Locus 5248

Sequence ID 2L_DroMel_CAF1
Location 14,806,584 – 14,806,696
Length 112
Max. P 0.750322
window8356

overview

Window 6

Location 14,806,584 – 14,806,696
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 66.55
Mean single sequence MFE -27.66
Consensus MFE -10.34
Energy contribution -12.98
Covariance contribution 2.64
Combinations/Pair 1.41
Mean z-score -1.92
Structure conservation index 0.37
SVM decision value 0.47
SVM RNA-class probability 0.750322
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14806584 112 - 22407834
AUGGAAAAAUCAAGUCUUACUGCAAAAAGUAGGCAACUAUGAAGCUAAAGCUAAAUCUUUGAA----GUUCAGAACGCGUACCACUUGCCAUCGGGUACGCAUCUCUGA----GCCCCUU
..((.....((((((((.(((......)))))))........(((....)))......)))).----(((((((..(((((((.(........))))))))...)))))----)).)).. ( -31.30)
>DroSec_CAF1 48066 116 - 1
AUAGAAAAAUCAAGCCUUGCCGCAAAAAGUAGGCAUCUAUGAAGUGAAAGCAAAAUCAUUAAA----GUUCAGAAUGCGUAUCACUUGUUUUCGGGUACGCAUCUCUGAGCGAGCCCCUU
...((....(((((...((((((.....)).)))).)).))).((....))....))......----((((((((((((((((.(........)))))))))).)))))))......... ( -30.10)
>DroSim_CAF1 48644 116 - 1
AUAGAAAAAUCAAGCCUUGCCGCAAAAAGUAGGCAUCUAUGAAGUGAAAGCUAAAUCUUGAAA----GUUCAGAAUGCGUACCACUUGUUUUCGGGUACGCAUCUCUGAGCGAGCCCCUU
.........(((((...((((((.....)).)))).......(((....)))....)))))..----((((((((((((((((.(........)))))))))).)))))))......... ( -35.80)
>DroEre_CAF1 40945 87 - 1
AUAGAAAAAGCAACUCCUGCUGCGAAAAAUAGGCAAUCAUAAAAAGGCAGCUGCAU----------------------------CUG-UUUUAGGGUACGCAGUUCUAA----GCCCCUU
...((...((((.....))))((.........))..)).......(((((((((((----------------------------((.-.....))))..))))))....----))).... ( -15.00)
>DroYak_CAF1 44041 113 - 1
AUAGAAAAAGCAAGUCUUGCUGCGAAAAGUAGACAAUCCGAAAAAA--AAGUGCUUCUUGAAAACCCGUUUCAAAUCUGAACCACUU-UUUUCGGGUUUAGAACUUCCA----GCCUCGU
.........((..((((.(((......)))))))(((((((((((.--.((((.(((((((((.....))))))....))).)))))-))))))))))...........----))..... ( -26.10)
>consensus
AUAGAAAAAUCAAGUCUUGCUGCAAAAAGUAGGCAACUAUGAAGAGAAAGCUAAAUCUUGAAA____GUUCAGAAUGCGUACCACUUGUUUUCGGGUACGCAUCUCUGA____GCCCCUU
.............(((.((((......)))))))...................................((((((((((((((.(........)))))))))).)))))........... (-10.34 = -12.98 +   2.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:43 2006