Locus 4779

Sequence ID dm3.chr2R
Location 15,625,281 – 15,625,350
Length 69
Max. P 0.947391
window6564 window6565

overview

Window 4

Location 15,625,281 – 15,625,350
Length 69
Sequences 3
Columns 69
Reading direction forward
Mean pairwise identity 78.74
Shannon entropy 0.29279
G+C content 0.50725
Mean single sequence MFE -19.23
Consensus MFE -18.61
Energy contribution -17.40
Covariance contribution -1.21
Combinations/Pair 1.39
Mean z-score -1.38
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947391
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15625281 69 + 21146708
CUAAGUACUAACCGCGCCCGACGCUGCUUAAUUUCGGUGAUCGGACGAGAACCGAUGUAUUCAGCGUGG
.................((.((((((..((...(((((..((....))..)))))..))..)))))))) ( -21.30, z-score =  -1.64, R)
>anoGam1.chr2L 13363180 69 + 48795086
CUAAGUACUAGCCAUGCCCGAUGUUGCUUAACUUCGGUGAUCGGACGAGAACCGGUGUUUUCAACAUGG
.................((.((((((...(((.(((((..((....))..))))).)))..)))))))) ( -17.70, z-score =  -0.91, R)
>apiMel3.GroupUn 327590624 69 - 399230636
UCAAGUAUUAACCGUGCCCGACGUAGCUUGACUUUGGUGAUCGAACGAGAACCAGUAGUUCCUACGUGG
....((((.....))))((.((((((...(((((((((..((....))..))))).)))).)))))))) ( -18.70, z-score =  -1.60, R)
>consensus
CUAAGUACUAACCGUGCCCGACGUUGCUUAACUUCGGUGAUCGGACGAGAACCGGUGUUUUCAACGUGG
.................((.((((((...(((.(((((..((....))..))))).)))..)))))))) (-18.61 = -17.40 +  -1.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,625,281 – 15,625,350
Length 69
Sequences 3
Columns 69
Reading direction reverse
Mean pairwise identity 78.74
Shannon entropy 0.29279
G+C content 0.50725
Mean single sequence MFE -16.31
Consensus MFE -16.10
Energy contribution -14.33
Covariance contribution -1.77
Combinations/Pair 1.29
Mean z-score -0.50
Structure conservation index 0.99
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.629204
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15625281 69 - 21146708
CCACGCUGAAUACAUCGGUUCUCGUCCGAUCACCGAAAUUAAGCAGCGUCGGGCGCGGUUAGUACUUAG
((((((((......(((((..((....))..))))).......)))))).))................. ( -18.82, z-score =  -0.90, R)
>anoGam1.chr2L 13363180 69 - 48795086
CCAUGUUGAAAACACCGGUUCUCGUCCGAUCACCGAAGUUAAGCAACAUCGGGCAUGGCUAGUACUUAG
((((((.........(((.......)))....((((.(((....))).))))))))))........... ( -16.20, z-score =  -0.97, R)
>apiMel3.GroupUn 327590624 69 + 399230636
CCACGUAGGAACUACUGGUUCUCGUUCGAUCACCAAAGUCAAGCUACGUCGGGCACGGUUAAUACUUGA
((((((((..(((..((((..((....))..)))).)))....)))))).))................. ( -13.90, z-score =   0.36, R)
>consensus
CCACGUUGAAAACACCGGUUCUCGUCCGAUCACCGAAGUUAAGCAACGUCGGGCACGGUUAGUACUUAG
((((((((.......((((..((....))..))))........)))))).))................. (-16.10 = -14.33 +  -1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:35:50 2011