Locus 3018

Sequence ID 2L_DroMel_CAF1
Location 8,615,929 – 8,616,046
Length 117
Max. P 0.812359
window4802

overview

Window 2

Location 8,615,929 – 8,616,046
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 80.29
Mean single sequence MFE -24.64
Consensus MFE -16.03
Energy contribution -17.54
Covariance contribution 1.50
Combinations/Pair 1.22
Mean z-score -1.95
Structure conservation index 0.65
SVM decision value 0.65
SVM RNA-class probability 0.812359
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8615929 117 + 22407834
AGUCUCAACAAGCUCUCGACCACAUCCUCCAGUACUACUUGUAUAAUUGCUAAUCAAAAGGGGGAGCUCCGCCAAUGGACAUCUUCAAUAAUCCCCCAUAGUGCCUCCUCGCACUAU
.......(((((..((.((........)).)).....))))).................((((((..((((....))))............))))))(((((((......))))))) ( -23.24)
>DroSec_CAF1 44220 113 + 1
GCUCUCAACAAGCUCUCGACCACAU---CCAGUACUACUUGUAUAAUUGCUAAUCAAAAGGGGGGGCUCCGC-AAUGGAGCUCUCCAAUAAUCCUCCAUAGUGCCUCCUCGCACUAU
((.....(((((..((.((.....)---).)).....)))))......))..........((((((((((..-...))))))))))...........(((((((......))))))) ( -30.10)
>DroSim_CAF1 49923 113 + 1
GGUCUCAACAAGCUCUCGACCACAU---CCAGUACUCCUUGUAUAAUUGCUAAUCAAAAGGGGGAGCUCCGC-AAUGGAGCUCUUCAAUAAUCCUCCAUAGUGCCUCCUCGCACUAU
((((.............))))....---...((((.....))))................((((((((((..-...))))))))))...........(((((((......))))))) ( -30.52)
>DroEre_CAF1 46010 97 + 1
--GCUCAGCAAGCGCUCGACCACAU---UCAGCACUACUUGUAUAAUUUCCAAUUAA-AGUAGGAUCUUCUC-AAUGGACUGCUCCAAUAAUCCAGCA-------------CACCAU
--(((.....)))(((.((......---))))).((((((................)-))))).........-.((((..((((..........))))-------------..)))) ( -14.69)
>consensus
GGUCUCAACAAGCUCUCGACCACAU___CCAGUACUACUUGUAUAAUUGCUAAUCAAAAGGGGGAGCUCCGC_AAUGGACCUCUCCAAUAAUCCUCCAUAGUGCCUCCUCGCACUAU
.......(((((.........................))))).................(((((((((((......)))))..........))))))(((((((......))))))) (-16.03 = -17.54 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:17 2006