Locus 4834

Sequence ID dm3.chr2R
Location 15,871,609 – 15,871,702
Length 93
Max. P 0.997663
window6640 window6641

overview

Window 0

Location 15,871,609 – 15,871,702
Length 93
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 72.98
Shannon entropy 0.50025
G+C content 0.39880
Mean single sequence MFE -26.67
Consensus MFE -14.74
Energy contribution -15.94
Covariance contribution 1.20
Combinations/Pair 1.33
Mean z-score -2.79
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.15
SVM RNA-class probability 0.997663
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15871609 93 + 21146708
--GGUGUAGCAAGGCGAGAAUUUAAAAUUUUCGAGCCCAGCAAAACUCCU---AAUGCCUGGGCUCUAAAAUU-AUUAAAUUUCGACUUAAGUUGAGAU
--....(((((((.(((((.(((((((((((.((((((((((........---..)).)))))))).))))))-.)))))))))).)))..)))).... ( -26.80, z-score =  -3.04, R)
>droMoj3.scaffold_6496 21378962 88 + 26866924
---GCCCGACCCAGCUUAUGUCUAUAAAA---GGAUUCAGGAACGUUUUGGUAAAUGCCCCUACCUAAACGCCGAUUGAGUUCAGUCCUGACAU-----
---..............(((((.......---((((((((...(((((.((((........)))).)))))....))))))))......)))))----- ( -19.52, z-score =  -1.42, R)
>droSec1.super_1 13348588 93 + 14215200
--GGUGUAGCAAGGCGAAAAUUUAAAAUUUUCGAGCCCAGCUAAACUCCU---AUUGCCUGGGCUCUAAAAUU-AUUAAAUUUCGACUUAAGUUGAGAU
--....(((((((.(((((.(((((((((((.((((((((.(((......---.))).)))))))).))))))-.)))))))))).)))..)))).... ( -26.40, z-score =  -3.08, R)
>droSim1.chr2R 14518239 93 + 19596830
--GGUGUAGCAAGGCGAAAAUUUAAAAUUUUCGAGCCCAGCUAAACUCCU---AUUGCCUGGGCUCUAAAAUU-AUUAAAUUUCGACUUAAGUUGAGAU
--....(((((((.(((((.(((((((((((.((((((((.(((......---.))).)))))))).))))))-.)))))))))).)))..)))).... ( -26.40, z-score =  -3.08, R)
>droYak2.chr2R 7798427 95 - 21139217
GUGUAGCAGCAAGGCCAGAAUUUAUAAUUUUCGGGCCCAGCUAAACUCCU---AUUGCCAGGGCUCUAAAAUU-AUUAAAUUUCGCCUUAAGUUGAGAU
..((..(((((((((..((((((((((((((.((((((.((.........---...))..)))))).))))))-).))))))).)))))..))))..)) ( -28.80, z-score =  -2.67, R)
>droEre2.scaffold_4845 10022194 93 + 22589142
--GGUGUAGCGUGGCGAGAAUUUAAAAUUUUCGGGCCCAGCAACACUGCU---AAUGCCUGGGCUCUAAAAUU-AUUAAAUUUCGCCUUAAGUUGAGAU
--....((((..(((((((.(((((((((((.((((((((((........---..)).)))))))).))))))-.))))))))))))....)))).... ( -32.10, z-score =  -3.44, R)
>consensus
__GGUGUAGCAAGGCGAAAAUUUAAAAUUUUCGAGCCCAGCAAAACUCCU___AAUGCCUGGGCUCUAAAAUU_AUUAAAUUUCGACUUAAGUUGAGAU
......((((..(((((((.((...((((((.((((((((..................)))))))).))))))....)).))))).))...)))).... (-14.74 = -15.94 +   1.20)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 1

Location 15,871,609 – 15,871,702
Length 93
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 72.98
Shannon entropy 0.50025
G+C content 0.39880
Mean single sequence MFE -25.54
Consensus MFE -13.92
Energy contribution -15.20
Covariance contribution 1.29
Combinations/Pair 1.41
Mean z-score -2.56
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.80
SVM RNA-class probability 0.995436
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15871609 93 - 21146708
AUCUCAACUUAAGUCGAAAUUUAAU-AAUUUUAGAGCCCAGGCAUU---AGGAGUUUUGCUGGGCUCGAAAAUUUUAAAUUCUCGCCUUGCUACACC--
.........((((.((((((((((.-((((((.((((((((.((..---........)))))))))).))))))))))))).))).)))).......-- ( -27.40, z-score =  -3.72, R)
>droMoj3.scaffold_6496 21378962 88 - 26866924
-----AUGUCAGGACUGAACUCAAUCGGCGUUUAGGUAGGGGCAUUUACCAAAACGUUCCUGAAUCC---UUUUAUAGACAUAAGCUGGGUCGGGC---
-----...((((((((((......))))(((((.((((((....)))))).))))).))))))((((---.(((((....)))))..)))).....--- ( -22.00, z-score =  -0.51, R)
>droSec1.super_1 13348588 93 - 14215200
AUCUCAACUUAAGUCGAAAUUUAAU-AAUUUUAGAGCCCAGGCAAU---AGGAGUUUAGCUGGGCUCGAAAAUUUUAAAUUUUCGCCUUGCUACACC--
.........((((.((((((((((.-((((((.((((((((.....---..........)))))))).))))))))))).))))).)))).......-- ( -25.56, z-score =  -3.17, R)
>droSim1.chr2R 14518239 93 - 19596830
AUCUCAACUUAAGUCGAAAUUUAAU-AAUUUUAGAGCCCAGGCAAU---AGGAGUUUAGCUGGGCUCGAAAAUUUUAAAUUUUCGCCUUGCUACACC--
.........((((.((((((((((.-((((((.((((((((.....---..........)))))))).))))))))))).))))).)))).......-- ( -25.56, z-score =  -3.17, R)
>droYak2.chr2R 7798427 95 + 21139217
AUCUCAACUUAAGGCGAAAUUUAAU-AAUUUUAGAGCCCUGGCAAU---AGGAGUUUAGCUGGGCCCGAAAAUUAUAAAUUCUGGCCUUGCUGCUACAC
.........((((((.(((((((.(-((((((.(.((((.(((...---.........))))))).).))))))))))))).).))))))......... ( -23.90, z-score =  -1.00, R)
>droEre2.scaffold_4845 10022194 93 - 22589142
AUCUCAACUUAAGGCGAAAUUUAAU-AAUUUUAGAGCCCAGGCAUU---AGCAGUGUUGCUGGGCCCGAAAAUUUUAAAUUCUCGCCACGCUACACC--
............((((((((((((.-((((((.(.((((((((((.---....))))..)))))).).))))))))))))).)))))..........-- ( -28.80, z-score =  -3.76, R)
>consensus
AUCUCAACUUAAGUCGAAAUUUAAU_AAUUUUAGAGCCCAGGCAAU___AGGAGUUUAGCUGGGCCCGAAAAUUUUAAAUUCUCGCCUUGCUACACC__
.........((((.(((((((((...((((((.((((((((..................)))))))).)))))).)))))).))).))))......... (-13.92 = -15.20 +   1.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:36:53 2011