Locus 1998

Sequence ID dm3.chr2L
Location 15,407,470 – 15,407,569
Length 99
Max. P 0.754364
window2747 window2748

overview

Window 7

Location 15,407,470 – 15,407,569
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 93.23
Shannon entropy 0.12323
G+C content 0.51919
Mean single sequence MFE -33.42
Consensus MFE -30.16
Energy contribution -30.72
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -1.56
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.754364
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15407470 99 + 23011544
CUUUCGAGGUUGGGGAAAAUGGGGACCUCUCCUGCCAUCAAUAGAUGCCCCCAAUCCCUUCUGAAUUCACCCUGAUACCUCCUAUCGGGUAUCAGGCUU
.....(.((((((((.....((((....))))...((((....)))).)))))))).)............((((((((((......))))))))))... ( -35.90, z-score =  -2.18, R)
>droSim1.chr2L 15166865 99 + 22036055
CUGUGGAGGUUGGGGAAAAUGGGGACCUCUCCUGCCAUCAAUAGAUGCCCCCAAUCCCUUCUGAAUUCACCCUGAUACCUCCUAUCGGGUAUCAGGCUU
....((.((((((((.....((((....))))...((((....)))).))))))))))............((((((((((......))))))))))... ( -38.70, z-score =  -2.23, R)
>droSec1.super_3 1667507 99 + 7220098
CUGUCGAGGUUGGGGAAAAUGGGGACCUCUUCUGCCAUCAAUAGAUGCCCCCAAUCCCUUCUGAAUUCACCCUGAUACCUCCUAUCGGGUAUCAGGCUU
.....(((...(((((...(((((.(.(((..((....))..))).).))))).)))))......)))..((((((((((......))))))))))... ( -34.00, z-score =  -1.49, R)
>droYak2.chr2L 2406302 99 - 22324452
CUGUCGAUGUUGGUGAAAAUGGGGAACUUUCCUGCCAUCAAUAGAUGCCCCCAAUCCCUUUUGAAUUCACCCUGAUACCCCCUAUCAGGUAUCGGGCUU
((((.((((..((.(((...((....)))))))..)))).))))..((((.(((......))).......(((((((.....)))))))....)))).. ( -26.40, z-score =  -0.84, R)
>droEre2.scaffold_4929 7157232 99 + 26641161
CUGUCGAGGUUGGGGAAAAUGGGGUCCUCUCCUGCCAUCAAUAGAUGCCCCCAAUCCCGUCCGAAUUCGCCCUGAUACCUCCUAUCGGGUAUCCAGCUU
..(.((.((((((((.....((((....))))...((((....)))).)))))))).)).).......((...(((((((......)))))))..)).. ( -32.10, z-score =  -1.04, R)
>consensus
CUGUCGAGGUUGGGGAAAAUGGGGACCUCUCCUGCCAUCAAUAGAUGCCCCCAAUCCCUUCUGAAUUCACCCUGAUACCUCCUAUCGGGUAUCAGGCUU
.....(.((((((((.....((((....))))...((((....)))).)))))))).)............((((((((((......))))))))))... (-30.16 = -30.72 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 15,407,470 – 15,407,569
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 93.23
Shannon entropy 0.12323
G+C content 0.51919
Mean single sequence MFE -36.02
Consensus MFE -31.68
Energy contribution -32.72
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -1.60
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.703451
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15407470 99 - 23011544
AAGCCUGAUACCCGAUAGGAGGUAUCAGGGUGAAUUCAGAAGGGAUUGGGGGCAUCUAUUGAUGGCAGGAGAGGUCCCCAUUUUCCCCAACCUCGAAAG
...((((((((((.....).))))))))).....(((((..((((.(((((((.(((.(((....))).))).)))))))...))))....)).))).. ( -38.50, z-score =  -2.07, R)
>droSim1.chr2L 15166865 99 - 22036055
AAGCCUGAUACCCGAUAGGAGGUAUCAGGGUGAAUUCAGAAGGGAUUGGGGGCAUCUAUUGAUGGCAGGAGAGGUCCCCAUUUUCCCCAACCUCCACAG
...((((((((((.....).)))))))))(((.........((((.(((((((.(((.(((....))).))).)))))))...)))).......))).. ( -39.19, z-score =  -2.00, R)
>droSec1.super_3 1667507 99 - 7220098
AAGCCUGAUACCCGAUAGGAGGUAUCAGGGUGAAUUCAGAAGGGAUUGGGGGCAUCUAUUGAUGGCAGAAGAGGUCCCCAUUUUCCCCAACCUCGACAG
...((((((((((.....).)))))))))............((((.(((((((.(((.(((....))).))).)))))))...))))............ ( -38.20, z-score =  -2.30, R)
>droYak2.chr2L 2406302 99 + 22324452
AAGCCCGAUACCUGAUAGGGGGUAUCAGGGUGAAUUCAAAAGGGAUUGGGGGCAUCUAUUGAUGGCAGGAAAGUUCCCCAUUUUCACCAACAUCGACAG
..(((((((((((......))))))).))))..........((((.((((((((((....))))((......))))))))...)).))........... ( -31.10, z-score =  -1.17, R)
>droEre2.scaffold_4929 7157232 99 - 26641161
AAGCUGGAUACCCGAUAGGAGGUAUCAGGGCGAAUUCGGACGGGAUUGGGGGCAUCUAUUGAUGGCAGGAGAGGACCCCAUUUUCCCCAACCUCGACAG
..(((.(((((((.....).))))))..)))......((..((((.(((((...(((.(((....))).)))...)))))...))))...))....... ( -33.10, z-score =  -0.46, R)
>consensus
AAGCCUGAUACCCGAUAGGAGGUAUCAGGGUGAAUUCAGAAGGGAUUGGGGGCAUCUAUUGAUGGCAGGAGAGGUCCCCAUUUUCCCCAACCUCGACAG
...(((((((((........)))))))))............((((.(((((((.(((.(((....))).))).)))))))...))))............ (-31.68 = -32.72 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:42:49 2011