Locus 8566

Sequence ID dm3.chr3RHet
Location 759,520 – 759,616
Length 96
Max. P 0.898914
window11769 window11770

overview

Window 9

Location 759,520 – 759,616
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 52.84
Shannon entropy 0.66421
G+C content 0.49774
Mean single sequence MFE -17.97
Consensus MFE -11.66
Energy contribution -9.68
Covariance contribution -1.98
Combinations/Pair 1.67
Mean z-score -0.31
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.810128
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 759520 96 + 2517507
GCCCUACCCUACCUAAGACCACUUUCCUUAAGAGCAUGGCUCUAGUGGUCCCUUUCUGCACCCUACGUCCGGAAAAACAUCAGCCGAGUCAGUAUA
((..............(((((((.......(((((...))))))))))))..((((((.((.....)).)))))).......))............ ( -19.11, z-score =  -0.50, R)
>droYak2.chr2L_random 1704470 78 - 4064425
-------------UACGAUACCCUGCUGCUAGAGCAUGGCUUUGGUGAUCCCAUUGAUCACCCUACGACAGCGAUAAUAUCAGUUAAGUUA-----
-------------...((((...((((((.(((((...)))))(((((((.....)))))))....).)))))....))))..........----- ( -19.80, z-score =  -1.95, R)
>droAna3.scaffold_12928 120838 88 - 771024
----AACCCUACC-AUGGCCACAGGCAG-AAGAGUGUGACUCUCGUGGCCCCUUUUCCCCCGUUACACCCGAGGAUACAUUUGCGAAGUUAGUU--
----....(((.(-..((((((.....(-(.(((.....))))))))))).......((.((.......)).)).............).)))..-- ( -15.00, z-score =   1.51, R)
>consensus
_____ACCCUACCUAAGACCACAUGCAG_AAGAGCAUGGCUCUAGUGGUCCCUUUCACCACCCUACGACCGAGAAAACAUCAGCCAAGUUAGU___
................(((((((.......(((((...))))))))))))..((((((...........))))))..................... (-11.66 =  -9.68 +  -1.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 759,520 – 759,616
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 52.84
Shannon entropy 0.66421
G+C content 0.49774
Mean single sequence MFE -26.30
Consensus MFE -14.11
Energy contribution -12.68
Covariance contribution -1.43
Combinations/Pair 1.61
Mean z-score -0.88
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.14
SVM RNA-class probability 0.898914
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 759520 96 - 2517507
UAUACUGACUCGGCUGAUGUUUUUCCGGACGUAGGGUGCAGAAAGGGACCACUAGAGCCAUGCUCUUAAGGAAAGUGGUCUUAGGUAGGGUAGGGC
....((.((((.(((..(((...(((.......))).)))....((((((((((((((...))))).......))))))))).))).)))).)).. ( -27.11, z-score =   0.04, R)
>droYak2.chr2L_random 1704470 78 + 4064425
-----UAACUUAACUGAUAUUAUCGCUGUCGUAGGGUGAUCAAUGGGAUCACCAAAGCCAUGCUCUAGCAGCAGGGUAUCGUA-------------
-----..........((((((...(((((..((((((((((.....)))))))..(((...)))))))))))..))))))...------------- ( -23.70, z-score =  -2.07, R)
>droAna3.scaffold_12928 120838 88 + 771024
--AACUAACUUCGCAAAUGUAUCCUCGGGUGUAACGGGGGAAAAGGGGCCACGAGAGUCACACUCUU-CUGCCUGUGGCCAU-GGUAGGGUU----
--....((((..((.......(((((.(......).))))).....(((((((((((.....)))))-......))))))..-.))..))))---- ( -28.10, z-score =  -0.60, R)
>consensus
___ACUAACUUAGCUGAUGUUUUCCCGGACGUAGGGUGAAAAAAGGGACCACCAGAGCCAUGCUCUU_CAGCAAGUGGUCAUAGGUAGGGU_____
.....................((((((.......))))))......((((((((((((...))))).......)))))))................ (-14.11 = -12.68 +  -1.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:48:02 2011