Locus 5683

Sequence ID 3L_DroMel_CAF1
Location 15,565,266 – 15,565,425
Length 159
Max. P 0.998780
window8987 window8988

overview

Window 7

Location 15,565,266 – 15,565,385
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 75.93
Mean single sequence MFE -29.84
Consensus MFE -16.96
Energy contribution -18.80
Covariance contribution 1.84
Combinations/Pair 1.12
Mean z-score -2.86
Structure conservation index 0.57
SVM decision value 3.22
SVM RNA-class probability 0.998780
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15565266 119 - 23771897
UGUGUGGGCUACAUUGUAGAUUGCAGAUUUCAUAAAUAUUUGUUGAGAUCUGUUAUCAUAGCGAAAUAAAUCGUUGUCAGCUCUUUGAGCUGGCAUAGCAUUUGUUUGUUACUCAUGCU
.(((((((..........(((.((((((((((...........)))))))))).))).((((.((((((((.(((((((((((...)))))))))..))))))))))))))))))))). ( -41.20)
>DroSec_CAF1 27619 108 - 1
-----------GAUUGUAGAUUGUAGAUUUCAUAAAUAUUUGUUGAGAUCUGUUAUCAUAGCGAAAUAAAUCGUUGUCAGCUCUUUGAGCUGCCUUAGCAAUUGUUUGUUACUCAUGCU
-----------....((((((..(((((((((...........)))))))))..))).(((((((...(((.((((.((((((...))))))...)))).))).)))))))....))). ( -27.40)
>DroSim_CAF1 28092 102 - 1
UGUGUGGGCUAGAUUGUAGAUUGUAGAUUUCAUAAAUAUUUGUUGAGAUCUGUUAUCAUAGCGAAAUAAAUCGUUGUCAGCUCUU-----------------UGUUUGUUACUCAUGCU
.(((((((..........(((..(((((((((...........)))))))))..)))(((((((......)))))))........-----------------.........))))))). ( -23.50)
>DroEre_CAF1 27908 108 - 1
UAUGUGGGCU-------AGAUUGCAGAUUUUAUAAAUAUUGGUUGAGAUCUGUUAUCAUAGCGAGAUAAAUCGUUGUCAGCUUUUUGAGCUGGCACAGCAAU----UGUUACUCAUGCC
.....(((((-------((((.((((((((((...........)))))))))).))).))))(((...(((.(((((((((((...)))))))))..)).))----)....)))...)) ( -32.40)
>DroYak_CAF1 48143 101 - 1
UGUGUGGGCCAGAUUGUAGAUUGUAGAUUUCAUAAAUAUUGGCUGAGAUCUGUUAUCAUAGCGAAAUAAAGCAAUA--------------AAGCAAAGCAAU----UGUUACUCAUGCU
.(((((((...((((((.(((..(((((((((...........)))))))))..)))...((........))....--------------.......)))))----)....))))))). ( -24.70)
>consensus
UGUGUGGGCUAGAUUGUAGAUUGUAGAUUUCAUAAAUAUUUGUUGAGAUCUGUUAUCAUAGCGAAAUAAAUCGUUGUCAGCUCUUUGAGCUGGCAUAGCAAUUGUUUGUUACUCAUGCU
.(((((((..........(((..(((((((((...........)))))))))..)))(((((((......)))))))..................................))))))). (-16.96 = -18.80 +   1.84)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,565,306 – 15,565,425
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 85.99
Mean single sequence MFE -26.88
Consensus MFE -18.60
Energy contribution -19.60
Covariance contribution 1.00
Combinations/Pair 1.16
Mean z-score -1.65
Structure conservation index 0.69
SVM decision value 0.18
SVM RNA-class probability 0.622620
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15565306 119 - 23771897
AAUUUAAUUGUCUUACAGCGUGACAAACUUUUUCUCUACAUGUGUGGGCUACAUUGUAGAUUGCAGAUUUCAUAAAUAUUUGUUGAGAUCUGUUAUCAUAGCGAAAUAAAUCGUUGUCA
.......(((((.........)))))........((((((((((.....)))).))))))..((((((((((...........))))))))))....(((((((......))))))).. ( -27.40)
>DroSim_CAF1 28115 119 - 1
AAUUUUAUUGUCUUACAGCGUGACAAUCUUUUUCUGUACAUGUGUGGGCUAGAUUGUAGAUUGUAGAUUUCAUAAAUAUUUGUUGAGAUCUGUUAUCAUAGCGAAAUAAAUCGUUGUCA
..............((((((..(((((((...((..((....))..))..))))))).(((..(((((((((...........)))))))))..)))..............)))))).. ( -27.20)
>DroEre_CAF1 27944 112 - 1
AAUUUUAUUAUCUUACAGAGUGGCAAUCCUUUGCUGUACAUAUGUGGGCU-------AGAUUGCAGAUUUUAUAAAUAUUGGUUGAGAUCUGUUAUCAUAGCGAGAUAAAUCGUUGUCA
.......(((((((...(.(..((((....))))..).)........(((-------((((.((((((((((...........)))))))))).))).))))))))))).......... ( -28.90)
>DroYak_CAF1 48168 116 - 1
AAUUUUAUUGUCUUACAGAGUGACGAUCGUUUUCUGUACUUGUGUGGGCCAGAUUGUAGAUUGUAGAUUUCAUAAAUAUUGGCUGAGAUCUGUUAUCAUAGCGAAAUAAAGCAAUA---
.....(((((..(((....((.((((((....((..((....))..))...)))))).(((..(((((((((...........)))))))))..)))...))....)))..)))))--- ( -24.00)
>consensus
AAUUUUAUUGUCUUACAGAGUGACAAUCUUUUUCUGUACAUGUGUGGGCUAGAUUGUAGAUUGCAGAUUUCAUAAAUAUUGGUUGAGAUCUGUUAUCAUAGCGAAAUAAAUCGUUGUCA
...........((((((.(((((((.........))).))))))))))..........(((..(((((((((...........)))))))))..)))(((((((......))))))).. (-18.60 = -19.60 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:32 2006