Locus 7055

Sequence ID dm3.chr3L
Location 11,808,168 – 11,808,276
Length 108
Max. P 0.919553
window9717 window9718

overview

Window 7

Location 11,808,168 – 11,808,276
Length 108
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 63.22
Shannon entropy 0.50359
G+C content 0.51628
Mean single sequence MFE -37.03
Consensus MFE -22.87
Energy contribution -24.10
Covariance contribution 1.23
Combinations/Pair 1.24
Mean z-score -1.42
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.27
SVM RNA-class probability 0.919553
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11808168 108 + 24543557
AUUCUCCCCACUUCGGCGUUUUAGGAAACGCAAUUGGCGAAGUUUGGCCUCUUGCGGAUCAAAGAGGAUAGGGACAUGAUGGAGAAGGCCGUGCUGUGAUUCCAGUUG------------
....((((.((((((.((.....(....).....)).))))))....((((((........))))))...))))((...(((((..(((...)))....)))))..))------------ ( -30.80, z-score =   0.33, R)
>droSec1.super_0 17116063 96 - 21120651
AUCAGCCCCACUAUGUCGUUCCAGGAAUGGCUGAAGGCGACUUUUCGCCUCAUGCAGAGCGUGGUGGAUAGGGAAGAGUUGGAUUCAUCCUUCCUG------------------------
.......((((((((((((((...)))))(((((.(((((....)))))))).))...)))))))))...((((((.(.((....)).))))))).------------------------ ( -34.30, z-score =  -1.48, R)
>droSim1.chr3L 11368521 120 - 22553184
AUCAGCCCCACCAUGUCGUUCCAGGAAUGGCUGAAGGCGACUUUUCGCCUCAUGCAGAGCGUGGUGGAUAGGGAAGAGUUGGAUUCAGCCUUCCUGGAUUUGCAACACCAAUAUUUACUG
.............(((...((((((((.(((((((..(((((((((.((((((((...)))))).)).....)))))))))..)))))))))))))))...)))................ ( -46.00, z-score =  -3.10, R)
>consensus
AUCAGCCCCACUAUGUCGUUCCAGGAAUGGCUGAAGGCGACUUUUCGCCUCAUGCAGAGCGUGGUGGAUAGGGAAGAGUUGGAUUCAGCCUUCCUG___UU_CA________________
.....................((((((.(((((((..(((((((((.(((((((.....))))).)).....)))))))))..)))))))))))))........................ (-22.87 = -24.10 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 11,808,168 – 11,808,276
Length 108
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 63.22
Shannon entropy 0.50359
G+C content 0.51628
Mean single sequence MFE -32.67
Consensus MFE -16.60
Energy contribution -16.72
Covariance contribution 0.12
Combinations/Pair 1.25
Mean z-score -1.28
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.575803
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11808168 108 - 24543557
------------CAACUGGAAUCACAGCACGGCCUUCUCCAUCAUGUCCCUAUCCUCUUUGAUCCGCAAGAGGCCAAACUUCGCCAAUUGCGUUUCCUAAAACGCCGAAGUGGGGAGAAU
------------...(((......))).......((((((.............((((((........))))))((..((((((......((((((....)))))))))))))))))))). ( -27.80, z-score =  -0.81, R)
>droSec1.super_0 17116063 96 + 21120651
------------------------CAGGAAGGAUGAAUCCAACUCUUCCCUAUCCACCACGCUCUGCAUGAGGCGAAAAGUCGCCUUCAGCCAUUCCUGGAACGACAUAGUGGGGCUGAU
------------------------..((((((.((....)).).)))))........((.((((..((((.(((((....)))))(((((......)))))....))).)..)))))).. ( -28.10, z-score =  -0.67, R)
>droSim1.chr3L 11368521 120 + 22553184
CAGUAAAUAUUGGUGUUGCAAAUCCAGGAAGGCUGAAUCCAACUCUUCCCUAUCCACCACGCUCUGCAUGAGGCGAAAAGUCGCCUUCAGCCAUUCCUGGAACGACAUGGUGGGGCUGAU
((((...((.(.((((((....((((((((((((((.....................((.((...)).))((((((....)))))))))))).)))))))).)))))).)))..)))).. ( -42.10, z-score =  -2.35, R)
>consensus
________________UG_AA___CAGGAAGGCUGAAUCCAACUCUUCCCUAUCCACCACGCUCUGCAUGAGGCGAAAAGUCGCCUUCAGCCAUUCCUGGAACGACAUAGUGGGGCUGAU
..........................(((((.............)))))........((.(((((((....(((((....)))))(((((......)))))........))))))))).. (-16.60 = -16.72 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:40 2011