Locus 6223

Sequence ID 2R_DroMel_CAF1
Location 19,563,325 – 19,563,427
Length 102
Max. P 0.887925
window9971

overview

Window 1

Location 19,563,325 – 19,563,427
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.27
Mean single sequence MFE -26.49
Consensus MFE -17.75
Energy contribution -18.01
Covariance contribution 0.25
Combinations/Pair 1.40
Mean z-score -1.76
Structure conservation index 0.67
SVM decision value 0.95
SVM RNA-class probability 0.887925
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19563325 102 + 20766785
----------------AGACAGCACCCGAA--CGCCAUGCGAAAGUUCUACUGGUACAACGCUAGGACCCCGAUCCUGGUGGGCAAAAUGCGUCUAAAAAACUACAUGCGCAACAUGCAC
----------------((((.((((((...--.((((.((....)).....)))).....(((((((......)))))))))).....))))))).........((((.....))))... ( -26.30)
>DroSec_CAF1 2740 102 + 1
----------------AGACAGCACCCGAA--CGCCAUGCGAAAGUUCUACUGGUACAACACCAGGACCCCGAUCCUGGUGGGCAAAAUGCGCCUAAAAAACUACAUGCGCAACAUGCAC
----------------.....(((......--.(((..((....)).............((((((((......)))))))))))....(((((..............)))))...))).. ( -30.64)
>DroSim_CAF1 2708 102 + 1
----------------AGACAGCACCCGAA--CGCCAUGCGAAAGUUCUACUGGUACAACACCAGGACCCCGAUCCUGGUGGGCAAAAUGCGCCUAAAAAACUACAUGCGCAACAUGCAC
----------------.....(((......--.(((..((....)).............((((((((......)))))))))))....(((((..............)))))...))).. ( -30.64)
>DroEre_CAF1 2737 102 + 1
----------------AGACAGCAUCCGAA--CGCCAUGCGAAAGUUCUACUGGUACAACACCAGGACCCCAGUUUUGGUAGGCAAAAUGCGGCUAAAAAACUAUAUGCGCAACAUGCAC
----------------.....((((.....--.(((..((....))..............((((((((....)))))))).)))....((((.(.............)))))..)))).. ( -23.12)
>DroWil_CAF1 3931 118 + 1
AUAUCAACAAAUGAAAAGUCAGCAACCGAAGACGUCAAG--GAAAAUGUAUUGGUUCAACGCUCACGCUCCCAUAUUGUUCGGAAAACUGCAAAUGUCUAAUAAUAUGAGAGCAAUGCAC
.................((.(((((((((..((((....--....)))).))))))....))).))((((.(((((((((.(((............)))))))))))).))))....... ( -24.10)
>DroYak_CAF1 2898 102 + 1
----------------AGACAGCAUCCGAA--CGCCAUGCGAAAGUUCUACUGGUACAACACCAGGACCCCCAUUUUGGUGGGCAAAAUGCGACUUAAAAACUACAUGCGCAACAUGCAA
----------------.....((((..(..--(((((.((....))....(((((.....)))))...........)))))..)....((((.(.............)))))..)))).. ( -24.12)
>consensus
________________AGACAGCACCCGAA__CGCCAUGCGAAAGUUCUACUGGUACAACACCAGGACCCCGAUCCUGGUGGGCAAAAUGCGACUAAAAAACUACAUGCGCAACAUGCAC
.....................(((.........(((..((....)).............((((((((......)))))))))))....((((................))))...))).. (-17.75 = -18.01 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:02 2006