Locus 9242

Sequence ID dm3.chr3R
Location 5,150,286 – 5,150,377
Length 91
Max. P 0.740225
window12669 window12670

overview

Window 9

Location 5,150,286 – 5,150,377
Length 91
Sequences 7
Columns 105
Reading direction forward
Mean pairwise identity 59.26
Shannon entropy 0.75661
G+C content 0.38529
Mean single sequence MFE -21.47
Consensus MFE -7.15
Energy contribution -8.16
Covariance contribution 1.00
Combinations/Pair 1.33
Mean z-score -1.35
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.55
SVM RNA-class probability 0.740225
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5150286 91 + 27905053
UUUCGCCAAGCUGUCAAUUGCAAUUAAAUGCAAUUUGUUCGCAGCGUAAAAACGACACAAUUU----------UUUUUUUUUUU----GCGCCACAAGGACGAGC
.((((((..((...((((((((......))))).)))...)).(((((((((.((........----------...)).)))))----)))).....)).)))). ( -20.60, z-score =  -0.84, R)
>droPer1.super_7 150648 74 + 4445127
-----AUUUGCUCCCAAUUCCAAUUAAAUGCAGUUU-UCCCAAGCGUGCAUAAAAUAA-----------------UGUUCUCAUGAAUGGAAAACGA--------
-----............((((......(((((((((-....)))).))))).......-----------------.((((....)))))))).....-------- ( -11.80, z-score =  -0.93, R)
>droEre2.scaffold_4770 1289419 82 - 17746568
UUUCGCCGGGCUGCCAAUUGCAAUUAAAUGCAAUUUGUGCGCAGCGCAAAAACGACACA----------------UUU---GUU----GCACCACAAGGACGAGC
.(((((((.(((((((((((((......))))))...)).))))).).....(((((..----------------..)---)))----)........)).)))). ( -24.90, z-score =  -1.17, R)
>droYak2.chr3R 9196502 85 + 28832112
UUUCGCCAAGCUGCCAAUUGCAAUUAAAUGCAAUUUGUUUGCUGCGUAAAAACGACACA----------------UUUUUUGUU----GCACCACGAGGACGAGU
.((((((.(((.((.(((((((......))))))).))..))).(((.....(((((..----------------.....))))----)....))).)).)))). ( -20.30, z-score =  -0.67, R)
>droSec1.super_0 4375913 105 - 21120651
UUUCGCCAAGCUGCCAAUUGCAAUUAAAUGCAAUUUGUUCGCAGCGUAAAAACAACACAUUUUUUUGUUGUUUUUUUUUUUUUUGCUUGCACCACAAGGACGAGC
.((((((..(((((.(((((((......))))))).....)))))..((((((((((........))))))))))......................)).)))). ( -26.90, z-score =  -2.01, R)
>droSim1.chr3R 11347087 102 - 27517382
UUUCGCCAAGCUGCCAAUUGCAAUUAAAUGCAAUUUGUUGGCAGCGUAAAAACGACAAAUUUUGUUGUUGUUUUUUUUUUUUUU---UGCAACACAAGGACGAGC
.((((((..(((((((((((((......))))....)))))))))..(((((((((((......))))))))))).........---..........)).)))). ( -32.70, z-score =  -3.30, R)
>triCas2.ChLG6 5722945 75 - 13544221
GUACGUAAAAAUGUUAUUUUGACUUUUUCGGACUUUUUUUACUGAAAAAUUGAAAUGCC----------------UCUCCGGUUCCGGGUU--------------
..............(((((..(.((((((((..........)))))))))..)))))..----------------..((((....))))..-------------- ( -13.10, z-score =  -0.51, R)
>consensus
UUUCGCCAAGCUGCCAAUUGCAAUUAAAUGCAAUUUGUUCGCAGCGUAAAAACGACACA________________UUUUUUGUU____GCACCACAAGGACGAGC
