Locus 4485

Sequence ID 2R_DroMel_CAF1
Location 14,756,474 – 14,756,570
Length 96
Max. P 0.837767
window7172

overview

Window 2

Location 14,756,474 – 14,756,570
Length 96
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 78.02
Mean single sequence MFE -37.43
Consensus MFE -18.79
Energy contribution -18.68
Covariance contribution -0.11
Combinations/Pair 1.30
Mean z-score -2.23
Structure conservation index 0.50
SVM decision value 0.74
SVM RNA-class probability 0.837767
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14756474 96 + 20766785
CCGGCGGGACAGGCGGGUGG------------CAAGCUGGGCAAGCCAGUGAGCACGCCCACGGUGGUGAAGACCACCACCAAACAGGUGCUGACCAAGAACAUCGAU
..(((((.((..(.((((((------------(..(((((.....)))))..)).))))).)(((((((.....)))))))......)).))).))............ ( -42.10)
>DroVir_CAF1 55706 101 + 1
-CGUUGAACCAAGCUGGCGCCGGC------AGCAAGCUGGGCAAGCCAGUGAGCACGCCCACUGUGGUGAAGACGACAACGAAACAGGUGCUGACCAAGAACGAUGGC
-((((..((((.(((.((.(((((------.....))))))).)))(((((.(....).)))))))))...)))).((.((.....(((....))).....)).)).. ( -32.60)
>DroSec_CAF1 61497 96 + 1
CCGGCGGGACAGUCGGGCGG------------CAAGCUGGGCAAGCCAGUGAGCACGCCCACGGUGGUGAAGACCACCACCAAACAGGUGCUGACCAAGAACAUCGAU
..(((((.((.((.((((((------------(..(((((.....)))))..)).)))))))(((((((.....)))))))......)).))).))............ ( -44.30)
>DroEre_CAF1 61389 96 + 1
CCGGCGGCCCAGGCGGGCGG------------CAAGUUGGGCAAGCCGGUGAGCACGCCCACGGUGGUGAAGACCACCACCAAACAGGUGCUGACCAAGAACAUCGAU
..((((((((..(.((((((------------(..(..((.....))..)..)).))))).)(((((((.....))))))).....)).)))).))............ ( -42.10)
>DroWil_CAF1 80668 99 + 1
GCA---AAUCAAGCAGACAUCAGUCAAUCAUCCAAAUCGGGCAAG------GGAACACCCACUGUGGUCAAGACCACGACCAAACAGGUGCUGACCAAGAAUAAUGAU
...---.((((.((.(((....)))......((.....))))..(------(..(((((.....(((((........)))))....)))).)..))........)))) ( -22.30)
>DroYak_CAF1 62826 96 + 1
CCGGCGGGACAGGCGGGCGG------------CAAGCUUGGCAAGCCAGUGAGCACGCCCACGGUGGUGAAGACCACCACCAAACAGGUGCUGACCAAGAACAUCGAU
..(((((.((..(.((((((------------(..(((.((....)))))..)).))))).)(((((((.....)))))))......)).))).))............ ( -41.20)
>consensus
CCGGCGGGACAGGCGGGCGG____________CAAGCUGGGCAAGCCAGUGAGCACGCCCACGGUGGUGAAGACCACCACCAAACAGGUGCUGACCAAGAACAUCGAU
.(((..........((......................((((..((......))..))))..((((((....)))))).)).....(((....))).......))).. (-18.79 = -18.68 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:54 2006