Locus 15660

Sequence ID dm3.chrX
Location 20,262,186 – 20,262,337
Length 151
Max. P 0.954877
window21585 window21586

overview

Window 5

Location 20,262,186 – 20,262,297
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 92.79
Shannon entropy 0.09928
G+C content 0.33634
Mean single sequence MFE -27.77
Consensus MFE -22.53
Energy contribution -23.20
Covariance contribution 0.67
Combinations/Pair 1.06
Mean z-score -2.78
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.61
SVM RNA-class probability 0.954877
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20262186 111 - 22422827
UUGAAGUGCGAAUUCAUAUUUGAUCACUCAUUGAAUUAUUGCUGUUUCAAAAGUAAUAAUUCAAGUACAGCCUAAAGCUAUAAGGUGACGUCACUGUCAUAUAGAACAACA
.(((((((((...(((....)))(((((..(((((((((((((........)))))))))))))....(((.....)))....))))))).)))).)))............ ( -27.00, z-score =  -2.65, R)
>droSim1.chrX 15544003 111 - 17042790
UCUAGGUGAGAAUUCAUAUUUGAUCGCUCAUCGGUUAAUUGCUGUUUCAAAAAUAAUAAUUCAAGUACAGCAUAAAGCUAUAAGGUGACGUCACUGUCAUAUAGAACAACA
((((((((((...(((....)))...))))))((((...((((((.....................))))))...)))).....((((((....)))))).))))...... ( -25.40, z-score =  -2.44, R)
>droSec1.super_8 2455859 111 - 3762037
UCUAGGUGAGAAUUCAUAUUUGAUCGCUCAUCGGAUUAUUGCUGUUUCAAAAGUAAUAAUUCAAGUACAGCAUAAAGCUAUGAGGUGACGUCACUGUCAUAUAGAACAACA
((((((((((...(((....)))...))))))(((((((((((........)))))))))))......(((.....)))((((((((....)))).)))).))))...... ( -30.90, z-score =  -3.24, R)
>consensus
UCUAGGUGAGAAUUCAUAUUUGAUCGCUCAUCGGAUUAUUGCUGUUUCAAAAGUAAUAAUUCAAGUACAGCAUAAAGCUAUAAGGUGACGUCACUGUCAUAUAGAACAACA
....((((((...(((....)))...))))))(((((((((((........)))))))))))..((.((((.....))).....((((((....))))))...).)).... (-22.53 = -23.20 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,262,218 – 20,262,337
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 89.92
Shannon entropy 0.13890
G+C content 0.30532
Mean single sequence MFE -28.52
Consensus MFE -22.20
Energy contribution -22.87
Covariance contribution 0.67
Combinations/Pair 1.07
Mean z-score -2.40
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.878453
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20262218 119 - 22422827
UGAAUUCUUGAUAAGAAACAUCAUUGGAUUUGAAGGCUGAUUGAAGUGCGAAUUCAUAUUUGAUCACUCAUUGAAUUAUUGCUGUUUCAAAAGUAAUAAUUCAAGUACAGCCUAAAGCU
.((((((.((((.......))))..))))))..((((((..(((.((((((((....)))))..))))))(((((((((((((........)))))))))))))...))))))...... ( -33.10, z-score =  -3.40, R)
>droSim1.chrX 15544035 119 - 17042790
UGAAUUCUUUAUAAUAAACUUCAAUGGAUUUUAAGGCUGCUCUAGGUGAGAAUUCAUAUUUGAUCGCUCAUCGGUUAAUUGCUGUUUCAAAAAUAAUAAUUCAAGUACAGCAUAAAGCU
.((((((..................))))))...((((......((((((...(((....)))...)))))).......((((((.....................))))))...)))) ( -20.27, z-score =  -0.15, R)
>droSec1.super_8 2455891 119 - 3762037
UGAAUUCUUUAUAAUAAACUUUAUUGGAUUUUAAGGCUGCUCUAGGUGAGAAUUCAUAUUUGAUCGCUCAUCGGAUUAUUGCUGUUUCAAAAGUAAUAAUUCAAGUACAGCAUAAAGCU
((((.(((..((((......)))).))).))))..((((..((.((((((...(((....)))...))))))(((((((((((........))))))))))).))..))))........ ( -32.20, z-score =  -3.65, R)
>consensus
UGAAUUCUUUAUAAUAAACUUCAUUGGAUUUUAAGGCUGCUCUAGGUGAGAAUUCAUAUUUGAUCGCUCAUCGGAUUAUUGCUGUUUCAAAAGUAAUAAUUCAAGUACAGCAUAAAGCU
.((((((..................))))))....((((.....((((((...(((....)))...))))))(((((((((((........))))))))))).....))))........ (-22.20 = -22.87 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:03:33 2011