.........(((((.(((((((......))))))).....)))))............................................................ ( -7.15 =  -8.16 +   1.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 5,150,286 – 5,150,377
Length 91
Sequences 7
Columns 105
Reading direction reverse
Mean pairwise identity 59.26
Shannon entropy 0.75661
G+C content 0.38529
Mean single sequence MFE -21.87
Consensus MFE -7.66
Energy contribution -8.84
Covariance contribution 1.19
Combinations/Pair 1.25
Mean z-score -1.12
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.644749
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5150286 91 - 27905053
GCUCGUCCUUGUGGCGC----AAAAAAAAAAA----------AAAUUGUGUCGUUUUUACGCUGCGAACAAAUUGCAUUUAAUUGCAAUUGACAGCUUGGCGAAA
..(((((.....(((((----((.........----------...)))))))........((((......(((((((......)))))))..))))..))))).. ( -23.00, z-score =  -0.97, R)
>droPer1.super_7 150648 74 - 4445127
--------UCGUUUUCCAUUCAUGAGAACA-----------------UUAUUUUAUGCACGCUUGGGA-AAACUGCAUUUAAUUGGAAUUGGGAGCAAAU-----
--------..(((((((...(((((((...-----------------...)))))))........)))-))))(((.((((((....)))))).)))...----- ( -13.90, z-score =  -0.75, R)
>droEre2.scaffold_4770 1289419 82 + 17746568
GCUCGUCCUUGUGGUGC----AAC---AAA----------------UGUGUCGUUUUUGCGCUGCGCACAAAUUGCAUUUAAUUGCAAUUGGCAGCCCGGCGAAA
..(((((...(..((((----((.---(((----------------((...)))))))))))..)((...(((((((......))))))).)).....))))).. ( -28.50, z-score =  -1.40, R)
>droYak2.chr3R 9196502 85 - 28832112
ACUCGUCCUCGUGGUGC----AACAAAAAA----------------UGUGUCGUUUUUACGCAGCAAACAAAUUGCAUUUAAUUGCAAUUGGCAGCUUGGCGAAA
..(((.((....(.(((----.........----------------(((..(((....)))..)))....(((((((......))))))).))).)..))))).. ( -19.90, z-score =  -0.03, R)
>droSec1.super_0 4375913 105 + 21120651
GCUCGUCCUUGUGGUGCAAGCAAAAAAAAAAAAAACAACAAAAAAAUGUGUUGUUUUUACGCUGCGAACAAAUUGCAUUUAAUUGCAAUUGGCAGCUUGGCGAAA
..(((((((((.....))))..........((((((((((........))))))))))..(((((.....(((((((......))))))).)))))..))))).. ( -30.80, z-score =  -2.50, R)
>droSim1.chr3R 11347087 102 + 27517382
GCUCGUCCUUGUGUUGCA---AAAAAAAAAAAAAACAACAACAAAAUUUGUCGUUUUUACGCUGCCAACAAAUUGCAUUUAAUUGCAAUUGGCAGCUUGGCGAAA
..(((((...........---.........((((((.((((......)))).))))))..(((((((....((((((......)))))))))))))..))))).. ( -29.20, z-score =  -2.88, R)
>triCas2.ChLG6 5722945 75 + 13544221
--------------AACCCGGAACCGGAGA----------------GGCAUUUCAAUUUUUCAGUAAAAAAAGUCCGAAAAAGUCAAAAUAACAUUUUUACGUAC
--------------...(((....)))...----------------(((.((((.((((((.......))))))..))))..))).................... (  -7.80, z-score =   0.68, R)
>consensus
GCUCGUCCUUGUGGUGC____AAAAAAAAA________________UGUGUCGUUUUUACGCUGCGAACAAAUUGCAUUUAAUUGCAAUUGGCAGCUUGGCGAAA
............................................................(((((.....(((((((......))))))).)))))......... ( -7.66 =  -8.84 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:00:36 2011