Locus 15768

Sequence ID dm3.chrX
Location 20,943,142 – 20,943,251
Length 109
Max. P 0.977372
window21730 window21731

overview

Window 0

Location 20,943,142 – 20,943,251
Length 109
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 89.52
Shannon entropy 0.17301
G+C content 0.43989
Mean single sequence MFE -32.26
Consensus MFE -23.26
Energy contribution -22.98
Covariance contribution -0.28
Combinations/Pair 1.14
Mean z-score -3.10
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.97
SVM RNA-class probability 0.977372
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20943142 109 + 22422827
AACAGAGCCAUAAAACCAACGAUCGAUCGAGUGGGG--AAAUAAUUAAACCCGAUCAGCGAUAAUUAAACCGCAUAAGUGU--CCCCAUAAUGGAUCGAUCGAUC----GUCAUCUG
..((((............((((((((((((((((((--(..((((((....((.....)).))))))...(((....))))--))))))......))))))))))----))..)))) ( -31.74, z-score =  -3.52, R)
>droSim1.chrX 16100638 113 + 17042790
AACAGAGCCAUAAAACCGACGAUCGAUCGAGUGGGG--AAAUAAUUAAACCCGAUCAGCGAUAAUUAAACCGCAUAAGUGU--CCCCAUAAUGGAUCGAUCGAUCGAUCGUCAUCCG
.................(((((((((((((..(((.--...........)))((((.(((..........)))....(((.--...)))....))))..)))))))))))))..... ( -35.10, z-score =  -3.41, R)
>droSec1.super_8 3230861 113 + 3762037
AACAGAGCCAUAAAACCGACGAUCGAUCGAUUGGGG--AAAUAAUUAAACCCGAUCAGCGAUAAUUAAACCGCAUAAGUGU--CCCCAUAAUGGAUCGAUCGAUCGAUCGUCAUCCG
.................((((((((((((((((((.--...........)))((((.(((..........)))....(((.--...)))....)))))))))))))))))))..... ( -37.40, z-score =  -4.17, R)
>droYak2.chrX 20150886 107 + 21770863
AACAGAGCCAUAAAAUCAACGAUCGAUCGAGUGGGGC-AACUAAUUAAACCCGAUCAGCGAUAAUUAAACCGCAUAAGUGU-CCCCCAUAAUGGAUCGAUCG--------UCAUCUG
..((((............((((((((((.(((((((.-.(((.(((......)))..(((..........)))...)))..-.))))))..).)))))))))--------)..)))) ( -28.54, z-score =  -2.82, R)
>droEre2.scaffold_4690 17514604 108 + 18748788
AACAGAGCCAUACAAUCAACGAUCGAUUGGGUGGGGGGAAAUAAUUAAACC-GAUCAGCGAUAAUUAAACCGCAUAAGAGUGCCCCUAUAAUGGAUCGAUCG--------UCAUCUG
..((((............((((((((((..((((((((...((((((...(-(.....)).))))))..))((((....))))))))))....)))))))))--------)..)))) ( -28.54, z-score =  -1.58, R)
>consensus
AACAGAGCCAUAAAACCAACGAUCGAUCGAGUGGGG__AAAUAAUUAAACCCGAUCAGCGAUAAUUAAACCGCAUAAGUGU__CCCCAUAAUGGAUCGAUCGAUC____GUCAUCUG
...................(((((((((.(((((((.......(((......)))..(((..........)))..........))))))..).)))))))))............... (-23.26 = -22.98 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,943,142 – 20,943,251
Length 109
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 89.52
Shannon entropy 0.17301
G+C content 0.43989
Mean single sequence MFE -34.72
Consensus MFE -25.12
Energy contribution -25.04
Covariance contribution -0.08
Combinations/Pair 1.07
Mean z-score -2.02
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.544944
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20943142 109 - 22422827
CAGAUGAC----GAUCGAUCGAUCCAUUAUGGGG--ACACUUAUGCGGUUUAAUUAUCGCUGAUCGGGUUUAAUUAUUU--CCCCACUCGAUCGAUCGUUGGUUUUAUGGCUCUGUU
((((.(((----((((((((((((.....((...--.)).....(((((......))))).))))(((...........--.)))....))))))))))).(((....))))))).. ( -34.60, z-score =  -2.37, R)
>droSim1.chrX 16100638 113 - 17042790
CGGAUGACGAUCGAUCGAUCGAUCCAUUAUGGGG--ACACUUAUGCGGUUUAAUUAUCGCUGAUCGGGUUUAAUUAUUU--CCCCACUCGAUCGAUCGUCGGUUUUAUGGCUCUGUU
((((((((((((((((((..((((.....((...--.)).....(((((......))))).))))(((...........--.)))..))))))))))))))(((....))))))).. ( -39.60, z-score =  -2.60, R)
>droSec1.super_8 3230861 113 - 3762037
CGGAUGACGAUCGAUCGAUCGAUCCAUUAUGGGG--ACACUUAUGCGGUUUAAUUAUCGCUGAUCGGGUUUAAUUAUUU--CCCCAAUCGAUCGAUCGUCGGUUUUAUGGCUCUGUU
(((((((((((((((((((.((((.....((...--.)).....(((((......))))).))))(((...........--.))).)))))))))))))))(((....))))))).. ( -40.40, z-score =  -2.74, R)
>droYak2.chrX 20150886 107 - 21770863
CAGAUGA--------CGAUCGAUCCAUUAUGGGGG-ACACUUAUGCGGUUUAAUUAUCGCUGAUCGGGUUUAAUUAGUU-GCCCCACUCGAUCGAUCGUUGAUUUUAUGGCUCUGUU
(((((((--------(((((((((.....((((((-((......(((((......)))))(((......)))....)))-.)))))...))))))))))))..........)))).. ( -31.30, z-score =  -1.44, R)
>droEre2.scaffold_4690 17514604 108 - 18748788
CAGAUGA--------CGAUCGAUCCAUUAUAGGGGCACUCUUAUGCGGUUUAAUUAUCGCUGAUC-GGUUUAAUUAUUUCCCCCCACCCAAUCGAUCGUUGAUUGUAUGGCUCUGUU
((((...--------.((((((((....((((((....))))))(((((......))))).))))-)))).............(((..(((((((...)))))))..))).)))).. ( -27.70, z-score =  -0.92, R)
>consensus
CAGAUGAC____GAUCGAUCGAUCCAUUAUGGGG__ACACUUAUGCGGUUUAAUUAUCGCUGAUCGGGUUUAAUUAUUU__CCCCACUCGAUCGAUCGUUGGUUUUAUGGCUCUGUU
((((............((((((((.....(((((..........(((((......)))))(((......))).........)))))...))))))))((((......)))))))).. (-25.12 = -25.04 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:33 2011