Locus 4793

Sequence ID dm3.chr2R
Location 15,648,520 – 15,648,626
Length 106
Max. P 0.979581
window6584 window6585

overview

Window 4

Location 15,648,520 – 15,648,626
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 67.33
Shannon entropy 0.42841
G+C content 0.49744
Mean single sequence MFE -29.57
Consensus MFE -23.34
Energy contribution -22.47
Covariance contribution -0.87
Combinations/Pair 1.46
Mean z-score -1.79
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.03
SVM RNA-class probability 0.979581
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15648520 106 + 21146708
ACAUCUAAGUACUAACCGCGUCCGACGCUGCUUAAUUUCGGUGAUCGGACGAGAACCGAUGUAUUCAGCGUGGUAUGGUCGUUGGCGAAAGUCGAGGGGCUAAACA
........((((((..((((((((((((((........))))).))))))(((.((....)).))).)))))))))(.((.(((((....))))).)).)...... ( -35.40, z-score =  -1.29, R)
>anoGam1.chrU 30828652 88 - 59568033
CCACCUAAGUACUAGCCAUGCCCGAUGUUGCUUAACUUCGGUGAUCGGACGAGAACCGGUGUUUUCAACAUGGUAUGGUCGUUGACAA------------------
........((....((((((((..((((((...(((.(((((..((....))..))))).)))..)))))))))))))).....))..------------------ ( -29.20, z-score =  -2.33, R)
>apiMel3.GroupUn 29499572 87 + 399230636
-CAUCCAAAUAUUAACCGUGCCCGACGCAGCUUGACUUUGCUGAUCGAACGAGAACCAAUAGUUCCUACGUGGUACGGUCGUUGAGCA------------------
-.............(((((((((((..((((........)))).))).(((.((((.....))))...))))))))))).........------------------ ( -24.10, z-score =  -1.75, R)
>consensus
_CAUCUAAGUACUAACCGUGCCCGACGCUGCUUAACUUCGGUGAUCGGACGAGAACCGAUGUUUUCAACGUGGUAUGGUCGUUGACAA__________________
..............((((((((..((((((...(((.(((((..((....))..))))).)))..))))))))))))))........................... (-23.34 = -22.47 +  -0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,648,520 – 15,648,626
Length 106
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 67.33
Shannon entropy 0.42841
G+C content 0.49744
Mean single sequence MFE -23.94
Consensus MFE -19.60
Energy contribution -18.72
Covariance contribution -0.88
Combinations/Pair 1.33
Mean z-score -0.59
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.548953
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15648520 106 - 21146708
UGUUUAGCCCCUCGACUUUCGCCAACGACCAUACCACGCUGAAUACAUCGGUUCUCGUCCGAUCACCGAAAUUAAGCAGCGUCGGACGCGGUUAGUACUUAGAUGU
.((((((((...((....(((....))).....((((((((......(((((..((....))..))))).......)))))).)).)).)))))).))........ ( -25.52, z-score =  -0.23, R)
>anoGam1.chrU 30828652 88 + 59568033
------------------UUGUCAACGACCAUACCAUGUUGAAAACACCGGUUCUCGUCCGAUCACCGAAGUUAAGCAACAUCGGGCAUGGCUAGUACUUAGGUGG
------------------......((..((((.((((((((..(((..((((..((....))..))))..)))...)))))).))..))))...)).......... ( -20.90, z-score =  -0.16, R)
>apiMel3.GroupUn 29499572 87 - 399230636
------------------UGCUCAACGACCGUACCACGUAGGAACUAUUGGUUCUCGUUCGAUCAGCAAAGUCAAGCUGCGUCGGGCACGGUUAAUAUUUGGAUG-
------------------........((((((........(((((.....))))).(((((((((((........)))).)))))))))))))............- ( -25.40, z-score =  -1.39, R)
>consensus
__________________UCGUCAACGACCAUACCACGUUGAAAACAUCGGUUCUCGUCCGAUCACCGAAGUUAAGCAGCGUCGGGCACGGUUAGUACUUAGAUG_
..........................((((((.((((((((......(((((..((....))..))))).......)))))).))..))))))............. (-19.60 = -18.72 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:36:06 2011