Locus 2840

Sequence ID dm3.chr2RHet
Location 404,483 – 404,533
Length 50
Max. P 0.993365
window3917 window3918

overview

Window 7

Location 404,483 – 404,533
Length 50
Sequences 3
Columns 50
Reading direction forward
Mean pairwise identity 55.33
Shannon entropy 0.64431
G+C content 0.36000
Mean single sequence MFE -7.65
Consensus MFE -4.40
Energy contribution -4.30
Covariance contribution -0.10
Combinations/Pair 1.62
Mean z-score -0.35
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.565057
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 404483 50 + 3288761
UUGUUUUUCUGCGUUUUACAAAACCAUGCUGACAUGGUGAUAUAAUGGCG
...........((((.......((((((....))))))........)))) (  -8.86, z-score =  -0.55, R)
>droPer1.super_163 11566 50 + 79481
UGGUUGAUCGCCGCUUUAUAAAUCCAUGCUAAGUUGGAGAUAUAAUGGUC
.(((.....)))((((((((..((((........))))..))))).))). (  -9.70, z-score =  -0.64, R)
>droAna3.scaffold_3860 3374 50 - 4846
UUGUUUAUUAAUGACUUAGACAAAGACAAAGAUGUUCUGACCUAUUGACU
.......((((((..(((((((..........)).)))))..)))))).. (  -4.40, z-score =   0.14, R)
>consensus
UUGUUUAUCAACGAUUUACAAAACCAUGCUGACAUGGUGAUAUAAUGGCC
............(((((((...((((((....))))))...)))).))). ( -4.40 =  -4.30 +  -0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 404,483 – 404,533
Length 50
Sequences 3
Columns 50
Reading direction reverse
Mean pairwise identity 55.33
Shannon entropy 0.64431
G+C content 0.36000
Mean single sequence MFE -8.23
Consensus MFE -7.60
Energy contribution -6.50
Covariance contribution -1.10
Combinations/Pair 1.70
Mean z-score -1.50
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.61
SVM RNA-class probability 0.993365
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 404483 50 - 3288761
CGCCAUUAUAUCACCAUGUCAGCAUGGUUUUGUAAAACGCAGAAAAACAA
.((..(((((..((((((....))))))..)))))...)).......... ( -12.70, z-score =  -3.19, R)
>droPer1.super_163 11566 50 - 79481
GACCAUUAUAUCUCCAACUUAGCAUGGAUUUAUAAAGCGGCGAUCAACCA
(.((.(((((..((((........))))..)))))...)))......... (  -6.90, z-score =  -0.85, R)
>droAna3.scaffold_3860 3374 50 + 4846
AGUCAAUAGGUCAGAACAUCUUUGUCUUUGUCUAAGUCAUUAAUAAACAA
......((((.(((((((....))).))))))))................ (  -5.10, z-score =  -0.46, R)
>consensus
AGCCAUUAUAUCACCAAAUCAGCAUGGUUUUAUAAAACGCAGAUAAACAA
......((((..((((((....))))))..))))................ ( -7.60 =  -6.50 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:59:03 2011