Locus 15769

Sequence ID dm3.chrX
Location 20,943,573 – 20,943,785
Length 212
Max. P 0.950332
window21732 window21733

overview

Window 2

Location 20,943,573 – 20,943,682
Length 109
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 72.67
Shannon entropy 0.41508
G+C content 0.38473
Mean single sequence MFE -25.80
Consensus MFE -13.11
Energy contribution -14.24
Covariance contribution 1.13
Combinations/Pair 1.29
Mean z-score -2.44
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.56
SVM RNA-class probability 0.950332
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20943573 109 + 22422827
GGUAAACGGAAUCGUUGGAUUAUUCCUAUUGAUAAG--UGAUCAAUUCAUUCAUUUAACUAACUUUCAAUUCAUCCUUAACCGUGUAAACUCAUUCAGGGCUUCAGGCCCA
(((.((.(((.(((..(((....)))...)))((((--(((.........)))))))................))))).)))...............((((.....)))). ( -22.30, z-score =  -1.52, R)
>droSim1.chrX 16101098 93 + 17042790
GGUAAACGAAAACGUUGGAUUGAUCCUUUUGUUAAG--UGAUCAAUUGAU----------------CAAUUCAUCUUUUACCGGAUAAACUUAUUCAGGGCUUCAGGCCCA
((((((.((....(((((((((((((((.....)))--.))))))))...----------------))))...)).))))))(((((....))))).((((.....)))). ( -27.20, z-score =  -3.15, R)
>droSec1.super_8 3231530 93 + 3762037
GGUAAACGAAAACGUUGGAUUGAUCCUUUUGUUAAG--UGAUCAAUUGAU----------------CAAUUCAUCUUUUACCGAAUAAACUCAUUCAGGGCUUCAGGUCCA
((((((.((....(((((((((((((((.....)))--.))))))))...----------------))))...)).))))))((((......)))).((((.....)))). ( -23.90, z-score =  -2.32, R)
>droEre2.scaffold_4690 17515135 100 + 18748788
ACUAAACGGAAACGUUGCUCUGAUCCUAUCGAUAAAGUUCGUCAAGUGAUCAAGU-----------UAACAGACUUGCAACCGGAUGAAUUCAUUUAGGGCUUCAGGCCCA
....((((....))))((.(((((((((.......((((((((..((...(((((-----------(....))))))..))..))))))))....)))))..))))))... ( -29.80, z-score =  -2.77, R)
>consensus
GGUAAACGAAAACGUUGGAUUGAUCCUAUUGAUAAG__UGAUCAAUUGAU________________CAAUUCAUCUUUAACCGGAUAAACUCAUUCAGGGCUUCAGGCCCA
(((.((((....)))).((((((((..............))))))))................................)))(((((....))))).((((.....)))). (-13.11 = -14.24 +   1.13)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,943,679 – 20,943,785
Length 106
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 81.42
Shannon entropy 0.32399
G+C content 0.48535
Mean single sequence MFE -32.52
Consensus MFE -21.34
Energy contribution -20.90
Covariance contribution -0.44
Combinations/Pair 1.22
Mean z-score -1.70
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.652392
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20943679 106 - 22422827
GGCCAGAGAUAAUGCUCU-----ACUUUGGCCAAUCUCUGAAUGAGAUCGGAACAGUUGCUUCCCGAGGCAGAUUCAAUUGACUUCUUAAUGGCCAAAAAGGAUUCACUGG
..((((.((......(((-----..(((((((((((((.....)))))..(((...((((((....)))))).)))..............))))))))..))).)).)))) ( -28.90, z-score =  -0.88, R)
>droSim1.chrX 16101188 102 - 17042790
GGCCAGAGAUAAUGCUCU-----ACUUUGGCCAAUCUCUGAAUGAGAUCGGAACAGUUGCCUCCCGAGGCAGAUUCAAUUGAC----UAAUGGCCAAAAAGGAUUCACUGG
..((((.((......(((-----..(((((((((((((.....)))))..(((...((((((....)))))).))).......----...))))))))..))).)).)))) ( -31.60, z-score =  -1.98, R)
>droSec1.super_8 3231620 102 - 3762037
GGCCAGAGAUAAUGCUCU-----ACUUUGGCCAAUCUCUGAAUGAGAUGGGAACAGUUGCCUCCCGAGGUAGAUUCAAUUGAC----UAAUGGCCAAAAAGGAUUCACUGG
..((((.((......(((-----..(((((((((((((.....)))))..(((...((((((....)))))).))).......----...))))))))..))).)).)))) ( -30.20, z-score =  -1.48, R)
>droYak2.chrX 20151469 106 - 21770863
GGCCAGAGAUAAUGCUCUGCUCCACUUUGGCCAAUCUCUGAAUGCGAUCGGAUCAGCUUCUUCUCGAGGCAGAUCCAACUGAC----UAAUGGCCAAAAAGGUUUC-CUGG
(((.((((......)))))))((..(((((((((((.(.....).))).(((((.(((((.....))))).))))).......----...))))))))..))....-.... ( -34.20, z-score =  -1.83, R)
>droEre2.scaffold_4690 17515232 94 - 18748788
GGCCAGAGAUAGUGCUCUACUCUACUUUGGCCAAUCUCUGAGUGCGAUCGGAUCAGGUUCGCCUCUAGGCAG-----------------AUGGCCAACAGAGGUUUCCUGG
((((((((.(((.(.....).)))))))))))....(((((......))))).((((...((((((.(((..-----------------...)))...))))))..)))). ( -37.70, z-score =  -2.32, R)
>consensus
GGCCAGAGAUAAUGCUCU_____ACUUUGGCCAAUCUCUGAAUGAGAUCGGAACAGUUGCCUCCCGAGGCAGAUUCAAUUGAC____UAAUGGCCAAAAAGGAUUCACUGG
((((((((................))))))))....(((((......))))).((((....(((...(((......................))).....)))...)))). (-21.34 = -20.90 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:34 2011