Locus 102

Sequence ID dm3.chr2L
Location 734,357 – 734,439
Length 82
Max. P 0.975206
window148 window149

overview

Window 8

Location 734,357 – 734,439
Length 82
Sequences 5
Columns 83
Reading direction forward
Mean pairwise identity 67.68
Shannon entropy 0.58456
G+C content 0.36293
Mean single sequence MFE -18.92
Consensus MFE -6.89
Energy contribution -6.57
Covariance contribution -0.32
Combinations/Pair 1.33
Mean z-score -1.87
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.767794
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 734357 82 + 23011544
GUUUA-AUUUGGUGGCAUUCAUUUCUAUCUCAUGCAUUUCCCAAUACUUUUUGUUCAAGUACAACUUGAGAUAGAUUGGCACU
.....-....((((.((......(((((((((((.((((..(((......)))...)))).))...))))))))).)).)))) ( -16.90, z-score =  -1.78, R)
>droAna3.scaffold_12916 1704486 65 + 16180835
----------------AUAAACUUCCAUCCAGAACUCACUCUGAUUUCCUCCAGUCUA-UAGAGUCU-AGAUGAAGUGGUACU
----------------....(((((.(((.(((.(((...(((........)))....-..))))))-.))))))))...... ( -13.10, z-score =  -0.62, R)
>droYak2.chr2L 717596 82 + 22324452
-UUUAUAUUUUGCGGCUAGAAUUUCUAUCUCAUUGAUUUCCCAAUAGUUUUUGUCCAAGUACAACUUGAGAUAGAUUGGCACU
-.............(((((....((((((((((((((((..(((......)))...)))).)))..))))))))))))))... ( -16.50, z-score =  -1.67, R)
>droSec1.super_14 706157 82 + 2068291
AUUUG-AUUUGGUGCCAUGAAUUUCUAUCUCAGGGUAAUCCCAAUAGUUUUUGUCCAAGUACAACUUGAGAUAGAUUGGCACU
.....-....(((((((......((((((((((((....)))........((((......))))..))))))))).))))))) ( -26.40, z-score =  -3.70, R)
>droSim1.chr2L 735948 82 + 22036055
AUUUG-AUUUGGUGGCAUGAAUUUCUAUCUCAGGGUAAUCCCAAUAGUUUUUGUCCAAGUACCACUUGAGAUAGAUUGGCACU
.....-....((((.((......((((((((((((((....(((......)))......)))).).))))))))).)).)))) ( -21.70, z-score =  -1.59, R)
>consensus
_UUUA_AUUUGGUGGCAUGAAUUUCUAUCUCAGGGUAAUCCCAAUAGUUUUUGUCCAAGUACAACUUGAGAUAGAUUGGCACU
.......................(((((((((.........(((......))).............)))))))))........ ( -6.89 =  -6.57 +  -0.32)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 734,357 – 734,439
Length 82
Sequences 5
Columns 83
Reading direction reverse
Mean pairwise identity 67.68
Shannon entropy 0.58456
G+C content 0.36293
Mean single sequence MFE -17.76
Consensus MFE -9.42
Energy contribution -8.42
Covariance contribution -1.00
Combinations/Pair 1.50
Mean z-score -1.69
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.92
SVM RNA-class probability 0.975206
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 734357 82 - 23011544
AGUGCCAAUCUAUCUCAAGUUGUACUUGAACAAAAAGUAUUGGGAAAUGCAUGAGAUAGAAAUGAAUGCCACCAAAU-UAAAC
.(((.((.(((((((((..((((......))))...(((((....))))).)))))))))......)).))).....-..... ( -16.80, z-score =  -2.06, R)
>droAna3.scaffold_12916 1704486 65 - 16180835
AGUACCACUUCAUCU-AGACUCUA-UAGACUGGAGGAAAUCAGAGUGAGUUCUGGAUGGAAGUUUAU----------------
......(((((((((-((((((..-....((((......))))...))).))))))).)))))....---------------- ( -16.70, z-score =  -0.57, R)
>droYak2.chr2L 717596 82 - 22324452
AGUGCCAAUCUAUCUCAAGUUGUACUUGGACAAAAACUAUUGGGAAAUCAAUGAGAUAGAAAUUCUAGCCGCAAAAUAUAAA-
........((((((((...((((......)))).....(((((....)))))))))))))......................- ( -13.70, z-score =  -0.82, R)
>droSec1.super_14 706157 82 - 2068291
AGUGCCAAUCUAUCUCAAGUUGUACUUGGACAAAAACUAUUGGGAUUACCCUGAGAUAGAAAUUCAUGGCACCAAAU-CAAAU
.((((((.(((((((((..((((......))))........(((....))))))))))))......)))))).....-..... ( -23.90, z-score =  -3.65, R)
>droSim1.chr2L 735948 82 - 22036055
AGUGCCAAUCUAUCUCAAGUGGUACUUGGACAAAAACUAUUGGGAUUACCCUGAGAUAGAAAUUCAUGCCACCAAAU-CAAAU
.(((....(((((((((((((((..((....))..))))))(((....))))))))))))....)))..........-..... ( -17.70, z-score =  -1.33, R)
>consensus
AGUGCCAAUCUAUCUCAAGUUGUACUUGGACAAAAACUAUUGGGAUAACCAUGAGAUAGAAAUUCAUGCCACCAAAU_CAAA_
........(((((((((((.....)))...(((......)))..........))))))))....................... ( -9.42 =  -8.42 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:06:43 2011