Locus 2541

Sequence ID 2L_DroMel_CAF1
Location 7,026,593 – 7,026,685
Length 92
Max. P 0.540989
window4062

overview

Window 2

Location 7,026,593 – 7,026,685
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 76.02
Mean single sequence MFE -22.02
Consensus MFE -15.96
Energy contribution -15.60
Covariance contribution -0.36
Combinations/Pair 1.48
Mean z-score -0.85
Structure conservation index 0.72
SVM decision value 0.01
SVM RNA-class probability 0.540989
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7026593 92 + 22407834
UGGGUCGCUCGUCUGCAGCUUUGUUUGCAGAGUCAUAGAGAGCUGGGCAAGAAAAAAUAAAAAAAAAGGGGGGGGGGUGUUCCAUUGGUUAU
(((..(((((.(((((((......)))))))(((.(((....))))))..........................)))))..)))........ ( -21.60)
>DroPse_CAF1 14499 78 + 1
UCCCUCGCUUGUUUGCAGCUUGGUUUGCAGAGUCAUAGAGAGCUGGGCAGGUCAGAA--CAA----------GUGGGUGCGAAAUAGA--AU
((((((((((((((((.(((..(((..(.........)..)))..)))..))..)))--)))----------))))).).))......--.. ( -23.30)
>DroSec_CAF1 12624 82 + 1
UGGGUCGCUCGCCUGCAGCUUUGUUUGCAGAGUCAUAGAGAGCUGGAUAAGAAAAAAAAUAA----------GGGAGUGUUCCAUCGGUUAU
(((..(((((.(((.(((((((.(.((......)).).)))))))................)----------)))))))..)))........ ( -21.33)
>DroSim_CAF1 12765 82 + 1
UGGGUCGCUCGCCUGCAGCUUUGUUUGCAGAGUCAUAGAGAGCUGGGCAAGAAAAAAUAUAA----------GGGGGUGUUCCAUCGGUUAU
(((..(((((.(((.........(((((..(((........)))..)))))..........)----------)))))))..)))........ ( -21.31)
>DroEre_CAF1 12877 73 + 1
UGGGUCGCUCGCCUGCAGCUUUGUUUGCAGAGUCAUAGAGAGCUGGGGAAG---------AG----------AGUGGUGUCUCAUCGGUUAU
((((((((((.(((.(((((((.(.((......)).).))))))))))...---------.)----------)))))...))))........ ( -21.70)
>DroYak_CAF1 13080 76 + 1
UGGAUCGCUCGCCUGCAGCUUUGUUUGCAGAGUCAGGGAGAGCUAGGGAAA------AAUAG----------AGGGGUGUUCCAUCGGUUAU
..((((((((.((((..((((((....))))))))))..))))..((((..------.((..----------....)).))))...)))).. ( -22.90)
>consensus
UGGGUCGCUCGCCUGCAGCUUUGUUUGCAGAGUCAUAGAGAGCUGGGCAAGAAAAAA_AUAA__________GGGGGUGUUCCAUCGGUUAU
((((.(((((..((((((......)))))).(((.(((....))))))..........................))))).))))........ (-15.96 = -15.60 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:19 2006