Locus 9540

Sequence ID 3R_DroMel_CAF1
Location 25,203,123 – 25,203,217
Length 94
Max. P 0.858281
window15261

overview

Window 1

Location 25,203,123 – 25,203,217
Length 94
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 81.02
Mean single sequence MFE -35.10
Consensus MFE -24.35
Energy contribution -25.07
Covariance contribution 0.71
Combinations/Pair 1.19
Mean z-score -2.12
Structure conservation index 0.69
SVM decision value 0.82
SVM RNA-class probability 0.858281
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25203123 94 + 27905053
AGGCGUCCACCCGCGCACAAAUCUAGGCAACAGC--ACA-----CACU--GAAGCUCGCAAAGAAGUUCGGGAGACACACACGGUGUGUGUGGUGGAAAGCCG
.(((.(((((((((((((.......(....)...--...-----..((--(((..((.....))..)))))............))))))).))))))..))). ( -35.00)
>DroSec_CAF1 62302 91 + 1
AGGCGUCCACCCACGCACAAAUCUAGGCAACAGC--ACA-----CACU--GAAGCUCGCAAGGAAGUUCGGCAGACG---GCCGUGUGUGUGGUGGAAAGCCG
.(((.(((((((((((((.......(((..(((.--...-----..))--)..)))(....).......(((.....---)))))))))).))))))..))). ( -38.70)
>DroSim_CAF1 61751 91 + 1
AGGCGUCCACCCGCGCACAAAUCUAGGCAACAGC--ACA-----CACU--GAAGCUCGCAAAGAAGUUCGGGAGACG---GCCGUGUGUGUGGUGGAAAGCCG
.(((.(((((((((((((.......(....).((--...-----..((--(((..((.....))..)))))......---)).))))))).))))))..))). ( -37.00)
>DroEre_CAF1 64723 93 + 1
AGGCGUCCACCCGCGCACAAAUCUAGGCAACAGC--ACA-----CACUGAACAGCUCGCAAAGAAGCUCGGAGAACG---GCCGUGUGUGUGGUGGGUAGCUG
.(((..((((((((((((...(((..((...(((--...-----.........))).))..))).((.((.....))---)).))))))).)))))...))). ( -32.20)
>DroYak_CAF1 64242 95 + 1
AGGCGUCCACCCGCGCACAAAUCUAGGCAACAGCCAGCA-----CACAGUGGAGCUCGCAAAGAAGUUCGGAGCACG---GCCGUGUGUGUGGUGGAUAGCAG
..((((((((((((((((.......(((....))).((.-----.....(.((((((.....).))))).)......---)).))))))).))))))).)).. ( -37.90)
>DroAna_CAF1 60091 91 + 1
AGGCGUCCACCCGCGCACUUAACUAGGCAACAGA--ACUUCGAGCUAC--GAAGC--GCCGAG-ACUUCGGGUAAUA---GC--UGUGUGUGGUGGAAAUUCG
.((..((((((.((((((....((.(....))).--......(((((.--...((--.(((..-....)))))..))---))--)))))))))))))...)). ( -29.80)
>consensus
AGGCGUCCACCCGCGCACAAAUCUAGGCAACAGC__ACA_____CACU__GAAGCUCGCAAAGAAGUUCGGGAGACG___GCCGUGUGUGUGGUGGAAAGCCG
.(((..((((((((((((.......(....)...................(((..((.....))..)))..............))))))).)))))...))). (-24.35 = -25.07 +   0.71)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:46 2006