Locus 2855

Sequence ID dm3.chr2RHet
Location 630,539 – 630,630
Length 91
Max. P 0.999955
window3937 window3938

overview

Window 7

Location 630,539 – 630,630
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 51.35
Shannon entropy 0.77710
G+C content 0.45687
Mean single sequence MFE -27.12
Consensus MFE -14.91
Energy contribution -15.47
Covariance contribution 0.56
Combinations/Pair 1.62
Mean z-score -3.02
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 5.19
SVM RNA-class probability 0.999955
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 630539 91 + 3288761
UAGUUUUCGUCGAGCCGAUGAUCUUCUUUCCGCGCUUAAUUCACAGUUUAAUGGCCUUAAGCUAUUAGAAGAAUCUCCAAAGCGCAAAAAA
......((((((...))))))..........((((((.((((....(((((((((.....))))))))).)))).....))))))...... ( -22.00, z-score =  -1.94, R)
>dp4.Unknown_group_58 40948 75 + 69560
----------------UACCUUCGGCUCCUAGCCAUAGAAGCUCAGUUUAGCGGUUUAAAACUGCUGAAUGAGUCUCCGAGGUGCAAAAAG
----------------((((((.(((.....)))...((..((((.(((((((((.....)))))))))))))..)).))))))....... ( -27.60, z-score =  -3.83, R)
>droPer1.super_87 105076 72 + 209488
----------------UGGCUUGCACUCCUAGCCAUGU---CUCAGUUUGGCAGCCUGCAACUGCUGAAUGAGUCUCCGAGGCGUAAAAGG
----------------.((((.........))))((((---(((.(((..((((.......))))..)))(......))))))))...... ( -21.00, z-score =  -0.00, R)
>droWil1.scaffold_181155 684691 85 - 3442787
------UCAUAAGCUCCAAGAGGAGCUUUUGGCAAUGGAGGUUCAAUUCAGAAGUUUUAAACUUUUGAUUGAAUCUCCGACGCGAAAGGGG
------(((.(((((((....))))))).)))...((((((((((((.(((((((.....))))))))))))))))))).(.(....).). ( -37.90, z-score =  -6.32, R)
>consensus
________________UAACAUCAGCUCCUAGCCAUGGA_GCUCAGUUUAGCAGCCUUAAACUGCUGAAUGAAUCUCCGAGGCGCAAAAAG
...............................(((.((((.(((((.(((((((((.....)))))))))))))).)))).)))........ (-14.91 = -15.47 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 630,539 – 630,630
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 51.35
Shannon entropy 0.77710
G+C content 0.45687
Mean single sequence MFE -21.88
Consensus MFE -9.94
Energy contribution -11.75
Covariance contribution 1.81
Combinations/Pair 1.60
Mean z-score -1.44
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.24
SVM RNA-class probability 0.986386
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 630539 91 - 3288761
UUUUUUGCGCUUUGGAGAUUCUUCUAAUAGCUUAAGGCCAUUAAACUGUGAAUUAAGCGCGGAAAGAAGAUCAUCGGCUCGACGAAAACUA
((((((.(((.((((((....))))))..((((((..(((......)).)..))))))))).)))))).....(((......)))...... ( -20.70, z-score =  -0.40, R)
>dp4.Unknown_group_58 40948 75 - 69560
CUUUUUGCACCUCGGAGACUCAUUCAGCAGUUUUAAACCGCUAAACUGAGCUUCUAUGGCUAGGAGCCGAAGGUA----------------
........(((((((((.((((((.(((.((.....)).))).)).))))))))...(((.....)))).)))).---------------- ( -19.70, z-score =  -0.72, R)
>droPer1.super_87 105076 72 - 209488
CCUUUUACGCCUCGGAGACUCAUUCAGCAGUUGCAGGCUGCCAAACUGAG---ACAUGGCUAGGAGUGCAAGCCA----------------
.((((((.(((..(....((((((..(((((.....)))))..)).))))---.)..))))))))).........---------------- ( -17.10, z-score =   1.22, R)
>droWil1.scaffold_181155 684691 85 + 3442787
CCCCUUUCGCGUCGGAGAUUCAAUCAAAAGUUUAAAACUUCUGAAUUGAACCUCCAUUGCCAAAAGCUCCUCUUGGAGCUUAUGA------
........(((..((((.((((((((.((((.....)))).)).)))))).))))..)))((.(((((((....))))))).)).------ ( -30.00, z-score =  -5.86, R)
>consensus
CCUUUUGCGCCUCGGAGACUCAUUCAACAGUUUAAAACCGCUAAACUGAGC_UCCAUGGCUAAAAGCACAACAUA________________
........(((..((((.(((((((((((((.....))))))))).)))).))))..)))............................... ( -9.94 = -11.75 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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