Locus 7264

Sequence ID 3L_DroMel_CAF1
Location 19,431,145 – 19,431,248
Length 103
Max. P 0.997908
window11810 window11811

overview

Window 0

Location 19,431,145 – 19,431,248
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 66.72
Mean single sequence MFE -17.70
Consensus MFE -8.31
Energy contribution -9.74
Covariance contribution 1.44
Combinations/Pair 1.12
Mean z-score -2.89
Structure conservation index 0.47
SVM decision value 2.96
SVM RNA-class probability 0.997908
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19431145 103 + 23771897
UAAGUGUGCCAUAAGUAGGUAGACAUUUUAUUAAUGGUAUUUACAUACAUAUAUACAUUUCUCGUUCCUAACCUUUUCUGUUUUCAGCACACUUAUCAAUUAU
(((((((((....((.((((((.((((.....))))((((....))))...................)).))))...)).......)))))))))........ ( -18.70)
>DroSec_CAF1 70045 85 + 1
UAAGUAUGCCAUAAAUAGGUAUACUUCUUUAUAUUGGUAUUU------------------CCUUUUGCUAACCUUUUCUGUUUUUAGCACACUUAUUAAAACU
(((((.(((...(((((((((((......))))((((((...------------------.....)))))).....)))))))...))).)))))........ ( -14.00)
>DroSim_CAF1 72378 85 + 1
UAAGUAUGCCAUAAAUAGGUAUACUUCUUUAUAUUGGUAUUU------------------CCUGUUGCUAACCUUUUCUGUUUUCAGCACACUUAUCAAUUAC
.(((((((((.......)))))))))......(((((((...------------------..(((((..(((.......)))..)))))....)))))))... ( -18.50)
>DroYak_CAF1 112516 87 + 1
UAAGUGUGCCACAGAUAGGUAUCAUGCU---UAUUGGUAGCU----ACUUAUAUGCACUUUCAGUCUCUAACUUUA-----UUUCAGCACACUUACUAA----
(((((((((..((.(((((((...((((---....))))..)----)))))).)).......(((.....)))...-----.....)))))))))....---- ( -19.60)
>consensus
UAAGUAUGCCAUAAAUAGGUAUACUUCUUUAUAUUGGUAUUU__________________CCUGUUGCUAACCUUUUCUGUUUUCAGCACACUUAUCAAUUAU
(((((((((...(((((((.........................................................)))))))...)))))))))........ ( -8.31 =  -9.74 +   1.44)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,431,145 – 19,431,248
Length 103
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 66.72
Mean single sequence MFE -16.86
Consensus MFE -9.68
Energy contribution -9.49
Covariance contribution -0.19
Combinations/Pair 1.13
Mean z-score -1.88
Structure conservation index 0.57
SVM decision value 1.99
SVM RNA-class probability 0.985072
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19431145 103 - 23771897
AUAAUUGAUAAGUGUGCUGAAAACAGAAAAGGUUAGGAACGAGAAAUGUAUAUAUGUAUGUAAAUACCAUUAAUAAAAUGUCUACCUACUUAUGGCACACUUA
........(((((((((((....).....((((.(((....(((...((((.(((....))).))))((((.....))))))).)))))))..)))))))))) ( -18.40)
>DroSec_CAF1 70045 85 - 1
AGUUUUAAUAAGUGUGCUAAAAACAGAAAAGGUUAGCAAAAGG------------------AAAUACCAAUAUAAAGAAGUAUACCUAUUUAUGGCAUACUUA
........(((((((((((.(((.((....(((...(.....)------------------....))).((((......))))..)).))).))))))))))) ( -15.60)
>DroSim_CAF1 72378 85 - 1
GUAAUUGAUAAGUGUGCUGAAAACAGAAAAGGUUAGCAACAGG------------------AAAUACCAAUAUAAAGAAGUAUACCUAUUUAUGGCAUACUUA
........(((((((((((.(((.((....(((...(.....)------------------....))).((((......))))..)).))).))))))))))) ( -14.30)
>DroYak_CAF1 112516 87 - 1
----UUAGUAAGUGUGCUGAAA-----UAAAGUUAGAGACUGAAAGUGCAUAUAAGU----AGCUACCAAUA---AGCAUGAUACCUAUCUGUGGCACACUUA
----....((((((((((....-----....(.(((..(((.............)))----..))).)....---.(((.(((....)))))))))))))))) ( -19.12)
>consensus
AUAAUUAAUAAGUGUGCUGAAAACAGAAAAGGUUAGCAACAGG__________________AAAUACCAAUAUAAAGAAGUAUACCUAUUUAUGGCACACUUA
........(((((((((((..........((((..................................................)))).....))))))))))) ( -9.68 =  -9.49 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:34 2006