Locus 1911

Sequence ID X_DroMel_CAF1
Location 5,284,818 – 5,284,926
Length 108
Max. P 0.681168
window3109

overview

Window 9

Location 5,284,818 – 5,284,926
Length 108
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.29
Mean single sequence MFE -28.10
Consensus MFE -23.45
Energy contribution -23.20
Covariance contribution -0.25
Combinations/Pair 1.04
Mean z-score -1.55
Structure conservation index 0.83
SVM decision value 0.31
SVM RNA-class probability 0.681168
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5284818 108 + 22224390
------UGGCAGGACGAGUGCAUCGUUCUUUAUGCCAUGCAUAAAUUACGUGCCACCAGCAAGGACUUUUCACUUUGUUAACUUUGUGAAAAUUGCAUAAACAGCCAGGGAAAC------
------((((.....(.(((((.(((..(((((((...)))))))..))))).)))).((((....(((((((...(....)...))))))))))).......)))).......------ ( -28.10)
>DroSec_CAF1 21711 108 + 1
------UGGCAGGACGAGUGCAUCGUUCUUUAUGCCAUGCAUAAAUUACGUGCCACCAGCAAGGACUUUUCACUUUGUUAACUUUGCGAAAAUAGCAUAAACAGACAGGGCAAC------
------(((((((((((.....))))))(((((((...))))))).....)))))(((((((((........))))))).....(((.......)))..........)).....------ ( -27.00)
>DroEre_CAF1 21639 113 + 1
UCGUGCUGGCAGGACGAGUGCAUCGUUCUUUAUGCCAUGCAUAAAUUACGUGCCACCAGCAAGGACUUUUCACUUUGUUAACUUUGCGAAAAUUGCAUAAACACACACACAUA-------
..(((((((((((((((.....))))))....))))).)))).......(((.....(((((((........))))))).....(((((...)))))....))).........------- ( -27.50)
>DroYak_CAF1 18447 118 + 1
--GACGUGGCAGGACGAGUGCAUCGUUCUUUAUGCCAUGCAUAAAUUACGUGCCACCAGCAAGGACUUUUCACUUUGUUAACUUUGUGAAAAUUGCAUAAACACACACAUACACACACAG
--...((((((((((((.....))))))(((((((...))))))).....))))))..((((....(((((((...(....)...)))))))))))........................ ( -29.80)
>consensus
______UGGCAGGACGAGUGCAUCGUUCUUUAUGCCAUGCAUAAAUUACGUGCCACCAGCAAGGACUUUUCACUUUGUUAACUUUGCGAAAAUUGCAUAAACACACACAGAAAC______
......(((((((((((.....))))))(((((((...))))))).....)))))..(((((((........))))))).....(((.......)))....................... (-23.45 = -23.20 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:41 2006