Locus 13635

Sequence ID dm3.chrX
Location 8,001,055 – 8,001,201
Length 146
Max. P 0.989434
window18763 window18764

overview

Window 3

Location 8,001,055 – 8,001,201
Length 146
Sequences 3
Columns 149
Reading direction forward
Mean pairwise identity 86.04
Shannon entropy 0.18937
G+C content 0.49322
Mean single sequence MFE -41.67
Consensus MFE -31.71
Energy contribution -31.60
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.24
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.861798
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8001055 146 + 22422827
AACACUCCACUUCAGUCGAGUUCACUGGCUGAGAUGUCAACGGAAUGGAAAUGUGUAAUGGGAAUCCGAUCCGAUC---UCUGCACCAGCUUCACCCAAAUCAAAGUCAACUAGCUUUCAGGCCAACUAACCAACCCAGUGGAGCGUAA
.((.(((((((((((((.((....)))))))).........((..(((((..(((((((.(((......))).)).---..)))))..(((.....................))))))))..)).............))))))).)).. ( -35.30, z-score =   0.03, R)
>droSec1.super_44 84902 131 + 251150
AACACUCCACUUCAGUCGAGUUCACUGGCUGAGAUGUCAGCGGAAUGGAAAUGCGUA-UGGGAAUCCGAUCCUAUCCGAUACGCACCAGCUUCACCCAAAUCAAAGCCAACUAAC--------CAAC--------CCAGUGGAGCGUA-
.((.(((((((...((.(.(((...(((((..(((....(.(((.(((...((((((-(.(((...........))).))))))))))..))).)....)))..)))))...)))--------).))--------..))))))).)).- ( -41.80, z-score =  -3.05, R)
>droSim1.chrX 6396472 139 + 17042790
AACACUCCACUUCAGUCGAGUUCACUGGCUGAGAUGUCAAUGGAAUGGAAAUGCGUA-UGGGAAUCGGAUCCGAUCCGAUACGCACCAGCUUCACCCAAAUCAAAGCCAACUAGC--------CAACUAACCAAGCCAGUGGAGCGUA-
.((.(((((((((((((.((....))))))))).......(((..(((...((((((-(.(((.(((....)))))).)))))))...((((...........))))........--------.......)))..))))))))).)).- ( -47.90, z-score =  -3.69, R)
>consensus
AACACUCCACUUCAGUCGAGUUCACUGGCUGAGAUGUCAACGGAAUGGAAAUGCGUA_UGGGAAUCCGAUCCGAUCCGAUACGCACCAGCUUCACCCAAAUCAAAGCCAACUAGC________CAACUAACCAA_CCAGUGGAGCGUA_
.((.(((((((((((((.((....))))))))(((......(((.(((...((((((.(.(((......))).).....)))))))))..)))......)))...................................))))))).)).. (-31.71 = -31.60 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 4

Location 8,001,055 – 8,001,201
Length 146
Sequences 3
Columns 149
Reading direction reverse
Mean pairwise identity 86.04
Shannon entropy 0.18937
G+C content 0.49322
Mean single sequence MFE -55.12
Consensus MFE -34.91
Energy contribution -36.47
Covariance contribution 1.56
Combinations/Pair 1.05
Mean z-score -3.63
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.37
SVM RNA-class probability 0.989434
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8001055 146 - 22422827
UUACGCUCCACUGGGUUGGUUAGUUGGCCUGAAAGCUAGUUGACUUUGAUUUGGGUGAAGCUGGUGCAGA---GAUCGGAUCGGAUUCCCAUUACACAUUUCCAUUCCGUUGACAUCUCAGCCAGUGAACUCGACUGAAGUGGAGUGUU
..((((((((((.(((((((((..((((......))))..))))).......((((...((((((...((---(((((((..(((...............)))..)))).....))))).))))))..))))))))..)))))))))). ( -54.26, z-score =  -2.95, R)
>droSec1.super_44 84902 131 - 251150
-UACGCUCCACUGG--------GUUG--------GUUAGUUGGCUUUGAUUUGGGUGAAGCUGGUGCGUAUCGGAUAGGAUCGGAUUCCCA-UACGCAUUUCCAUUCCGCUGACAUCUCAGCCAGUGAACUCGACUGAAGUGGAGUGUU
-.((((((((((.(--------((((--------(((..((((((..(((.(.((((((...(((((((((.(((...........))).)-))))))))....)).)))).).)))..))))))..))).)))))..)))))))))). ( -55.50, z-score =  -4.20, R)
>droSim1.chrX 6396472 139 - 17042790
-UACGCUCCACUGGCUUGGUUAGUUG--------GCUAGUUGGCUUUGAUUUGGGUGAAGCUGGUGCGUAUCGGAUCGGAUCCGAUUCCCA-UACGCAUUUCCAUUCCAUUGACAUCUCAGCCAGUGAACUCGACUGAAGUGGAGUGUU
-.((((((((((...(..(((((((.--------(((....((((..(((.(.((((((...(((((((((.((((((....))).))).)-))))))))....)).)))).).)))..))))))).)))).)))..))))))))))). ( -55.60, z-score =  -3.75, R)
>consensus
_UACGCUCCACUGG_UUGGUUAGUUG________GCUAGUUGGCUUUGAUUUGGGUGAAGCUGGUGCGUAUCGGAUCGGAUCGGAUUCCCA_UACGCAUUUCCAUUCCGUUGACAUCUCAGCCAGUGAACUCGACUGAAGUGGAGUGUU
..((((((((((((..(((...............(((((((.((((......))))..)))))))(((((.......(((......)))...)))))....)))..)).........(((((.((....)).).)))))))))))))). (-34.91 = -36.47 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:24:59 2011