Locus 1611

Sequence ID dm3.chr2L
Location 12,472,511 – 12,472,604
Length 93
Max. P 0.816871
window2207 window2208

overview

Window 7

Location 12,472,511 – 12,472,604
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 82.85
Shannon entropy 0.28522
G+C content 0.45822
Mean single sequence MFE -21.44
Consensus MFE -15.76
Energy contribution -15.88
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -1.54
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.26
SVM RNA-class probability 0.617036
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 12472511 93 + 23011544
ACACUUGCUUGCCACACUUCCCCACAAUUCCACUUGCAUUUCGUGUGAAUUGAAAGUCGCCGACCUCGAAGACAAAGUGGGGGAAAUAAAACA
.................((((((((((((((((.........))).)))))....(((..((....))..)))...))))))))......... ( -24.00, z-score =  -1.69, R)
>droEre2.scaffold_4929 13694168 87 - 26641161
------ACUUGCCACACUUCCCCACAAUUAAAGUUGCAUUUCGCGUGAAUUGAAAGUCGCCGACCUCGAAGACAAAGUGGGGGAAAUAUAACA
------...........((((((((..((((...(((.....)))....))))..(((..((....))..)))...))))))))......... ( -20.50, z-score =  -1.04, R)
>droYak2.chr2L 8909610 89 + 22324452
----CCACUUGCCACAGUUCCCCACAAUUCGACUUGCAUUUCGCGUGAAUUGAAAGUCGCCGACCUCGAAGACAAACUGGGGGAACUAUAACA
----...........((((((((.(((((((...(((.....))))))))))...(((..((....))..)))......))))))))...... ( -26.70, z-score =  -3.07, R)
>droSec1.super_16 663251 79 + 1878335
--------------CUACUUGCCACAAUUCCACUUGCAAUUCGUGUGAAUUGAAAGUCGCCGACCUCGAAGACAAAGUGGGGGAAAUAAAACA
--------------((((((....(((((((((.........))).))))))...(((..((....))..))).))))))............. ( -18.00, z-score =  -0.94, R)
>droSim1.chr2L 12281377 79 + 22036055
--------------CUACUUGCCACAAUUCCACUUGCAAUUCGUGUGAAUUGAAAGUCGCCGACCUCGAAGACAAAGUGGGGGAAAUAAAACA
--------------((((((....(((((((((.........))).))))))...(((..((....))..))).))))))............. ( -18.00, z-score =  -0.94, R)
>consensus
_______CUUGCCACAAUUCCCCACAAUUCCACUUGCAUUUCGUGUGAAUUGAAAGUCGCCGACCUCGAAGACAAAGUGGGGGAAAUAAAACA
..................(((((.((((((....(((.....))).))))))...(((..((....))..)))......)))))......... (-15.76 = -15.88 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,472,511 – 12,472,604
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 82.85
Shannon entropy 0.28522
G+C content 0.45822
Mean single sequence MFE -27.16
Consensus MFE -15.62
Energy contribution -17.38
Covariance contribution 1.76
Combinations/Pair 1.12
Mean z-score -2.41
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.78
SVM RNA-class probability 0.816871
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 12472511 93 - 23011544
UGUUUUAUUUCCCCCACUUUGUCUUCGAGGUCGGCGACUUUCAAUUCACACGAAAUGCAAGUGGAAUUGUGGGGAAGUGUGGCAAGCAAGUGU
(((..(((((((((......(((.(((....))).)))...((((((.(((.........))))))))).)))))))))..)))......... ( -29.40, z-score =  -1.76, R)
>droEre2.scaffold_4929 13694168 87 + 26641161
UGUUAUAUUUCCCCCACUUUGUCUUCGAGGUCGGCGACUUUCAAUUCACGCGAAAUGCAACUUUAAUUGUGGGGAAGUGUGGCAAGU------
((((((((((((((((....(((.(((....))).)))...........((.....)).........)).))))))))))))))...------ ( -27.20, z-score =  -2.28, R)
>droYak2.chr2L 8909610 89 - 22324452
UGUUAUAGUUCCCCCAGUUUGUCUUCGAGGUCGGCGACUUUCAAUUCACGCGAAAUGCAAGUCGAAUUGUGGGGAACUGUGGCAAGUGG----
(((((((((((((((((((((((.........)))(((((.((.(((....))).)).))))))))))).)))))))))))))).....---- ( -36.80, z-score =  -4.46, R)
>droSec1.super_16 663251 79 - 1878335
UGUUUUAUUUCCCCCACUUUGUCUUCGAGGUCGGCGACUUUCAAUUCACACGAAUUGCAAGUGGAAUUGUGGCAAGUAG--------------
(((..((.((((((.((((((....)))))).))..((((.((((((....)))))).)))))))).))..))).....-------------- ( -21.20, z-score =  -1.78, R)
>droSim1.chr2L 12281377 79 - 22036055
UGUUUUAUUUCCCCCACUUUGUCUUCGAGGUCGGCGACUUUCAAUUCACACGAAUUGCAAGUGGAAUUGUGGCAAGUAG--------------
(((..((.((((((.((((((....)))))).))..((((.((((((....)))))).)))))))).))..))).....-------------- ( -21.20, z-score =  -1.78, R)
>consensus
UGUUUUAUUUCCCCCACUUUGUCUUCGAGGUCGGCGACUUUCAAUUCACACGAAAUGCAAGUGGAAUUGUGGGGAAGUGUGGCAAG_______
.....(((((((((......(((.(((....))).)))...((((((.(((.........))))))))).))))))))).............. (-15.62 = -17.38 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:35:20 2011