Locus 7333

Sequence ID dm3.chr3L
Location 13,995,198 – 13,995,270
Length 72
Max. P 0.971907
window10096 window10097

overview

Window 6

Location 13,995,198 – 13,995,270
Length 72
Sequences 6
Columns 72
Reading direction forward
Mean pairwise identity 77.96
Shannon entropy 0.42580
G+C content 0.45449
Mean single sequence MFE -22.18
Consensus MFE -11.40
Energy contribution -12.85
Covariance contribution 1.45
Combinations/Pair 1.19
Mean z-score -2.55
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.86
SVM RNA-class probability 0.971907
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13995198 72 + 24543557
UGGUCGAGCGAUAACGAUCUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUGGUCAGUCUCUAAUUUUUUA
.(((.((((((((......)))))))).))).(((.(((((((.(....).))))))..).)))........ ( -24.50, z-score =  -3.24, R)
>droWil1.scaffold_180698 5143054 71 - 11422946
UAGACGAG-AACAGUAUCCAAUACUUAUCGCAACUUUUGAGUAAUGUAAGACGGAAUGUAUCGAUAUUGUUA
........-(((((((((((.((((((..........)))))).)).......((.....))))))))))). ( -11.70, z-score =  -0.32, R)
>droSim1.chr3L 13350873 72 + 22553184
UGGUCGAGCGAUAACGAUGUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUGGUCAGUCUCUAAUUUUUUA
.(((.((((((((......)))))))).))).(((.(((((((.(....).))))))..).)))........ ( -24.30, z-score =  -3.07, R)
>droSec1.super_0 6141836 72 + 21120651
UGGUCGAGCGAUAACGAUCUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUGGUCAGUCUCUAAUUUUUUA
.(((.((((((((......)))))))).))).(((.(((((((.(....).))))))..).)))........ ( -24.50, z-score =  -3.24, R)
>droYak2.chr3L 14082883 72 + 24197627
UGGUCGAGCGAUAACGAUCUAUCGCCCCGAUGUAGUGUGACCGUCUUCGGUUGGUCAGUCGCUAAUUUUUUA
..((((.((((((......))))))..)))).(((((((((((.(....).))))))..)))))........ ( -24.80, z-score =  -2.81, R)
>droEre2.scaffold_4784 13987201 72 + 25762168
UGGUCGAGCGAUAAUGAUCUAUCGCCCCGCUGUAGUGUGACCGUCUUCGGUUGGUCAGUCGCUAAUUUUUUA
.(((.(.((((((......)))))).).))).(((((((((((.(....).))))))..)))))........ ( -23.30, z-score =  -2.63, R)
>consensus
UGGUCGAGCGAUAACGAUCUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUGGUCAGUCUCUAAUUUUUUA
((..(((((((((......))))))))...........(((((....))))))..))............... (-11.40 = -12.85 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 13,995,198 – 13,995,270
Length 72
Sequences 6
Columns 72
Reading direction reverse
Mean pairwise identity 77.96
Shannon entropy 0.42580
G+C content 0.45449
Mean single sequence MFE -15.82
Consensus MFE -11.31
Energy contribution -12.07
Covariance contribution 0.75
Combinations/Pair 1.29
Mean z-score -1.70
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.60
SVM RNA-class probability 0.953996
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13995198 72 - 24543557
UAAAAAAUUAGAGACUGACCAACCGAAGACGGUCACACUACAGCGGAGCGAUAGAUCGUUAUCGCUCGACCA
..............................((((.(.(....).)(((((((((....))))))))))))). ( -17.70, z-score =  -2.36, R)
>droWil1.scaffold_180698 5143054 71 + 11422946
UAACAAUAUCGAUACAUUCCGUCUUACAUUACUCAAAAGUUGCGAUAAGUAUUGGAUACUGUU-CUCGUCUA
.((((.(((((((((..((((.(((...........))).)).))...))))).)))).))))-........ (  -8.40, z-score =   0.17, R)
>droSim1.chr3L 13350873 72 - 22553184
UAAAAAAUUAGAGACUGACCAACCGAAGACGGUCACACUACAGCGGAGCGAUACAUCGUUAUCGCUCGACCA
..............................((((.(.(....).)((((((((......)))))))))))). ( -17.20, z-score =  -2.47, R)
>droSec1.super_0 6141836 72 - 21120651
UAAAAAAUUAGAGACUGACCAACCGAAGACGGUCACACUACAGCGGAGCGAUAGAUCGUUAUCGCUCGACCA
..............................((((.(.(....).)(((((((((....))))))))))))). ( -17.70, z-score =  -2.36, R)
>droYak2.chr3L 14082883 72 - 24197627
UAAAAAAUUAGCGACUGACCAACCGAAGACGGUCACACUACAUCGGGGCGAUAGAUCGUUAUCGCUCGACCA
........(((.(..(((((..........)))))).))).....(((((((((....)))))))))..... ( -16.90, z-score =  -1.26, R)
>droEre2.scaffold_4784 13987201 72 - 25762168
UAAAAAAUUAGCGACUGACCAACCGAAGACGGUCACACUACAGCGGGGCGAUAGAUCAUUAUCGCUCGACCA
...........((.(((....((((....)))).......)))))(((((((((....)))))))))..... ( -17.00, z-score =  -1.91, R)
>consensus
UAAAAAAUUAGAGACUGACCAACCGAAGACGGUCACACUACAGCGGAGCGAUAGAUCGUUAUCGCUCGACCA
..............................((((...(......)(((((((((....))))))))))))). (-11.31 = -12.07 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:24:56 2011