Locus 15779

Sequence ID dm3.chrX
Location 20,999,408 – 20,999,550
Length 142
Max. P 0.964207
window21745 window21746

overview

Window 5

Location 20,999,408 – 20,999,511
Length 103
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 79.51
Shannon entropy 0.35028
G+C content 0.47656
Mean single sequence MFE -28.86
Consensus MFE -19.92
Energy contribution -19.72
Covariance contribution -0.20
Combinations/Pair 1.10
Mean z-score -1.78
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.94
SVM RNA-class probability 0.857429
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20999408 103 + 22422827
GCCACUGCACUA-GCCGCUACUCAUUUUUAGCUAUUCGCAGACUACCUUGUAAUUAUCAGCUUAGAUUCCCUGACGCCGUGACGAGCG----GGAAUGGAGCUGAUAA
....((((..((-((...............))))...))))............((((((((((..((((((...((......))...)----))))).)))))))))) ( -28.36, z-score =  -1.59, R)
>droEre2.scaffold_4690 17565409 96 + 18748788
GCGAAAGCAAUGCAUCAUUUUUCCUAUUCGG-------C-GACUACCUUGCAAUUAUCAGCUCAAAUUCCCUACUGCCGUGGCGAGCG----GGAAUGCAGCUGAUAA
((....))..((((........((.....))-------.-........)))).(((((((((...((((((...(((....)))...)----)))))..))))))))) ( -31.43, z-score =  -2.58, R)
>droYak2.chrX 20200709 103 + 21770863
GCCACUGCAAUGCAUCAUUUUUCCUAUUCGGAGACUAAC-GACUACCUUGUAAUUAUCAGCUUAAAUUUCCUACUGCCGCGACGAGCG----GGAAUGUAGCUGAUAA
.....(((((.........(((((.....)))))(....-)......))))).(((((((((...((((((....((((...)).)))----)))))..))))))))) ( -22.90, z-score =  -1.23, R)
>droSec1.super_8 3283087 107 + 3762037
GCCACUGCACUA-GCCGCUACUCAUUUUUUGCUAUUCGCAGACUACCUUGUAAUUAUCAGCUUAAAGUCCCUGACGCCGUGACGAGCGAGCGGGAAUGGAGCUGAUAA
....((((..((-((...............))))...))))............((((((((((....((((...(((((...)).)))...))))...)))))))))) ( -30.46, z-score =  -1.38, R)
>droSim1.chrX 861641 107 - 17042790
GCCACUGCACUA-GCCGCUACUCAUUUUUUGCUAUUCGCAGACUACCUUGUAAUUAUCAGCUUAAAUUCCCUGACGCCGUGACGAGCGAGCGGGAAUGGAGCUGAUAA
....((((..((-((...............))))...))))............((((((((((..((((((...(((((...)).)))...)))))).)))))))))) ( -31.16, z-score =  -2.12, R)
>consensus
GCCACUGCACUA_GCCGCUACUCAUUUUUGGCUAUUCGCAGACUACCUUGUAAUUAUCAGCUUAAAUUCCCUGACGCCGUGACGAGCG____GGAAUGGAGCUGAUAA
((....)).............................................(((((((((...(((((....(((((...)).)))....)))))..))))))))) (-19.92 = -19.72 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,999,446 – 20,999,550
Length 104
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 79.20
Shannon entropy 0.34288
G+C content 0.47582
Mean single sequence MFE -25.98
Consensus MFE -20.52
Energy contribution -20.16
Covariance contribution -0.36
Combinations/Pair 1.14
Mean z-score -1.96
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.73
SVM RNA-class probability 0.964207
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20999446 104 + 22422827
-----AGACUACCUUGUAAUUAUCAGCUUAGAUUCCCUGACGCCGUGACGAGCG----GGAAUGGAGCUGAUAAGGCGCUCGCAAAUAACCAUUUUACACCAUGUACGACUAU
-----.........(((((((((((((((..((((((...((......))...)----))))).)))))))))).((....))...........))))).............. ( -26.00, z-score =  -1.55, R)
>droEre2.scaffold_4690 17565440 86 + 18748788
-----CGACUACCUUGCAAUUAUCAGCUCAAAUUCCCUACUGCCGUGGCGAGCG----GGAAUGCAGCUGAUAAGACGCUCGCCAGUAACCAUGC------------------
-----..(((..(..((..(((((((((...((((((...(((....)))...)----)))))..)))))))))...))..)..)))........------------------ ( -27.20, z-score =  -2.08, R)
>droYak2.chrX 20200742 98 + 21770863
ACUAACGACUACCUUGUAAUUAUCAGCUUAAAUUUCCUACUGCCGCGACGAGCG----GGAAUGUAGCUGAUAAGCCGCUCGCAAAUAACCAUUU-ACACCAA----------
..............((((((((((((((...((((((....((((...)).)))----)))))..)))))))))((.....))..........))-)))....---------- ( -21.20, z-score =  -1.76, R)
>droSec1.super_8 3283125 107 + 3762037
-----AGACUACCUUGUAAUUAUCAGCUUAAAGUCCCUGACGCCGUGACGAGCGAGCGGGAAUGGAGCUGAUAAGCCGCUCGCAAAUAACCAUUU-ACACCAUCUACGACUAU
-----.........(((((((((((((((....((((...(((((...)).)))...))))...))))))))))((.....))..........))-))).............. ( -27.40, z-score =  -1.84, R)
>droSim1.chrX 861679 107 - 17042790
-----AGACUACCUUGUAAUUAUCAGCUUAAAUUCCCUGACGCCGUGACGAGCGAGCGGGAAUGGAGCUGAUAAGCCGCUCGCAAAUAACCAUUU-ACACCAUCUACGACUAU
-----.........(((((((((((((((..((((((...(((((...)).)))...)))))).))))))))))((.....))..........))-))).............. ( -28.10, z-score =  -2.56, R)
>consensus
_____AGACUACCUUGUAAUUAUCAGCUUAAAUUCCCUGACGCCGUGACGAGCG____GGAAUGGAGCUGAUAAGCCGCUCGCAAAUAACCAUUU_ACACCAU_UACGACUAU
...............((..(((((((((...(((((....(((((...)).)))....)))))..)))))))))...)).................................. (-20.52 = -20.16 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:45 2011