Locus 651

Sequence ID X_DroMel_CAF1
Location 1,824,129 – 1,824,255
Length 126
Max. P 0.762441
window1050 window1051

overview

Window 0

Location 1,824,129 – 1,824,236
Length 107
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 90.08
Mean single sequence MFE -35.88
Consensus MFE -28.27
Energy contribution -28.02
Covariance contribution -0.25
Combinations/Pair 1.15
Mean z-score -1.46
Structure conservation index 0.79
SVM decision value 0.02
SVM RNA-class probability 0.545985
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1824129 107 + 22224390
CGCCUUGGUGAAUGUGGUAAGUGUCGGGAUUACUUUGUGCCACAAUUAGCAGAUGCCCUCCUUGGUCACGCGCUCACCAGGGGGCUUAGAAUUGCAAAA-UGCAGUUC
(.(((((((((.(((((((((((.......))))...)))))))....((.(.((.((.....)).)))..))))))))))).)....(((((((....-.))))))) ( -37.30)
>DroSec_CAF1 24741 107 + 1
CGCCUUGGUGAAUGUGGUAAGUGUCGGAAUUGCUUUAUGCCGCAAUUAGCAGAUGAUCUCCCUGGUCACGCGCUCUUCAGGGGGCUUAGAAUUGCAAAA-UGCAGUUC
.((((((.(((.(((((((((((.......))))...))))))).))).))).......((((((...........)))))))))...(((((((....-.))))))) ( -33.00)
>DroSim_CAF1 26653 107 + 1
CGCCUUGGUGAAUGUGGUAAGUGUCGGAAUUGCUUUAUGUCGCAAUUACCAGAUGAUCUCCCUGGUCACUCGCUCUUCAGGGGGCUUAGAAUUGCAAAA-UGCAGUUC
.((((((((((.(((((.(((((.......)))))....))))).))))))).......((((((...........)))))))))...(((((((....-.))))))) ( -33.30)
>DroEre_CAF1 24357 108 + 1
CGCCUUGGUGAAUGUGGUAAGUGUCGGGACGGCUUUAUGCCGCAAUUAGGAGGUACCCUCCUUGGUCUCGCGCUCUUCAGGGGACUUAGAAUUGCAAAAUUGCAGUUC
(((....)))....(((..((((.(((((((((.....)))......((((((...))))))..))))))))))..)))(....)...((((((((....)))))))) ( -39.90)
>consensus
CGCCUUGGUGAAUGUGGUAAGUGUCGGAAUUGCUUUAUGCCGCAAUUAGCAGAUGACCUCCCUGGUCACGCGCUCUUCAGGGGGCUUAGAAUUGCAAAA_UGCAGUUC
.((((((.(((.(((((((((((.......))))...))))))).))).))).......((((((...........)))))))))...((((((((....)))))))) (-28.27 = -28.02 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,824,160 – 1,824,255
Length 95
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 89.53
Mean single sequence MFE -27.02
Consensus MFE -24.38
Energy contribution -23.88
Covariance contribution -0.50
Combinations/Pair 1.20
Mean z-score -1.54
Structure conservation index 0.90
SVM decision value 0.51
SVM RNA-class probability 0.762441
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1824160 95 + 22224390
ACUUUGUGCCACAAUUAGCAGAUGCCCUCCUUGGUCACGCGCUCACCAGGGGGCUUAGAAUUGCAAAA-UGCAGUUCAGCAAGUCAAGUAUCUUCC
......(((........)))(((((...(((((((.........)))))))(((((.(((((((....-.)))))))...)))))..))))).... ( -27.20)
>DroSec_CAF1 24772 95 + 1
GCUUUAUGCCGCAAUUAGCAGAUGAUCUCCCUGGUCACGCGCUCUUCAGGGGGCUUAGAAUUGCAAAA-UGCAGUUCAGCAAGUCAAGUAUCUUCC
(((....(((((.....)).........((((((...........)))))))))...(((((((....-.))))))))))................ ( -25.90)
>DroSim_CAF1 26684 95 + 1
GCUUUAUGUCGCAAUUACCAGAUGAUCUCCCUGGUCACUCGCUCUUCAGGGGGCUUAGAAUUGCAAAA-UGCAGUUCAGCAAGUCAAGUAUCUUCC
((((.((...((..........(((.((((((((...........)))))))).)))(((((((....-.))))))).))..)).))))....... ( -25.30)
>DroEre_CAF1 24388 96 + 1
GCUUUAUGCCGCAAUUAGGAGGUACCCUCCUUGGUCUCGCGCUCUUCAGGGGACUUAGAAUUGCAAAAUUGCAGUUCAUGAAGUCAAGUAUCUUCC
((........)).....((((((((...((((((...........))))))(((((.((((((((....))))))))...)))))..)))))))). ( -29.70)
>consensus
GCUUUAUGCCGCAAUUAGCAGAUGACCUCCCUGGUCACGCGCUCUUCAGGGGGCUUAGAAUUGCAAAA_UGCAGUUCAGCAAGUCAAGUAUCUUCC
...................((((((...((((((...........))))))(((((.((((((((....))))))))...)))))..))))))... (-24.38 = -23.88 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:19 2006