Locus 8542

Sequence ID 3R_DroMel_CAF1
Location 22,813,472 – 22,813,626
Length 154
Max. P 0.972146
window13727 window13728

overview

Window 7

Location 22,813,472 – 22,813,592
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 79.72
Mean single sequence MFE -25.40
Consensus MFE -15.87
Energy contribution -17.06
Covariance contribution 1.19
Combinations/Pair 1.08
Mean z-score -2.48
Structure conservation index 0.62
SVM decision value 1.69
SVM RNA-class probability 0.972146
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22813472 120 + 27905053
UAUGAAAUCGUACGACCAGCGUUCUUAAACUUUCAAGAUAAAGUAGUCCGCUUAUUGUAAUCAAUUGGAAACAAUAAUGAAUAUAGAGAAGUGGGCGUUAAAAAUAAGGGCAUUAUAAGG
((((....))))........(((((((.(((((......))))).((((((((.(((((.(((((((....))))..))).)))))..))))))))........)))))))......... ( -28.80)
>DroSec_CAF1 22498 103 + 1
UAAG-----------CCAAACUUCUUAAACUUUGAAGAUAAUGUAGUCCGCCUAUAGUAGUCAAUUGAAAACAAUAAUAAAU------AAGUGGACUAUAAAAAUCAGGGAAUUAUAGGG
....-----------((...((((.........))))....((((((((((.(((..((....((((....))))..)).))------).)))))))))).......))........... ( -18.70)
>DroSim_CAF1 22813 120 + 1
UAAGAAUUCAUAAGACCAGCGUUCUUAAACUUUGAAGAUAAAGUAGUCCGCUUAUAGUAGUCAAUUGGAAACAAUAAUAAAUAUAGAAAAGUGGACUAUAAAAAUCAGGGAAUUAUAGGG
(((((((.(.........).)))))))..((((((.......(((((((((((...(((....((((....))))......)))....))))))))))).....)))))).......... ( -25.80)
>DroYak_CAF1 22559 120 + 1
UAAGAAAUUAUAGGCCCACCGUUCUUAAACUUUCAAGAUAAAGUAGGCCGCUUAUUGGAGUCAAUUGGAAACAAUUAUGAAUGUAUAGAAGUGGGUUAUUAAAAUCAGGGUAUUAUAAUG
......(((((((((((...(((....)))......(((..(((((.((((((..((.(.(((((((....))))..))).).))...)))))).)))))...))).)))).))))))). ( -28.30)
>consensus
UAAGAAAUCAUA_GACCAGCGUUCUUAAACUUUCAAGAUAAAGUAGUCCGCUUAUAGUAGUCAAUUGGAAACAAUAAUAAAUAUAGAGAAGUGGACUAUAAAAAUCAGGGAAUUAUAAGG
...............((.....((((........))))....(((((((((((.......(((((((....))))..)))........)))))))))))........))........... (-15.87 = -17.06 +   1.19)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,813,512 – 22,813,626
Length 114
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 85.38
Mean single sequence MFE -26.37
Consensus MFE -18.96
Energy contribution -19.63
Covariance contribution 0.67
Combinations/Pair 1.11
Mean z-score -3.59
Structure conservation index 0.72
SVM decision value 1.62
SVM RNA-class probability 0.968156
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22813512 114 + 27905053
AAGUAGUCCGCUUAUUGUAAUCAAUUGGAAACAAUAAUGAAUAUAGAGAAGUGGGCGUUAAAAAUAAGGGCAUUAUAAGGAGUUUUUACUUUACAGAGAAAGAAUCUUUAUUAA
.....((((((((.(((((.(((((((....))))..))).)))))..))))))))..................(((((((.(((((.(((....)))))))).)))))))... ( -27.40)
>DroSec_CAF1 22527 108 + 1
AUGUAGUCCGCCUAUAGUAGUCAAUUGAAAACAAUAAUAAAU------AAGUGGACUAUAAAAAUCAGGGAAUUAUAGGGAGUUUUUACUUUACAUAUAAAGAAUCCUUACUAU
.((((((((((.(((..((....((((....))))..)).))------).))))))))))......(((((.(((((.(((((....)))))...)))))....)))))..... ( -22.20)
>DroSim_CAF1 22853 113 + 1
AAGUAGUCCGCUUAUAGUAGUCAAUUGGAAACAAUAAUAAAUAUAGAAAAGUGGACUAUAAAAAUCAGGGAAUUAUAGGGAGUUUUUACUUGACAGAUAAAGAAUCCUUA-UAU
..(((((((((((...(((....((((....))))......)))....)))))))))))..............((((((((.((((((((....)).)))))).))))))-)). ( -29.50)
>consensus
AAGUAGUCCGCUUAUAGUAGUCAAUUGGAAACAAUAAUAAAUAUAGA_AAGUGGACUAUAAAAAUCAGGGAAUUAUAGGGAGUUUUUACUUUACAGAUAAAGAAUCCUUA_UAU
..(((((((((((..........((((....)))).............)))))))))))................((((((.((((((.........)))))).)))))).... (-18.96 = -19.63 +   0.67)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:42 2006