Locus 8215

Sequence ID dm3.chr3L
Location 21,056,489 – 21,056,641
Length 152
Max. P 0.980108
window11293 window11294

overview

Window 3

Location 21,056,489 – 21,056,601
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.67
Shannon entropy 0.14338
G+C content 0.31167
Mean single sequence MFE -26.49
Consensus MFE -22.43
Energy contribution -21.83
Covariance contribution -0.60
Combinations/Pair 1.19
Mean z-score -2.71
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.04
SVM RNA-class probability 0.980108
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21056489 112 + 24543557
--------UAGCGUGGUUAUUUAAUGAUUGCGAUCAACGAAAUUCUUAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
--------....(..((((((((((((((.((.....)).)))).....))))))))))..)....(((((((((......(((((....)))))....(((....)))))))))))).. ( -25.60, z-score =  -2.58, R)
>droEre2.scaffold_4784 20743995 112 + 25762168
--------UAGCGUGGUUAUUUAAUGAUUGAGUUUAACGAAAUGCUAAAAUGGAGUAGCUGCUGACUCAGUUGGAAUUUGAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUGACUGAAA
--------....(..(((((((.........((((....)))).........)))))))..)....(((((..((..(..((((................))))..)..))..))))).. ( -21.36, z-score =  -0.63, R)
>droYak2.chr3L 4725952 120 - 24197627
UCUGCAUCUAGCGUGGUUAUUUAAUGAUUGAGUUAAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUAAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
...((.....))(..((((((((((..((((((..........))))))))))))))))..)....(((((((((..(((((((................)))))))..))))))))).. ( -30.69, z-score =  -3.83, R)
>droSec1.super_11 944914 112 + 2888827
--------UAGCGUGGUUAUUUAAUGAUUGCGAUUAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUCGUUCCAAUUAAAAUAUUUUGACAUCUAACUGAAA
--------....(..((((((((((....(((.((....)).)))....))))))))))..)....(((((((((..(..((((...((......))...))))..)..))))))))).. ( -26.50, z-score =  -3.09, R)
>droSim1.chr3L 20410525 112 + 22553184
--------UAGCGUGGUUAUUUAAUGAUUGCGAUUAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
--------....(..((((((((((....(((.((....)).)))....))))))))))..)....(((((((((......(((((....)))))....(((....)))))))))))).. ( -28.30, z-score =  -3.41, R)
>consensus
________UAGCGUGGUUAUUUAAUGAUUGCGAUUAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
............(..((((((((((........................))))))))))..)....(((((((((..(((((((................)))))))..))))))))).. (-22.43 = -21.83 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 21,056,521 – 21,056,641
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.42
Shannon entropy 0.09793
G+C content 0.31000
Mean single sequence MFE -24.10
Consensus MFE -21.05
Energy contribution -20.45
Covariance contribution -0.60
Combinations/Pair 1.18
Mean z-score -2.35
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.44
SVM RNA-class probability 0.938190
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21056521 120 + 24543557
AAUUCUUAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCUACGACAGUCCAUAUAUGUCAACUUAAUUAAUUCCAUA
........((((((((..........(((((((((......(((((....)))))....(((....)))))))))))).......((((.........)))).))))))))......... ( -23.20, z-score =  -2.32, R)
>droEre2.scaffold_4784 20744027 120 + 25762168
AAUGCUAAAAUGGAGUAGCUGCUGACUCAGUUGGAAUUUGAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUGACUGAAAUCCACGGCAGUCCAUAUAUGUCAACUUAAUUAAUUCCAUA
.........(((((((.(((((((..(((((..((..(..((((................))))..)..))..)))))......))))))).((....))............))))))). ( -24.99, z-score =  -1.21, R)
>droYak2.chr3L 4725992 120 - 24197627
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUAAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCCACGACAGUCCAUAUAUGUCAACUUAAUUAAUUCCAUA
........((((((((..........(((((((((..(((((((................)))))))..))))))))).......((((.........)))).))))))))......... ( -21.89, z-score =  -2.45, R)
>droSec1.super_11 944946 120 + 2888827
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUCGUUCCAAUUAAAAUAUUUUGACAUCUAACUGAAAUCUGCGACAGCCCAUAUAUGUCAACUUAAUUAAUUCCAUA
........((((((((....((.((.(((((((((..(..((((...((......))...))))..)..)))))))))..)).))((((.........)))).))))))))......... ( -24.30, z-score =  -3.04, R)
>droSim1.chr3L 20410557 120 + 22553184
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCUGCGACAGCCCAUAUAUGUCAACUUAAUUAAUUCCAUA
........((((((((....((.((.(((((((((......(((((....)))))....(((....))))))))))))..)).))((((.........)))).))))))))......... ( -26.10, z-score =  -2.75, R)
>consensus
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCUACGACAGUCCAUAUAUGUCAACUUAAUUAAUUCCAUA
........((((((((..........(((((((((..(((((((................)))))))..))))))))).......((((.........)))).))))))))......... (-21.05 = -20.45 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:41:29 2011