Locus 5604

Sequence ID dm3.chr3LHet
Location 1,848,829 – 1,848,927
Length 98
Max. P 0.994487
window7697 window7698

overview

Window 7

Location 1,848,829 – 1,848,924
Length 95
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.33
Shannon entropy 0.42020
G+C content 0.51689
Mean single sequence MFE -37.80
Consensus MFE -25.76
Energy contribution -26.28
Covariance contribution 0.52
Combinations/Pair 1.27
Mean z-score -2.53
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.71
SVM RNA-class probability 0.994487
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1848829 95 + 2555491
------------ACAGAUUGCCGACGGUCGAGUACGGGUUCGAAGGCAGCUCAGCGGCUACGAUACACUGGCU-GUCGAGCGGUUGGGUUGAUGUUCGAACAAAUUGU------------
------------((((....(((((......)).)))(((((((.((((((((((.(((.(((((.......)-))))))).))))))))).).)))))))...))))------------ ( -38.20, z-score =  -2.94, R)
>droEre2.scaffold_4929 24406137 95 + 26641161
------------ACGGCUUGCCGACGGCCAAGUUCGAGUUCGAGUACAGCUCAAUAGCGACGAUCCACUGGCGUGUCUAGCUGUUGGGCUGAUGU-CGAACAAGUUGC------------
------------.(((((((.(((((......((((....))))..((((((((((((((((..((...))..))))..)))))))))))).)))-))..))))))).------------ ( -37.50, z-score =  -2.08, R)
>droYak2.chrX_random 1450020 96 - 1802292
------------ACAGAUCGCUGACGGUUUAAUUCAAAUUCGAAGGCAACUCAACAGCGACGAUACACUGGCGUGUCUAGCGGUUGGGUUGAUGUUCGAACAAGUUGC------------
------------..((((((....))))))........((((((.((((((((((.((...(((((......)))))..)).))))))))).).))))))........------------ ( -30.50, z-score =  -2.04, R)
>droSec1.super_65 166774 120 + 171001
UAUAACCAAAUUACGGAUUGCCGACGGUCGAGUACAAUUUCGAAAGCAGCUCAACGGCUACGAUACACUGGCGUGUCGAGCGGUUGGGUUGAUGUUCGAACAGAUUGCCGACGAUCGAGU
.............(((....))).((((((....((((((((((..(((((((((.(((.((((((......))))))))).)))))))))...)))))...)))))....))))))... ( -45.90, z-score =  -3.57, R)
>droSim1.chr2h_random 560874 106 - 3178526
UAUAACCAAAUUACGGAUUGCCGACGGUUGAGUGUGGGUUCGAGAGCAGCUCAACGGCUACGACACACUGGC--GUCGAGCGGUUGUGUUGAUGUUCGAACAAAUUGU------------
.....(((.....(((....)))((......)).)))(((((((..((((.((((.(((.((((.(....).--))))))).)))).))))...))))))).......------------ ( -36.90, z-score =  -2.04, R)
>consensus
____________ACGGAUUGCCGACGGUCGAGUACGAGUUCGAAAGCAGCUCAACGGCUACGAUACACUGGCGUGUCGAGCGGUUGGGUUGAUGUUCGAACAAAUUGC____________
.............(((....)))..............(((((((..(((((((((.(((.((((..........))))))).)))))))))...)))))))................... (-25.76 = -26.28 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 1,848,829 – 1,848,927
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.82
Shannon entropy 0.41939
G+C content 0.52282
Mean single sequence MFE -38.42
Consensus MFE -25.76
Energy contribution -26.28
Covariance contribution 0.52
Combinations/Pair 1.27
Mean z-score -2.23
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.20
SVM RNA-class probability 0.985472
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1848829 98 + 2555491
---------ACAGAUUGCCGACGGUCGAGUACGGGUUCGAAGGCAGCUCAGCGGCUACGAUACACUGGCU-GUCGAGCGGUUGGGUUGAUGUUCGAACAAAUUGUGCU------------
---------...(((((....))))).((((((.(((((((.((((((((((.(((.(((((.......)-))))))).))))))))).).)))))))....))))))------------ ( -40.60, z-score =  -3.05, R)
>droEre2.scaffold_4929 24406137 98 + 26641161
---------ACGGCUUGCCGACGGCCAAGUUCGAGUUCGAGUACAGCUCAAUAGCGACGAUCCACUGGCGUGUCUAGCUGUUGGGCUGAUGU-CGAACAAGUUGCACU------------
---------.(((((((.(((((......((((....))))..((((((((((((((((..((...))..))))..)))))))))))).)))-))..)))))))....------------ ( -37.50, z-score =  -1.77, R)
>droYak2.chrX_random 1450020 99 - 1802292
---------ACAGAUCGCUGACGGUUUAAUUCAAAUUCGAAGGCAACUCAACAGCGACGAUACACUGGCGUGUCUAGCGGUUGGGUUGAUGUUCGAACAAGUUGCGCU------------
---------......(((.(((((......))...((((((.((((((((((.((...(((((......)))))..)).))))))))).).))))))...))))))..------------ ( -31.20, z-score =  -1.62, R)
>droSec1.super_65 166777 120 + 171001
AACCAAAUUACGGAUUGCCGACGGUCGAGUACAAUUUCGAAAGCAGCUCAACGGCUACGAUACACUGGCGUGUCGAGCGGUUGGGUUGAUGUUCGAACAGAUUGCCGACGAUCGAGUACA
..........(((....))).((((((....((((((((((..(((((((((.(((.((((((......))))))))).)))))))))...)))))...)))))....))))))...... ( -45.90, z-score =  -3.33, R)
>droSim1.chr2h_random 560877 106 - 3178526
AACCAAAUUACGGAUUGCCGACGGUUGAGUGUGGGUUCGAGAGCAGCUCAACGGCUACGACACACUGGC--GUCGAGCGGUUGUGUUGAUGUUCGAACAAAUUGUGCU------------
..(((.....(((....)))((......)).)))(((((((..((((.((((.(((.((((.(....).--))))))).)))).))))...)))))))..........------------ ( -36.90, z-score =  -1.37, R)
>consensus
_________ACGGAUUGCCGACGGUCGAGUACGAGUUCGAAAGCAGCUCAACGGCUACGAUACACUGGCGUGUCGAGCGGUUGGGUUGAUGUUCGAACAAAUUGCGCU____________
..........(((....)))..............(((((((..(((((((((.(((.((((..........))))))).)))))))))...)))))))...................... (-25.76 = -26.28 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:51:37 2011