Locus 7283

Sequence ID dm3.chr3L
Location 13,637,947 – 13,638,121
Length 174
Max. P 0.776313
window10023 window10024

overview

Window 3

Location 13,637,947 – 13,638,050
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 80.94
Shannon entropy 0.26417
G+C content 0.43725
Mean single sequence MFE -24.67
Consensus MFE -15.92
Energy contribution -15.70
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.18
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.776313
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13637947 103 - 24543557
GCCGGAGGAUCCGGCUACGGAUUCGGAUUCAGGUUCAAAUUCAGAUUCCUGACUUGGCAAUAUUUCAAUCAAACUUUUUUUUUGCCACUCUACGGGGCGGCUG
(((((.(((((((....)))))))....(((((.((.......))..))))).))))).........................(((.(((....))).))).. ( -33.50, z-score =  -3.12, R)
>droYak2.chr3L 13732183 84 - 24197627
----------------GCAUAUAAGGAUUCAGGUUGAAAUUCAGAUUCCUGACUUGGCAAUAUUUCAAUCAAAC---UUUUUUGCCACUCUACGGGGCGGCUG
----------------...............(((((((((((((....)))).........)))))))))....---......(((.(((....))).))).. ( -20.40, z-score =  -1.81, R)
>droEre2.scaffold_4784 13640568 93 - 25762168
-------UAUUCGUAUUCGUAUUCGGAUUCAGGCUCAAAUUCAGAUUCCUGACUUGGCAAUAUUUCAAUCAAAC---UUUUUUGCCACUCUACGGGGCGGCUG
-------.....(.(((((....))))).)..((.(((..((((....)))).)))))................---......(((.(((....))).))).. ( -20.10, z-score =  -1.63, R)
>consensus
________AU_CG__UACGUAUUCGGAUUCAGGUUCAAAUUCAGAUUCCUGACUUGGCAAUAUUUCAAUCAAAC___UUUUUUGCCACUCUACGGGGCGGCUG
........................(((.....(((..((.((((....)))).))))).....))).................(((.(((....))).))).. (-15.92 = -15.70 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 13,638,011 – 13,638,121
Length 110
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 82.15
Shannon entropy 0.26096
G+C content 0.51356
Mean single sequence MFE -36.37
Consensus MFE -26.19
Energy contribution -26.63
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -1.85
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.721711
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13638011 110 - 24543557
CUGCGGCUCCUUGUGCGGCACGAAUCAAUUAAAAUACGUGCCGGGCAUUAGAAGAGUGCGGCGCAUAUACGGCCGGAGGAUCCGGCUACGGAUUCGGAUUCAGGUUCAAA
((((((((...(((((((((((.((........)).))))))..(((((.....)))))...)))))...)))))..(((((((....))))))).....)))....... ( -41.60, z-score =  -2.10, R)
>droYak2.chr3L 13732244 94 - 24197627
CUGCGGCUCCUUGUGCGGCACGAAUCAAUUAAAAUACGUGCCGGGCAUUAGAAGAGUGCGGCGCAU-------------AUGCG---GCAUAUAAGGAUUCAGGUUGAAA
....(..(((((((((((((((.((........)).))))))).(((((.....)))))(.(((..-------------..)))---.).))))))))..)......... ( -31.50, z-score =  -1.53, R)
>droEre2.scaffold_4784 13640629 105 - 25762168
CUGCGGCUCCUUGUGCGGCACGAAUCAAUUAAAAUACGUGCCGGGCAUUAGAAGAGUGCGGCGCAU-----GGAUUCGUAUUCGUAUUCGUAUUCGGAUUCAGGCUCAAA
(((((.(((..(((.(((((((.((........)).))))))).)))......)))))))).((.(-----(((((((....((....))....)))))))).))..... ( -36.00, z-score =  -1.92, R)
>consensus
CUGCGGCUCCUUGUGCGGCACGAAUCAAUUAAAAUACGUGCCGGGCAUUAGAAGAGUGCGGCGCAU_____G_____G_AUCCG__UACGUAUUCGGAUUCAGGUUCAAA
.(((.((.......)).))).(((((...........((((((.((.........)).))))))...............(((((....)))))...)))))......... (-26.19 = -26.63 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:23:56 2011