88, R)
>droEre2.scaffold_4820 1039359 88 - 10470090
CUCACCCGCGGUGAAUUGCUGGUGUAGCUG------------GCUGUUGUAGUAGAAGGGCACAAAGCCAUUGGCCGUGGUGCCAAGGGAUGA---GUGCGGA-----
((((((((((((.(.((((....)))).).------------)))))...........(((((...(((...)))....)))))..))).)))---)......----- ( -29.20, z-score =   0.22, R)
>droAna3.scaffold_13340 11022829 96 - 23697760
CACAUCCUCUGAAAAUUGCGAGUGCAGCUU------------ACUGUUGUAGUAGAAGGGCACAAACCCAUUGGCAGUACUGCCAAAGGAUUGGUGUUGCUGGUGGGG
.....................((((..(((------------.(((......)))))).))))...(((((..((((((((.((...))...))))))))..))))). ( -29.30, z-score =  -0.27, R)
>consensus
CUCAUCCGCGGUGAAUGGCGAGUGCAGCUU____________GCUGUUGUAGUAGAAGGGCACAAAGCCAUUGGCCGUGGUGCCAAGGGAGGAU___UGCGGAUGGCG
..(((((((........((....(((((..............)))))....)).....(((((...(((...)))....)))))..............)))))))... (-21.40 = -22.24 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,641,393 – 18,641,486
Length 93
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 79.91
Shannon entropy 0.35017
G+C content 0.56235
Mean single sequence MFE -28.17
Consensus MFE -18.00
Energy contribution -18.75
Covariance contribution 0.75
Combinations/Pair 1.13
Mean z-score -2.47
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.87
SVM RNA-class probability 0.972444
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18641393 93 - 27905053
CGCCAUUCGCA---AUCCUCCCUUGGCACCACGGCCAAUGGCUUUGUGCCCUUCUACUACAACAGC------------AAACUGCACUCGCCAUUCACCGCGGAUGAG
...(((((((.---..........(((......)))((((((...((((.......((.....)).------------.....))))..))))))....))))))).. ( -25.32, z-score =  -2.19, R)
>droSim1.chr3R 18453265 93 - 27517382
CGCCAUCCGCA---AUCCUCCCUUGGCACCACGGCCAAUGGCUUUGUGCCCUUCUAUUACAACAGC------------AAACUGCACUCACCAUUCACCGCGGAUGAG
...(((((((.---..........(((((...((((...))))..)))))..............((------------.....))..............))))))).. ( -26.90, z-score =  -3.24, R)
>droSec1.super_0 19002121 93 - 21120651
CGCCAUCCGCA---AUCCUCCCUUGGCACCACGGCCAAUGGCUUUGUGCCCUUCUACUACAACAGC------------AAACUGCACUCGCCAUUCACCGCGGAUGAG
...(((((((.---..........(((......)))((((((...((((.......((.....)).------------.....))))..))))))....))))))).. ( -28.22, z-score =  -3.26, R)
>droYak2.chr3R 19494224 106 - 28832112
--CCAUCCGCACCAAUCCUCCCUUGGCACCACGGCCAAUGGCUUUGUGCCCUUCUACUACAACAGCAAACUGCAGCUGCAGCCGCAGCAGACAUUCACGGCGGAUGAG
--.(((((((..............(((((...((((...))))..)))))..(((.........((.....)).(((((....))))))))........))))))).. ( -36.00, z-score =  -2.67, R)
>droEre2.scaffold_4820 1039359 88 + 10470090
-----UCCGCAC---UCAUCCCUUGGCACCACGGCCAAUGGCUUUGUGCCCUUCUACUACAACAGC------------CAGCUACACCAGCAAUUCACCGCGGGUGAG
-----......(---((((((.(((((......)))))((((((((((.........))))).)))------------))(((.....)))..........))))))) ( -26.00, z-score =  -1.99, R)
>droAna3.scaffold_13340 11022829 96 + 23697760
CCCCACCAGCAACACCAAUCCUUUGGCAGUACUGCCAAUGGGUUUGUGCCCUUCUACUACAACAGU------------AAGCUGCACUCGCAAUUUUCAGAGGAUGUG
...(((((((..(((.(((((.((((((....)))))).))))).)))......((((.....)))------------).))))..(((..........)))...))) ( -26.60, z-score =  -1.49, R)
>consensus
CGCCAUCCGCA___AUCCUCCCUUGGCACCACGGCCAAUGGCUUUGUGCCCUUCUACUACAACAGC____________AAACUGCACUCGCCAUUCACCGCGGAUGAG
...(((((((............(((((......))))).(((.....))).................................................))))))).. (-18.00 = -18.75 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:36:04 2011