Locus 15759

Sequence ID dm3.chrX
Location 20,849,504 – 20,849,563
Length 59
Max. P 0.977005
window21717 window21718

overview

Window 7

Location 20,849,504 – 20,849,563
Length 59
Sequences 6
Columns 68
Reading direction forward
Mean pairwise identity 73.23
Shannon entropy 0.47725
G+C content 0.54071
Mean single sequence MFE -17.27
Consensus MFE -12.93
Energy contribution -13.60
Covariance contribution 0.67
Combinations/Pair 1.25
Mean z-score -1.61
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.96
SVM RNA-class probability 0.977005
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20849504 59 + 22422827
ACAAAAACAAGAUGGCAGGACAGGAUCAGGACGAAAGGAUUGGGUCCUGGUUCCUCAGG---------
..............(.(((((((((((((..(....)..)).)))))))..)))))...--------- ( -17.20, z-score =  -1.71, R)
>droSim1.chrX 16018015 59 + 17042790
ACAAAAACAAGAUGGCAGGACAGGAUCAGGACGACAGGAUUGGGUCCUGGUUCCUGAGG---------
....................((((((((((((..(......).))))))).)))))...--------- ( -18.30, z-score =  -1.96, R)
>droSec1.super_8 3132608 59 + 3762037
ACAAAAACAAGAUGGCAGGACAGGAUCAGGACGACAGGAUUGGGUCCUGGUUCCUGAGG---------
....................((((((((((((..(......).))))))).)))))...--------- ( -18.30, z-score =  -1.96, R)
>droYak2.chrX 20061041 59 + 21770863
ACAAAAACAAGAUGGCAGGACAGGAUCAGGACGACAGGAUUGGGUCCUGGUUCCUGAGG---------
....................((((((((((((..(......).))))))).)))))...--------- ( -18.30, z-score =  -1.96, R)
>droEre2.scaffold_4690 17423166 68 + 18748788
ACAAAAACAAGAUGGCAGGACAGGAUCAGGACGACAGGAUUGGGUCCUGGUUCCUGAGCAGCGCACAG
............((((.(..((((((((((((..(......).))))))).)))))..).)).))... ( -19.80, z-score =  -1.71, R)
>droWil1.scaffold_180702 2443677 52 + 4511350
-------CCAGCCAAAGGCAUGAGAGAAGGAUGAGUCCACGUGCACCACGCCGUCGACG---------
-------...(((...)))...............(((.(((.((.....))))).))).--------- ( -11.70, z-score =  -0.38, R)
>consensus
ACAAAAACAAGAUGGCAGGACAGGAUCAGGACGACAGGAUUGGGUCCUGGUUCCUGAGG_________
....................((((((((((((...........))))))).)))))............ (-12.93 = -13.60 +   0.67)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,849,504 – 20,849,563
Length 59
Sequences 6
Columns 68
Reading direction reverse
Mean pairwise identity 73.23
Shannon entropy 0.47725
G+C content 0.54071
Mean single sequence MFE -15.53
Consensus MFE -9.94
Energy contribution -9.97
Covariance contribution 0.03
Combinations/Pair 1.36
Mean z-score -1.82
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.87
SVM RNA-class probability 0.972287
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20849504 59 - 22422827
---------CCUGAGGAACCAGGACCCAAUCCUUUCGUCCUGAUCCUGUCCUGCCAUCUUGUUUUUGU
---------....((((..((((((...........)))))).))))..................... ( -11.80, z-score =  -0.83, R)
>droSim1.chrX 16018015 59 - 17042790
---------CCUCAGGAACCAGGACCCAAUCCUGUCGUCCUGAUCCUGUCCUGCCAUCUUGUUUUUGU
---------..((((((..(((((.....)))))...))))))......................... ( -15.00, z-score =  -2.13, R)
>droSec1.super_8 3132608 59 - 3762037
---------CCUCAGGAACCAGGACCCAAUCCUGUCGUCCUGAUCCUGUCCUGCCAUCUUGUUUUUGU
---------..((((((..(((((.....)))))...))))))......................... ( -15.00, z-score =  -2.13, R)
>droYak2.chrX 20061041 59 - 21770863
---------CCUCAGGAACCAGGACCCAAUCCUGUCGUCCUGAUCCUGUCCUGCCAUCUUGUUUUUGU
---------..((((((..(((((.....)))))...))))))......................... ( -15.00, z-score =  -2.13, R)
>droEre2.scaffold_4690 17423166 68 - 18748788
CUGUGCGCUGCUCAGGAACCAGGACCCAAUCCUGUCGUCCUGAUCCUGUCCUGCCAUCUUGUUUUUGU
..(((.((.(..(((((..((((((.((....))..)))))).)))))..).)))))........... ( -19.70, z-score =  -2.57, R)
>droWil1.scaffold_180702 2443677 52 - 4511350
---------CGUCGACGGCGUGGUGCACGUGGACUCAUCCUUCUCUCAUGCCUUUGGCUGG-------
---------.(((((.(((((((.......(((....))).....))))))).)))))...------- ( -16.70, z-score =  -1.10, R)
>consensus
_________CCUCAGGAACCAGGACCCAAUCCUGUCGUCCUGAUCCUGUCCUGCCAUCUUGUUUUUGU
............(((((..((((((...........)))))).))))).................... ( -9.94 =  -9.97 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:22 2011