Locus 5522

Sequence ID 2R_DroMel_CAF1
Location 17,663,889 – 17,664,101
Length 212
Max. P 0.794303
window8847 window8848

overview

Window 7

Location 17,663,889 – 17,663,994
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.06
Mean single sequence MFE -28.44
Consensus MFE -22.65
Energy contribution -23.78
Covariance contribution 1.13
Combinations/Pair 1.04
Mean z-score -1.77
Structure conservation index 0.80
SVM decision value 0.60
SVM RNA-class probability 0.794303
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17663889 105 - 20766785
ACCUGGACAUGGCUUUAUAAUUUGCACAAUGGCCAGGAGUGAAAAGAAGUCGACUUGAAAAGAUACGAACUGUCUUAUCGAGAACG---------------AUCGACACUACUCUAUGCA
.(((((.(((.((..........))...))).)))))...........((((((((((.((((((.....)))))).)))))....---------------.)))))............. ( -27.60)
>DroSec_CAF1 17318 120 - 1
ACCUGGACAUGGCUUUAUAAUUUUCACAAUGGCCAGGAGUGAAAAGAAGUCGACUUGAAAAGAUACGAACUGUCUUAUCGAGAACGAAAGCUUCAACAUCAAUCGACACUGCUCUAUGAA
.(((((.(((..................))).)))))...........((((((((((.((((((.....)))))).)))))..(....)............)))))............. ( -26.47)
>DroEre_CAF1 17718 120 - 1
ACCUGGACAUGGCUUUAUAAUUUGCACAAUGGCCAGGAGUGAAAAGAAAUCGACUUCAAAAGAUACGAACUGUCUUAUCGAGAACGAAAGCUUCAACAUGAGUCGACACAGCUCUAUGCA
.(((((.(((.((..........))...))).))))).(((........((((((.((.((((((.....)))))).....((((....).)))....))))))))))).((.....)). ( -29.90)
>DroYak_CAF1 29344 109 - 1
ACCUGGACAUGGCUUUAUAAUUUGCACAAUGGCCAGGAUUGAAAGAAAGUCGACUUGAAAAGAUACGAACUGUCUGAUCGAGAAUGAAAGCUUCAGCAUGGUUCGACAU-----------
.(((((.(((.((..........))...))).)))))...........((((((((((..(((((.....)))))..))))).......((....)).....)))))..----------- ( -29.80)
>consensus
ACCUGGACAUGGCUUUAUAAUUUGCACAAUGGCCAGGAGUGAAAAGAAGUCGACUUGAAAAGAUACGAACUGUCUUAUCGAGAACGAAAGCUUCAACAUGAAUCGACACUGCUCUAUGCA
.(((((.(((.((..........))...))).)))))...........((((((((((.((((((.....)))))).)))))..(....)............)))))............. (-22.65 = -23.78 +   1.13)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,663,994 – 17,664,101
Length 107
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.93
Mean single sequence MFE -34.60
Consensus MFE -32.03
Energy contribution -32.03
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.93
SVM decision value 0.12
SVM RNA-class probability 0.595194
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17663994 107 - 20766785
UUUGUCUUCGGCUGUUGCUGCAGCUGGAGGUGUUAUUUUUAUGGCUUUAUAAUGUGAGUCAGA-------------CGGGCUCUUCCUUGGUUCUUGCCCCGUUACGUGGCAUGUCAAUC
.....((((((((((....))))))))))(((((((.....((((((........))))))((-------------(((((....(....).....).))))))..)))))))....... ( -33.60)
>DroEre_CAF1 17838 107 - 1
UUUGUCUUCGGCUGUUGCAGCAGCUGGAGGUGUUAUUUUUAUGGCUUUAUAAUGUGAGUCAGA-------------CGGGCUCUUCCUUGGUUCUUGCCCCGUUACGUGGCAUGUCAAUC
.....((((((((((....))))))))))(((((((.....((((((........))))))((-------------(((((....(....).....).))))))..)))))))....... ( -33.40)
>DroYak_CAF1 29453 120 - 1
UUUGUCUUCGGCUGUUGCUGCAGCUGGAGGUGUUAUUUUUAUGGCUUUAUAAUGUGAGUCAGACGGUACAGACGGACGGGCUCUUCCUUGGUUCUUGCCCCGUUACGUGGCAUGUCAAUC
..(..((((((((((....))))))))))..).........((((((........))))))((((((....((((((((((....(....).....).)))))).))).)).)))).... ( -36.80)
>consensus
UUUGUCUUCGGCUGUUGCUGCAGCUGGAGGUGUUAUUUUUAUGGCUUUAUAAUGUGAGUCAGA_____________CGGGCUCUUCCUUGGUUCUUGCCCCGUUACGUGGCAUGUCAAUC
.....((((((((((....))))))))))(((((((.....((((((........))))))................((((....(....).....))))......)))))))....... (-32.03 = -32.03 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:37 2006