Locus 5010

Sequence ID dm3.chr2R
Location 17,090,098 – 17,090,197
Length 99
Max. P 0.898369
window6881 window6882

overview

Window 1

Location 17,090,098 – 17,090,197
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 88.50
Shannon entropy 0.18589
G+C content 0.53752
Mean single sequence MFE -24.16
Consensus MFE -22.34
Energy contribution -22.38
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.12
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.649608
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17090098 99 + 21146708
AUCUGGCGUUAAUCUGAUCUGGGCCUCAUCACGCCUGAACGGGAAUUUGUUCAGUCACUUGACCCAGACCCAAAAGCUCAACCCGCAGCCCACGACCCC
.(((((.(((.......((((((..(((....(.((((((((....)))))))).)...))))))))).......((.......)))))))).)).... ( -23.30, z-score =  -0.21, R)
>droEre2.scaffold_4845 11232722 85 + 22589142
GUCUGGCGUUAAUCUGAUCCGGGCCUCAUCACGCCUGAACGGGAAUUUGUUCAGUCACUUGACCCAGACCCAAAAGCUCAACCCC--------------
((((((.(((((..((((..((((........))))((((((....)))))).)))).)))))))))))................-------------- ( -23.70, z-score =  -1.36, R)
>droYak2.chr2R 9033005 85 - 21139217
GUCUGGCGUUAAUCUGAUCUGGGCCACAUCACGUCUGAACGGGAAUUUGUUCAGUCACUUGACCCAGACCCAAAAGCUCAACCCA--------------
((((((.(((((..(((.((((((....((.(((....))).))....))))))))).)))))))))))................-------------- ( -24.20, z-score =  -1.38, R)
>droSec1.super_9 416372 99 + 3197100
GUCUGGCGUUAAUCUGAUCUGGGCCUCAUCACGCCUGAACGGGAAUUUGUUCAGUCACUUGACCCAGACCCAAAAGCUCAACCCGCAACCCACGACCCC
((((((.(((.......((((((..(((....(.((((((((....)))))))).)...))))))))).......((.......)))))))).)))... ( -26.00, z-score =  -1.31, R)
>droSim1.chr2R 15740457 85 + 19596830
GUCUGGCGUUAAUCUGAUCUGGGCCUCAUCACGCCUGAACGGGAAUUUGUUCAGUCACUUGACCCAGACCCAAAAGCUCAACCCC--------------
((((((.(((((..((((..((((........))))((((((....)))))).)))).)))))))))))................-------------- ( -23.60, z-score =  -1.32, R)
>consensus
GUCUGGCGUUAAUCUGAUCUGGGCCUCAUCACGCCUGAACGGGAAUUUGUUCAGUCACUUGACCCAGACCCAAAAGCUCAACCCC______________
((((((.(((((..((((..((((........))))((((((....)))))).)))).))))))))))).............................. (-22.34 = -22.38 +   0.04)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 17,090,098 – 17,090,197
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 88.50
Shannon entropy 0.18589
G+C content 0.53752
Mean single sequence MFE -32.48
Consensus MFE -29.74
Energy contribution -29.58
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.60
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.14
SVM RNA-class probability 0.898369
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17090098 99 - 21146708
GGGGUCGUGGGCUGCGGGUUGAGCUUUUGGGUCUGGGUCAAGUGACUGAACAAAUUCCCGUUCAGGCGUGAUGAGGCCCAGAUCAGAUUAACGCCAGAU
(.(((.....))).)(((((((.(((((((((((.(.(((.....((((((........))))))...)))).)))))))))..)).))))).)).... ( -33.80, z-score =  -0.46, R)
>droEre2.scaffold_4845 11232722 85 - 22589142
--------------GGGGUUGAGCUUUUGGGUCUGGGUCAAGUGACUGAACAAAUUCCCGUUCAGGCGUGAUGAGGCCCGGAUCAGAUUAACGCCAGAC
--------------((.(((((.(((((((((((.(.(((.....((((((........))))))...)))).)))))))))..)).))))).)).... ( -31.50, z-score =  -1.92, R)
>droYak2.chr2R 9033005 85 + 21139217
--------------UGGGUUGAGCUUUUGGGUCUGGGUCAAGUGACUGAACAAAUUCCCGUUCAGACGUGAUGUGGCCCAGAUCAGAUUAACGCCAGAC
--------------((((((((.......(((((((((((.(((.((((((........)))))).)))....)))))))))))...))))).)))... ( -32.20, z-score =  -2.79, R)
>droSec1.super_9 416372 99 - 3197100
GGGGUCGUGGGUUGCGGGUUGAGCUUUUGGGUCUGGGUCAAGUGACUGAACAAAUUCCCGUUCAGGCGUGAUGAGGCCCAGAUCAGAUUAACGCCAGAC
..((.(((..(((((.......)).....((((((((((..((.(((((((........)))))...)).))..)))))))))).)))..))))).... ( -32.60, z-score =  -0.38, R)
>droSim1.chr2R 15740457 85 - 19596830
--------------GGGGUUGAGCUUUUGGGUCUGGGUCAAGUGACUGAACAAAUUCCCGUUCAGGCGUGAUGAGGCCCAGAUCAGAUUAACGCCAGAC
--------------((.(((((.(((((((((((.(.(((.....((((((........))))))...)))).)))))))))..)).))))).)).... ( -32.30, z-score =  -2.43, R)
>consensus
______________CGGGUUGAGCUUUUGGGUCUGGGUCAAGUGACUGAACAAAUUCCCGUUCAGGCGUGAUGAGGCCCAGAUCAGAUUAACGCCAGAC
...............(((((((.......((((((((((..((.(((((((........)))))...)).))..))))))))))...))))).)).... (-29.74 = -29.58 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:40:11 2011