Locus 15203

Sequence ID dm3.chrX
Location 17,909,275 – 17,909,357
Length 82
Max. P 0.994226
window20940 window20941

overview

Window 0

Location 17,909,275 – 17,909,357
Length 82
Sequences 6
Columns 83
Reading direction forward
Mean pairwise identity 83.48
Shannon entropy 0.31296
G+C content 0.70059
Mean single sequence MFE -43.32
Consensus MFE -33.33
Energy contribution -34.63
Covariance contribution 1.31
Combinations/Pair 1.13
Mean z-score -2.81
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.68
SVM RNA-class probability 0.994226
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17909275 82 + 22422827
GCUCUGCUCGCAGGCCUCAAAACGCUGCCGGCGUCGCAGUCGCGCCAGACAGCGGCAGAGGCAGCGACGCCGGCAGCAUCGG-
((.(((....)))))........((((((((((((((.(((..(((.......)))...))).)))))))))))))).....- ( -46.90, z-score =  -3.51, R)
>droSim1.chrX 13934960 83 + 17042790
GCUCUGCUCGCAGUCCUCAAAACGCUGCCGGCGUCGCAGUCGCGCCAGACGGCGGCAGAGGCAGCGACGCCGGCAGCAUCCGG
(..(((....)))..).......((((((((((((((.(((.((((....)))).....))).))))))))))))))...... ( -45.20, z-score =  -2.91, R)
>droSec1.super_8 209913 82 + 3762037
GCUCUGCUUGCAGUCCUCAAAACGCUGCCGGCGUCGCAGUCGCGCCAGACGGCGGCAGAAGCAGCGACGUCGGCAGCAUCGG-
(..(((....)))..).......((((((((((((((.....((((....))))((....)).)))))))))))))).....- ( -42.30, z-score =  -2.80, R)
>droYak2.chrX 16529564 82 + 21770863
GCUCUGCUCGCAGGCCUCAAAAUGCUGCCGGCGUCGCAGUCGCGUCAGGCGCCGGCAGAGGCAGCGAAGUCAGCAGCAUCGG-
(((((((((((..(((((.......((((((((((((....)))....)))))))))))))).))).)).))).))).....- ( -41.01, z-score =  -2.48, R)
>droEre2.scaffold_4690 8236996 82 + 18748788
GCUCUGCUCGCAGGCCUCUGAAUGCUGCCGACGUCGCAGUCGCGUCAGACGCCGGCAGAGGCAGCGACGUCAGCAGCAUCGG-
((.(((....)))))..((((.((((((.((((((((.(((......)))(((......))).)))))))).))))))))))- ( -44.20, z-score =  -3.04, R)
>droAna3.scaffold_13335 1617098 73 - 3335858
--UCUGCUGGCAGGCCUC-GCGCUCUGCCGGCGUCGCAGCCAACGCAGACGCUGGC------AGCGAAGUCGGCAGCAGCAG-
--.((((((.(.(((.((-((....((((((((((((.......)).)))))))))------))))).)))).))))))...- ( -40.30, z-score =  -2.11, R)
>consensus
GCUCUGCUCGCAGGCCUCAAAACGCUGCCGGCGUCGCAGUCGCGCCAGACGCCGGCAGAGGCAGCGACGUCGGCAGCAUCGG_
...(((....)))..........((((((((((((((.(((..(((.......)))...))).))))))))))))))...... (-33.33 = -34.63 +   1.31)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,909,275 – 17,909,357
Length 82
Sequences 6
Columns 83
Reading direction reverse
Mean pairwise identity 83.48
Shannon entropy 0.31296
G+C content 0.70059
Mean single sequence MFE -42.13
Consensus MFE -28.77
Energy contribution -29.55
Covariance contribution 0.78
Combinations/Pair 1.20
Mean z-score -2.32
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947418
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17909275 82 - 22422827
-CCGAUGCUGCCGGCGUCGCUGCCUCUGCCGCUGUCUGGCGCGACUGCGACGCCGGCAGCGUUUUGAGGCCUGCGAGCAGAGC
-..(((((((((((((((((....(((((((.....))))).))..))))))))))))))))).....(((((....))).)) ( -45.90, z-score =  -2.61, R)
>droSim1.chrX 13934960 83 - 17042790
CCGGAUGCUGCCGGCGUCGCUGCCUCUGCCGCCGUCUGGCGCGACUGCGACGCCGGCAGCGUUUUGAGGACUGCGAGCAGAGC
((.(((((((((((((((((....((.((.(((....)))))))..)))))))))))))))))....)).(((....)))... ( -46.60, z-score =  -2.70, R)
>droSec1.super_8 209913 82 - 3762037
-CCGAUGCUGCCGACGUCGCUGCUUCUGCCGCCGUCUGGCGCGACUGCGACGCCGGCAGCGUUUUGAGGACUGCAAGCAGAGC
-((((((((((((.((((((.((....))((((....)))).....)))))).))))))))))....)).(((....)))... ( -38.60, z-score =  -1.60, R)
>droYak2.chrX 16529564 82 - 21770863
-CCGAUGCUGCUGACUUCGCUGCCUCUGCCGGCGCCUGACGCGACUGCGACGCCGGCAGCAUUUUGAGGCCUGCGAGCAGAGC
-.....(((.(((.((.(((.(((((((((((((.....(((....))).)))))))).......)))))..))))))))))) ( -36.81, z-score =  -2.02, R)
>droEre2.scaffold_4690 8236996 82 - 18748788
-CCGAUGCUGCUGACGUCGCUGCCUCUGCCGGCGUCUGACGCGACUGCGACGUCGGCAGCAUUCAGAGGCCUGCGAGCAGAGC
-..(((((((((((((((((.(((......)))(((......))).))))))))))))))))).....(((((....))).)) ( -43.30, z-score =  -2.67, R)
>droAna3.scaffold_13335 1617098 73 + 3335858
-CUGCUGCUGCCGACUUCGCU------GCCAGCGUCUGCGUUGGCUGCGACGCCGGCAGAGCGC-GAGGCCUGCCAGCAGA--
-((((((((((((.(.((((.------(((((((....))))))).)))).).))))))...((-(.....))))))))).-- ( -41.60, z-score =  -2.30, R)
>consensus
_CCGAUGCUGCCGACGUCGCUGCCUCUGCCGCCGUCUGGCGCGACUGCGACGCCGGCAGCGUUUUGAGGCCUGCGAGCAGAGC
...((((((((((.((((((......(((.(((....))))))...)))))).)))))))))).......(((....)))... (-28.77 = -29.55 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:54:51 2011