Locus 11594

Sequence ID dm3.chr3R
Location 22,332,558 – 22,332,631
Length 73
Max. P 0.992897
window15928 window15929

overview

Window 8

Location 22,332,558 – 22,332,631
Length 73
Sequences 8
Columns 81
Reading direction forward
Mean pairwise identity 92.74
Shannon entropy 0.13207
G+C content 0.39671
Mean single sequence MFE -22.31
Consensus MFE -20.01
Energy contribution -20.51
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.83
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.45
SVM RNA-class probability 0.991043
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22332558 73 + 27905053
UUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGC--------AUAUUUCAAUUGUUAAUCCAGC
...((((((((.....))))))))((.((((((((.......)))))))).--------)).................... ( -21.70, z-score =  -2.97, R)
>droPer1.super_0 1718368 81 + 11822988
UUAAUUGCCACAUUAUGUGGCACUGUUCCAUGUUGAUGCAUUCAACUUGGCGGCAUAGCAUAUUUCAAUUGUUAAUCCAGC
.....((((((.....)))))).(((((((.(((((.....))))).))).))))(((((.........)))))....... ( -21.70, z-score =  -1.45, R)
>dp4.chr2 7885592 81 + 30794189
UUAAUUGCCACAUUAUGUGGCACUGUUCCAAGUUGAUGCAUUCAACUUGGCGGCAUAGCAUAUUUCAAUUGUUAAUCCAGC
.....((((((.....)))))).(((((((((((((.....))))))))).))))(((((.........)))))....... ( -25.80, z-score =  -3.19, R)
>droAna3.scaffold_13340 1380591 73 - 23697760
UUAAUUGCCACAUUAUGUGGCUGUGUUCCAAGUUGAUGCGUUCAACUUGGC--------AUAUUUCAAUUGUUAAUCCAGC
.((((((((((.....))))).((((.(((((((((.....))))))))).--------))))...))))).......... ( -22.50, z-score =  -3.29, R)
>droEre2.scaffold_4820 4759850 73 - 10470090
UUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGC--------AUAUUUCAAUUGUUAAUCCAGC
...((((((((.....))))))))((.((((((((.......)))))))).--------)).................... ( -21.70, z-score =  -2.97, R)
>droYak2.chr3R 4678312 73 - 28832112
GUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGC--------AUAUUUCAAUUGUUAAUCCAGC
...((((((((.....))))))))((.((((((((.......)))))))).--------)).................... ( -21.70, z-score =  -2.84, R)
>droSec1.super_13 1124334 73 + 2104621
UUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGC--------AUAUUUCAAUUGUUAAUCCAGC
...((((((((.....))))))))((.((((((((.......)))))))).--------)).................... ( -21.70, z-score =  -2.97, R)
>droSim1.chr3R 22171246 73 + 27517382
UUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGC--------AUAUUUCAAUUGUUAAUCCAGC
...((((((((.....))))))))((.((((((((.......)))))))).--------)).................... ( -21.70, z-score =  -2.97, R)
>consensus
UUAAUUGCCACAUUAUGUGGCAGUGUUCCAAGUUGAUGCGUCCAACUUGGC________AUAUUUCAAUUGUUAAUCCAGC
...((((((((.....))))))))...((((((((.......))))))))............................... (-20.01 = -20.51 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 22,332,558 – 22,332,631
Length 73
Sequences 8
Columns 81
Reading direction reverse
Mean pairwise identity 92.74
Shannon entropy 0.13207
G+C content 0.39671
Mean single sequence MFE -20.69
Consensus MFE -20.08
Energy contribution -20.10
Covariance contribution 0.02
Combinations/Pair 1.07
Mean z-score -2.53
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.57
SVM RNA-class probability 0.992897
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22332558 73 - 27905053
GCUGGAUUAACAAUUGAAAUAU--------GCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAA
......................--------.(((((((((.....))))))))).....((((((.....))))))..... ( -20.30, z-score =  -2.73, R)
>droPer1.super_0 1718368 81 - 11822988
GCUGGAUUAACAAUUGAAAUAUGCUAUGCCGCCAAGUUGAAUGCAUCAACAUGGAACAGUGCCACAUAAUGUGGCAAUUAA
((((..................((...))..(((.(((((.....))))).)))..))))(((((.....)))))...... ( -19.40, z-score =  -0.64, R)
>dp4.chr2 7885592 81 - 30794189
GCUGGAUUAACAAUUGAAAUAUGCUAUGCCGCCAAGUUGAAUGCAUCAACUUGGAACAGUGCCACAUAAUGUGGCAAUUAA
((((..................((...))..(((((((((.....)))))))))..))))(((((.....)))))...... ( -23.50, z-score =  -2.31, R)
>droAna3.scaffold_13340 1380591 73 + 23697760
GCUGGAUUAACAAUUGAAAUAU--------GCCAAGUUGAACGCAUCAACUUGGAACACAGCCACAUAAUGUGGCAAUUAA
......................--------.(((((((((.....)))))))))......(((((.....)))))...... ( -21.10, z-score =  -3.44, R)
>droEre2.scaffold_4820 4759850 73 + 10470090
GCUGGAUUAACAAUUGAAAUAU--------GCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAA
......................--------.(((((((((.....))))))))).....((((((.....))))))..... ( -20.30, z-score =  -2.73, R)
>droYak2.chr3R 4678312 73 + 28832112
GCUGGAUUAACAAUUGAAAUAU--------GCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAC
......................--------.(((((((((.....))))))))).....((((((.....))))))..... ( -20.30, z-score =  -2.90, R)
>droSec1.super_13 1124334 73 - 2104621
GCUGGAUUAACAAUUGAAAUAU--------GCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAA
......................--------.(((((((((.....))))))))).....((((((.....))))))..... ( -20.30, z-score =  -2.73, R)
>droSim1.chr3R 22171246 73 - 27517382
GCUGGAUUAACAAUUGAAAUAU--------GCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAA
......................--------.(((((((((.....))))))))).....((((((.....))))))..... ( -20.30, z-score =  -2.73, R)
>consensus
GCUGGAUUAACAAUUGAAAUAU________GCCAAGUUGGACGCAUCAACUUGGAACACUGCCACAUAAUGUGGCAAUUAA
...............................(((((((((.....))))))))).....((((((.....))))))..... (-20.08 = -20.10 +   0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:45:52 2011