Locus 5296

Sequence ID dm3.chr2R
Location 19,305,910 – 19,306,046
Length 136
Max. P 0.880737
window7256 window7257

overview

Window 6

Location 19,305,910 – 19,306,006
Length 96
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 74.73
Shannon entropy 0.41528
G+C content 0.47794
Mean single sequence MFE -24.08
Consensus MFE -14.52
Energy contribution -16.52
Covariance contribution 2.00
Combinations/Pair 1.12
Mean z-score -1.82
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.880737
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19305910 96 - 21146708
GCCUCUAAUUGCGGGCCAAGGCGAAAACGCUCGCUGGGUUUUCUUAACUGCCUGGAAUACCGCCAAUUACACGGUGUACUCAAAAACUCGACUCAA-
(((..(((((((((.(((.(((((((((.(.....).))))))......))))))....))).))))))...))).....................- ( -24.90, z-score =  -1.16, R)
>droSim1.chr2R 17886822 83 - 19596830
GCCUCUAAUUGCGGGCCAAGGCGAAAACGCUCGCUGGGUUUUCUUAACUGCCUGGAAUACCUGCAAUUACACGGUGUACUCAA--------------
(((..(((((((((((((.(((((((((.(.....).))))))......))))))....))))))))))...)))........-------------- ( -27.30, z-score =  -2.50, R)
>droSec1.super_9 2595809 83 - 3197100
GCCUCUAAUUGCGGGUCAAGGCGAAAACGCUCGCUGGGUUUUCUUAACUGCCUGGAAUACCUGCAAUUACACGGUGUACUCAA--------------
(((..(((((((((((..((((((((((.(.....).))))))......)))).....)))))))))))...)))........-------------- ( -27.50, z-score =  -2.98, R)
>droYak2.chr2R 19272294 85 - 21139217
GCAUUUAAUUGCGGGCCAAGGCGA------------GGUUUUCUUACCUGUUAGUAUUACUUAAAAUUACACGGUGUACUCAACUCAGCUCAACUCA
(((......)))((((..(((..(------------(.....))..)))((((((((.(((...........)))))))).)))...))))...... ( -16.60, z-score =  -0.64, R)
>consensus
GCCUCUAAUUGCGGGCCAAGGCGAAAACGCUCGCUGGGUUUUCUUAACUGCCUGGAAUACCUGCAAUUACACGGUGUACUCAA______________
(((..((((((((((...((((((((((.(.....).))))))......))))......))))))))))...)))...................... (-14.52 = -16.52 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,305,939 – 19,306,046
Length 107
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 68.56
Shannon entropy 0.52250
G+C content 0.48539
Mean single sequence MFE -32.37
Consensus MFE -11.62
Energy contribution -10.98
Covariance contribution -0.64
Combinations/Pair 1.29
Mean z-score -1.87
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.519869
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19305939 107 - 21146708
UCCGUCGUCCGGCAAUUAAGAAUUUUUAGUGCGCGAUUCCGCCUCUAAUUGCGGGCCAAGGCGA---------AAACGCUCGCUGGGUUUUCUUAACUGCCUGGAAUACCGCCAAU
...((..(((((((.(((((((..(((((((.(((...((((........))))((....))..---------...))).)))))))..))))))).)))).)))..))....... ( -39.30, z-score =  -2.61, R)
>droSim1.chr2R 17886838 107 - 19596830
CCCGUCGUCCGGCAAUUAAGAAUUUUUAGUGCGCGAUUCCGCCUCUAAUUGCGGGCCAAGGCGAAAACGCUCGCUGGGUUUUCUUAACUGCCUGGAAUACCUGCAAU---------
...((..(((((((.(((((((..(((((((.(((...((((........))))((....)).....))).)))))))..))))))).)))).)))..)).......--------- ( -39.30, z-score =  -2.79, R)
>droSec1.super_9 2595825 107 - 3197100
UCCGUCGUCCGGCAAUUAAGAAUUUUUAGUGCGCGAUUCCGCCUCUAAUUGCGGGUCAAGGCGA---------AAACGCUCGCUGGGUUUUCUUAACUGCCUGGAAUACCUGCAAU
...((..(((((((.(((((((..(((((((.(((.((.(((((..............))))).---------)).))).)))))))..))))))).)))).)))..))....... ( -37.44, z-score =  -2.57, R)
>droYak2.chr2R 19272324 88 - 21139217
-------AACCGCAAUUAGGAAUUUUUAGUGCGCGAUUCCGCAUUUAAUUGCGGGCCAAGGCGA------------GGUUUUCUUACCUGUUAGUAUUACUUAAAAU---------
-------..((((((((((.........(((((......)))))))))))))))((....)).(------------(((......))))..................--------- ( -22.60, z-score =  -1.31, R)
>droEre2.scaffold_4845 20671683 85 - 22589142
----UCGACCGGCAAUUAAGAA-UUUUAGUGCGCGAUUCCGUCUUUAAUUGCGGACCAAGGCGA---------AAACGCCCGGCGGG--------AUUACCUGCAAU---------
----.((.(((.(((((((((.-.....(....).......)).)))))))))).....((((.---------...))))))(((((--------....)))))...--------- ( -23.22, z-score =  -0.07, R)
>consensus
_CCGUCGUCCGGCAAUUAAGAAUUUUUAGUGCGCGAUUCCGCCUCUAAUUGCGGGCCAAGGCGA_________AAACGCUCGCUGGGCUGUCUGAACUACCUGCAAU_________
..........(((.((((((....)))))).(((...(((((........))))).....)))..............))).................................... (-11.62 = -10.98 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:45:29 2011