Locus 1689

Sequence ID 3R_DroMel_CAF1
Location 4,845,760 – 4,845,850
Length 90
Max. P 0.838702
window2786

overview

Window 6

Location 4,845,760 – 4,845,850
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 90.78
Mean single sequence MFE -23.24
Consensus MFE -18.92
Energy contribution -19.44
Covariance contribution 0.52
Combinations/Pair 1.14
Mean z-score -1.66
Structure conservation index 0.81
SVM decision value 0.74
SVM RNA-class probability 0.838702
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4845760 90 + 27905053
UGCAGUGUAUAGCAAAUCGAUAACAAUGCGCUAGGUGGCAACACAGGUGCGUUGAAUCAAGACCAAGUGGCAUUACUAUAAAACUAGAAC
...(((.(((((......(((..(((((((((..(((....))).))))))))).)))..(.((....)))....)))))..)))..... ( -23.40)
>DroSec_CAF1 26474 90 + 1
UGCAGUGUAUAGCACUUCGAUAACAAUGCGCUAGGUGGCAGCGCAGGUGCAUUGAAUCAAGACCAAGUGGCAUUACUACAAAUGUAGACC
(((((((.....))))..(((..(((((((((..(((....))).))))))))).)))...........)))...((((....))))... ( -24.20)
>DroSim_CAF1 28363 90 + 1
UGCAGUGUAUAGCACUUCGAUAACAAUGCGCUAGGUGGCAACGCAGGUGCAUUGAAUCAAGACCAAGUGGCAUUACUACAAAAGUAGACC
(((((((.....))))..(((..(((((((((..(((....))).))))))))).)))...........)))...((((....))))... ( -27.40)
>DroEre_CAF1 26744 89 + 1
UGCAGUGUA-AGCACUUCGAUAACAAUGCGCUAGGUGGCAACGCAGGUACAUUCAAUGAAAACCAUGUGGCAUUACUACAAAAUUAGACC
.(.((((..-..)))).)......((((((((....)))..(((((((.............))).)))))))))................ ( -16.42)
>DroYak_CAF1 26858 88 + 1
UGCAGUGUAUAGCACUUCGAUAACAAUGCGCUAGGUGGCAACGCAGGUACAUUGAAU-AAUGCCAAGUGGCAUUACUG-AAAAUUAGACC
.(.((((.....)))).).....(((((..((..(((....))).))..)))))..(-((((((....)))))))...-........... ( -24.80)
>consensus
UGCAGUGUAUAGCACUUCGAUAACAAUGCGCUAGGUGGCAACGCAGGUGCAUUGAAUCAAGACCAAGUGGCAUUACUACAAAAGUAGACC
(((((((.....)))).......(((((((((..(((....))).)))))))))...............)))...(((......)))... (-18.92 = -19.44 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:57 2006