Locus 12993

Sequence ID dm3.chrX
Location 3,780,292 – 3,780,412
Length 120
Max. P 0.609275
window17860 window17861

overview

Window 0

Location 3,780,292 – 3,780,412
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.62
Shannon entropy 0.15400
G+C content 0.39880
Mean single sequence MFE -32.88
Consensus MFE -25.62
Energy contribution -26.38
Covariance contribution 0.75
Combinations/Pair 1.08
Mean z-score -1.86
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.577741
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3780292 120 + 22422827
AAAUGCAAUAUGCCAAACUGGACUUUCGAGCGUUUCGAUAACGUAUUGGAAUUUUCGAUCGGCUUUAAGGUGAAAUUAUUAUAAAGCCAAAGUGCAUCGCCAAAGUGCAGAUUGCAUUUC
(((((((((.(((.....(((....(((((.(((((((((...))))))))).)))))..(((((((..(((....)))..)))))))...........)))....))).))))))))). ( -34.80, z-score =  -2.78, R)
>droEre2.scaffold_4690 1164056 118 + 18748788
AAAUGCAAUAUGCCACAUUGGACUUUCGAGCGUUUCCAUUACGUAUUGGAAUUUUUGACCGGCAUUUUGGUGAAAUUAUAAUGAAGCC--AGUGCAGCGCCAAAGUGCAGAUUGCAUUUU
(((((((((.(((.((.((((....(((((...(((((........)))))..)))))...((((..((((...((....))...)))--)))))....)))).))))).))))))))). ( -32.70, z-score =  -1.61, R)
>droYak2.chrX 17136274 118 - 21770863
AAAUGCAAUAUGCCAAACUGAACUUUCGAGCGUUUCGAUUACGUAUUGGAAUUUUUGACCGGCUUUUCGGUGAAAUUAUUAAGAAGCC--AGUGCAACGCCAAAGUGCAGAUUGCAUUUC
(((((((((.(((........(((((.(.((((((((((.....)))))))...(((((.(((((((..(((....)))..)))))))--.)).))))))))))))))).))))))))). ( -32.70, z-score =  -2.15, R)
>droSec1.super_4 3251750 118 - 6179234
AAAUGCAAUAUGGCAAACUGGACUUUCGAGCGUUUCGAUUACGUAUUGGAAUUUGGGAUCGGCUUUUAGGUGAAAUUAUUAUGAAGCC--AGUGCGUCGCCAAAGUGCAGAUUGCAUUUC
(((((((((...(((...(((....(((((...)))))..(((((((((.((.(((..(((.(.....).)))..)))..))....))--)))))))..)))...)))..))))))))). ( -31.30, z-score =  -0.91, R)
>consensus
AAAUGCAAUAUGCCAAACUGGACUUUCGAGCGUUUCGAUUACGUAUUGGAAUUUUUGACCGGCUUUUAGGUGAAAUUAUUAUGAAGCC__AGUGCAUCGCCAAAGUGCAGAUUGCAUUUC
(((((((((........(((.(((((.(.((((((((((.....))))))).........(((((((.((((....)))).))))))).........))))))))).)))))))))))). (-25.62 = -26.38 +   0.75)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,780,292 – 3,780,412
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.62
Shannon entropy 0.15400
G+C content 0.39880
Mean single sequence MFE -29.66
Consensus MFE -20.40
Energy contribution -20.77
Covariance contribution 0.37
Combinations/Pair 1.08
Mean z-score -2.30
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.609275
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3780292 120 - 22422827
GAAAUGCAAUCUGCACUUUGGCGAUGCACUUUGGCUUUAUAAUAAUUUCACCUUAAAGCCGAUCGAAAAUUCCAAUACGUUAUCGAAACGCUCGAAAGUCCAGUUUGGCAUAUUGCAUUU
.(((((((((.(((...(((((((.((...(((((((((..............)))))))))((((.(((........))).))))...))))).....))))....))).))))))))) ( -32.54, z-score =  -3.17, R)
>droEre2.scaffold_4690 1164056 118 - 18748788
AAAAUGCAAUCUGCACUUUGGCGCUGCACU--GGCUUCAUUAUAAUUUCACCAAAAUGCCGGUCAAAAAUUCCAAUACGUAAUGGAAACGCUCGAAAGUCCAAUGUGGCAUAUUGCAUUU
.(((((((((.(((((.((((.((((.(((--(((......................))))))))....(((((........)))))..)).(....).)))).)).))).))))))))) ( -31.95, z-score =  -2.53, R)
>droYak2.chrX 17136274 118 + 21770863
GAAAUGCAAUCUGCACUUUGGCGUUGCACU--GGCUUCUUAAUAAUUUCACCGAAAAGCCGGUCAAAAAUUCCAAUACGUAAUCGAAACGCUCGAAAGUUCAGUUUGGCAUAUUGCAUUU
.(((((((((.(((...((((..(((.(((--(((((.((............)).))))))))))).....))))..........((((...(....)....)))).))).))))))))) ( -30.10, z-score =  -2.08, R)
>droSec1.super_4 3251750 118 + 6179234
GAAAUGCAAUCUGCACUUUGGCGACGCACU--GGCUUCAUAAUAAUUUCACCUAAAAGCCGAUCCCAAAUUCCAAUACGUAAUCGAAACGCUCGAAAGUCCAGUUUGCCAUAUUGCAUUU
.(((((((((..(((..(((((.(((....--(((((..................)))))((........)).....)))..((((.....))))..).))))..)))...))))))))) ( -24.07, z-score =  -1.40, R)
>consensus
GAAAUGCAAUCUGCACUUUGGCGAUGCACU__GGCUUCAUAAUAAUUUCACCUAAAAGCCGAUCAAAAAUUCCAAUACGUAAUCGAAACGCUCGAAAGUCCAGUUUGGCAUAUUGCAUUU
.(((((((((.(((...(((((..........(((((..................)))))......................((((.....))))..).))))....))).))))))))) (-20.40 = -20.77 +   0.37)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:12:39 2011