Locus 5111

Sequence ID 3L_DroMel_CAF1
Location 14,027,263 – 14,027,353
Length 90
Max. P 0.593435
window8097

overview

Window 7

Location 14,027,263 – 14,027,353
Length 90
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 78.99
Mean single sequence MFE -30.45
Consensus MFE -14.75
Energy contribution -15.98
Covariance contribution 1.22
Combinations/Pair 1.29
Mean z-score -2.10
Structure conservation index 0.48
SVM decision value 0.12
SVM RNA-class probability 0.593435
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14027263 90 + 23771897
--AGGCGCCGCUCUAAUUAAGCUCGAC--CAAAUGGCUUUGCGCAAUGGAAUUGUGUGC----GCGUAGGCCAG---UUGGAAUUUCAAAGGCGUCUAUGC
--((((((((((.......)))....(--(((.((((((((((((((......)).)))----))).)))))).---)))).........))))))).... ( -35.70)
>DroPse_CAF1 28818 95 + 1
--GGCCGCCGCUCCAAUUAAACCCCACAGCAAAUGGCUUUGCGCAAUACAAC-AUGUGCACAUGUGUACAUGAG---UUGGAAUUCCGAAGGCGUUUACGA
--.(((..((.(((((((..........(((((....))))).........(-(((((((....))))))))))---)))))....))..)))........ ( -27.30)
>DroSim_CAF1 26389 90 + 1
--AGGCGCCGCUCUAAUUAAGCUCGAC--CAAAUGGCUUUGCGCAAUGGAAUUGUGUGC----GCGUAGGCCAG---UUGGAAUUUCAAUGGCGUUUAUGC
--((((((((((.......)))....(--(((.((((((((((((((......)).)))----))).)))))).---)))).........))))))).... ( -33.00)
>DroEre_CAF1 23427 90 + 1
--AGGCGCCGCUCUAAUUAAGCUCUAC--UAAAUGGCUUUGCGCAAUGGAAUUGUGUGA----GCGUAGGCCAG---UUGGAAUUCCUAAGGCUUUUAUGC
--....((((((.......)))....(--(((.((((((.((((.((........))..----)))))))))).---)))).........)))........ ( -22.40)
>DroYak_CAF1 26499 90 + 1
--AGGCGCCGCUCUAAUUGAGCUCUAC--CAAAUGGCUUUGCGCAAUGGAAUUGUGUGC----GCGUAGGCCAG---UUGGAAUUCCAAAGGCGUUUAUGC
--(((((((((((.....))))....(--(((.((((((((((((((......)).)))----))).)))))).---)))).........))))))).... ( -37.70)
>DroAna_CAF1 28216 87 + 1
CUGGUGGCCACUCUAAUUAAACUAUUC--CAAAUGGCUUUGCGCAAUCGG-------GC----UCGGA-ACCAGAGCUCGGAAUGCCAAAGGCGUUUAUGC
.(((.(....).)))............--.(((((.(((((.(((.((((-------((----((...-....))))))))..)))))))).))))).... ( -26.60)
>consensus
__AGGCGCCGCUCUAAUUAAGCUCUAC__CAAAUGGCUUUGCGCAAUGGAAUUGUGUGC____GCGUAGGCCAG___UUGGAAUUCCAAAGGCGUUUAUGC
..(((((((........................((((((.((((...................))))))))))....((((....)))).))))))).... (-14.75 = -15.98 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:15 2006