Locus 3252

Sequence ID 3L_DroMel_CAF1
Location 9,516,435 – 9,516,553
Length 118
Max. P 0.822482
window5058

overview

Window 8

Location 9,516,435 – 9,516,553
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 72.02
Mean single sequence MFE -36.27
Consensus MFE -14.21
Energy contribution -16.30
Covariance contribution 2.09
Combinations/Pair 1.35
Mean z-score -2.04
Structure conservation index 0.39
SVM decision value 0.69
SVM RNA-class probability 0.822482
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9516435 118 - 23771897
CGAUUUUCACGGUUC--AGCCGGAGUUACGAGUCAUCCAGACCAGUGUCCUUCUAUCGCUGGUCAUGCAGUCGAACUCCAUAUACGAGGAUCAUAUCAACGAUCUGAUCCAUCGGGUUCA
...............--((((((((((.(((.((((...((((((((.........))))))))))).).))))))))).....(((((((((.(((...))).)))))).))))))).. ( -41.60)
>DroVir_CAF1 25547 115 - 1
CUGUGCUAUGCUUUC--AGCCUGGCCU---GAUCUUUCGCUACAAGAUUCUCGCCUCCGUGCCCUUGCAGGCGAACUCCAUCUUUGCGGAGCCACUGGAAGAGCUCAUGUUUCGAGUGCA
...(((....(((((--((..((((..---.....(((((...(((((..((((((.((......)).)))))).....))))).)))))))))))))))).((((.......))))))) ( -33.51)
>DroSec_CAF1 25420 118 - 1
CGAUUUUCACGGUUC--AGCCGGAGUUACGGGUCAUCCAGACCAGUGUCCUACUAUCGCUGGUCAUGCAAUCGAACUCCAUAUACGAGGAUCAUAUCAACGAUCUGAUCCAUCGGGUUCA
...............--((((((((((.((((....)).((((((((.........)))))))).......)))))))).....(((((((((.(((...))).)))))).))))))).. ( -40.30)
>DroSim_CAF1 27612 118 - 1
CGAUUUUCACGGUUC--AGCCGGAGUUACGGGUCAUCCAGACUAGUGUCCUUCUAUCGCUGGUCAUGCAGUCGAACUCCAUAUACGAGGAUCAUAUCAACGAUCUGAUCCAUCGAGUUCA
..........((...--..))((((((.(((.((((...((((((((.........))))))))))).).))))))))).....(((((((((.(((...))).)))))).)))...... ( -36.70)
>DroEre_CAF1 25493 118 - 1
CGCUUUUCACGGUUC--AGCCGGGCUUGCGGAUCAUCGAGACCAGUGUCCUUCUAUCACUGGUCAUGCAGUCCAACUCCAUAUAUGAAGAUCAUAUCAACGAUCUGAUCCAUCGCGUUCA
(((......(((...--..))).......(((((.(((.((((((((.........))))))))(((.((.....)).)))...)))(((((........))))))))))...))).... ( -34.90)
>DroAna_CAF1 20500 118 - 1
CGGCCU--AUUGUUCCUUGCCAGGACUAUGGAUCAUAAGCACAAAUGUCCUUUUGACCGUGCCGAUGCAGGCAAACUCAAUUUACGAGGAACCACUCAACGGUCACAUCAGUCGAGUUCA
.(((..--..........))).(((((..(((.(((........))))))...((((((((((......))).............(((......))).))))))).........))))). ( -30.60)
>consensus
CGAUUUUCACGGUUC__AGCCGGAGUUACGGAUCAUCCAGACCAGUGUCCUUCUAUCGCUGGUCAUGCAGUCGAACUCCAUAUACGAGGAUCAUAUCAACGAUCUGAUCCAUCGAGUUCA
.........((((.....)))).................((((((((.........))))))))........((((((.........(((((........)))))........)))))). (-14.21 = -16.30 +   2.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:04 2006