Locus 8523

Sequence ID dm3.chr3L
Location 24,428,815 – 24,428,878
Length 63
Max. P 0.814916
window11709 window11710

overview

Window 9

Location 24,428,815 – 24,428,878
Length 63
Sequences 3
Columns 64
Reading direction forward
Mean pairwise identity 70.16
Shannon entropy 0.42514
G+C content 0.62448
Mean single sequence MFE -23.70
Consensus MFE -16.92
Energy contribution -17.27
Covariance contribution 0.34
Combinations/Pair 1.33
Mean z-score -1.24
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.796463
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 24428815 63 + 24543557
-UUUUGCCCUCUAGACUUCUGGCUGCCGAGGGGGUUUCGACGGGGGAUCGCCGAGGAUGAAUGG
-.(((..((((..((((((((...(((.....))).....)))))).))...))))..)))... ( -16.80, z-score =   1.52, R)
>droYak2.chrX_random 1719670 54 + 1802292
----------CUAAACCUCCGGUUGUCGAGAGGGUUUCGGCGGGGGACCGCCGAGGGUAAAUGC
----------.....((((((.....)).)))).(((((((((....)))))))))........ ( -25.70, z-score =  -3.05, R)
>droSec1.super_169 27093 64 - 36148
UCUCGGCUCUCUAUGGCUCUGGUUGUCGAGGCGGCUUUGGCGGGGGACCGCCGAGGGUAAAUGC
(((((((...(((......)))..)))))))...(((((((((....)))))))))........ ( -28.60, z-score =  -2.18, R)
>consensus
__U__GC_CUCUAAACCUCUGGUUGUCGAGGGGGUUUCGGCGGGGGACCGCCGAGGGUAAAUGC
...............(((((.(....).))))).(((((((((....)))))))))........ (-16.92 = -17.27 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 24,428,815 – 24,428,878
Length 63
Sequences 3
Columns 64
Reading direction reverse
Mean pairwise identity 70.16
Shannon entropy 0.42514
G+C content 0.62448
Mean single sequence MFE -17.80
Consensus MFE -9.12
Energy contribution -9.57
Covariance contribution 0.45
Combinations/Pair 1.11
Mean z-score -1.98
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.78
SVM RNA-class probability 0.814916
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 24428815 63 - 24543557
CCAUUCAUCCUCGGCGAUCCCCCGUCGAAACCCCCUCGGCAGCCAGAAGUCUAGAGGGCAAAA-
..........((((((......))))))....((((((((........)))..))))).....- ( -16.60, z-score =  -0.93, R)
>droYak2.chrX_random 1719670 54 - 1802292
GCAUUUACCCUCGGCGGUCCCCCGCCGAAACCCUCUCGACAACCGGAGGUUUAG----------
..........(((((((....)))))))...((((.((.....)))))).....---------- ( -19.50, z-score =  -2.98, R)
>droSec1.super_169 27093 64 + 36148
GCAUUUACCCUCGGCGGUCCCCCGCCAAAGCCGCCUCGACAACCAGAGCCAUAGAGAGCCGAGA
.........(((((((((.....)))......(.(((........))).).......)))))). ( -17.30, z-score =  -2.03, R)
>consensus
GCAUUUACCCUCGGCGGUCCCCCGCCGAAACCCCCUCGACAACCAGAGGUAUAGAG_GC__A__
..........((((((......))))))......(((........)))................ ( -9.12 =  -9.57 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:47:14 2011