Locus 6620

Sequence ID dm3.chr3L
Location 8,282,963 – 8,283,053
Length 90
Max. P 0.807912
window9114 window9115

overview

Window 4

Location 8,282,963 – 8,283,053
Length 90
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 67.38
Shannon entropy 0.56533
G+C content 0.44653
Mean single sequence MFE -27.86
Consensus MFE -11.62
Energy contribution -11.86
Covariance contribution 0.24
Combinations/Pair 1.39
Mean z-score -1.38
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.550730
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 8282963 90 + 24543557
AUGGUCUGACGACCGACGGUUCCUUCGAUAAGUCGUUACGCUAUCGAUGUCUUACUCUCGAUAGUUGUCAGAAGUGCCUUUUUCUUCUUC-------------------------
....((((((((((((.(((....((((((.((......))))))))......))).)))...)))))))))..................------------------------- ( -22.40, z-score =  -0.83, R)
>droSim1.chr3L 7742235 104 + 22553184
AUGGCCUGGCGACCGACGGUUCCUUCGAUAAGUCGUUAAGUUAUCGAUGUCUUACUUUCGAUAGUUGGCGAUAGUGUCUUUUUGCUAGUUUUUGUUUCUCCAUC-----------
.....(((((((..((.(....).))((((.((((((((.(((((((..........)))))))))))))))..))))...)))))))................----------- ( -25.10, z-score =  -0.97, R)
>droSec1.super_0 563775 104 + 21120651
AUGGCCUGGCGACCGACGGUUCCUUCGAUAAGUCCUUAAGUUAUCGAUGUCUUACUUUCGAUAGUUGGCGAUAGUGUCUUUUAGCCAGGUUAAGUUUCUCCUCC-----------
.(((((((((...(((.(((....(((((((.(.....).)))))))......))).))).(((..((((....))))..))))))))))))............----------- ( -29.40, z-score =  -1.71, R)
>droYak2.chr3L 20581374 114 - 24197627
AUGGGCUGGCCACCCUCGAUAGUUUCGAUACAUUAACGAGCUAUCGA-AUUUUACUAUCGAUAGUUGGCGGAAGUGACUUUUUGCGAAGUUACGUUAAAUUGGAGAUUCUUCUUC
...(((..(((((..((((((((((((((((........).))))))-)....))))))))..).))))....((((((((....))))))))))).....(((((....))))) ( -32.10, z-score =  -2.08, R)
>droEre2.scaffold_4784 20008308 102 - 25762168
AUGGGCUGACGGCCGUCGAUAGUUUCGAUAAGUUGACGAGCUAUCGAUGUUGUACUUUCGAUAGUUGGCGGAAGUGCCUUCUUGCGAACUUUCUUUUUCCUC-------------
..(((...(((((.((((((((((((((....))))..)))))))))))))))......((.((((.(((((((...)))).))).)))).))....)))..------------- ( -30.30, z-score =  -1.29, R)
>consensus
AUGGCCUGGCGACCGACGGUUCCUUCGAUAAGUCGUUAAGCUAUCGAUGUCUUACUUUCGAUAGUUGGCGGAAGUGCCUUUUUGCGAAGUUACGUUUCUCC______________
......(((((((...(((.....)))....)))))))(((((((((..........)))))))))((((....))))..................................... (-11.62 = -11.86 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 8,282,963 – 8,283,053
Length 90
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 67.38
Shannon entropy 0.56533
G+C content 0.44653
Mean single sequence MFE -23.50
Consensus MFE -10.74
Energy contribution -11.22
Covariance contribution 0.48
Combinations/Pair 1.26
Mean z-score -1.49
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.75
SVM RNA-class probability 0.807912
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 8282963 90 - 24543557
-------------------------GAAGAAGAAAAAGGCACUUCUGACAACUAUCGAGAGUAAGACAUCGAUAGCGUAACGACUUAUCGAAGGAACCGUCGGUCGUCAGACCAU
-------------------------............((....((((((..(((((((..........))))))).....((((...((....))...))))...)))))))).. ( -23.90, z-score =  -1.80, R)
>droSim1.chr3L 7742235 104 - 22553184
-----------GAUGGAGAAACAAAAACUAGCAAAAAGACACUAUCGCCAACUAUCGAAAGUAAGACAUCGAUAACUUAACGACUUAUCGAAGGAACCGUCGGUCGCCAGGCCAU
-----------(((((........................(((.(((........))).)))....(.(((((((.........))))))).)...)))))((((....)))).. ( -20.90, z-score =  -1.48, R)
>droSec1.super_0 563775 104 - 21120651
-----------GGAGGAGAAACUUAACCUGGCUAAAAGACACUAUCGCCAACUAUCGAAAGUAAGACAUCGAUAACUUAAGGACUUAUCGAAGGAACCGUCGGUCGCCAGGCCAU
-----------.(((......)))..((((((.....((((((.(((........))).)))..(((.(((((((.........))))))).(....)))).))))))))).... ( -24.60, z-score =  -1.07, R)
>droYak2.chr3L 20581374 114 + 24197627
GAAGAAGAAUCUCCAAUUUAACGUAACUUCGCAAAAAGUCACUUCCGCCAACUAUCGAUAGUAAAAU-UCGAUAGCUCGUUAAUGUAUCGAAACUAUCGAGGGUGGCCAGCCCAU
......................((.((((......)))).))....((((.((.((((((((....(-((((((.(........)))))))))))))))).))))))........ ( -25.30, z-score =  -1.82, R)
>droEre2.scaffold_4784 20008308 102 + 25762168
-------------GAGGAAAAAGAAAGUUCGCAAGAAGGCACUUCCGCCAACUAUCGAAAGUACAACAUCGAUAGCUCGUCAACUUAUCGAAACUAUCGACGGCCGUCAGCCCAU
-------------((.((.........(((....)))(((......)))..(((((((..........))))))).)).))......((((.....)))).(((.....)))... ( -22.80, z-score =  -1.31, R)
>consensus
______________AGAGAAACGAAAACUAGCAAAAAGACACUUCCGCCAACUAUCGAAAGUAAGACAUCGAUAGCUUAACGACUUAUCGAAGGAACCGUCGGUCGCCAGCCCAU
.....................................((((((..((........))..)))......(((((((.........))))))).......)))((((....)))).. (-10.74 = -11.22 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:11:19 2011