Locus 1278

Sequence ID 2R_DroMel_CAF1
Location 5,016,341 – 5,016,455
Length 114
Max. P 0.809380
window2214

overview

Window 4

Location 5,016,341 – 5,016,455
Length 114
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 89.05
Mean single sequence MFE -36.70
Consensus MFE -26.95
Energy contribution -28.75
Covariance contribution 1.80
Combinations/Pair 1.13
Mean z-score -2.10
Structure conservation index 0.73
SVM decision value 0.64
SVM RNA-class probability 0.809380
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5016341 114 - 20766785
GGAGCUGAGCGGGUGGUUUGGGUGGCU-----CAACAUUAUGCUGGCACCCCACCUUCCGUCACUUCAUUCGCUCGGCUCUAGGCUCUGUUAUACAGCUUAUAGCUUUUCAAACUUAAU
((((((((((((((((...((((((..-----...((......)).....)))))).........))))))))))))))))((((((((.....))).....)))))............ ( -37.90)
>DroSec_CAF1 70607 114 - 1
GGAGCUGAGCGGGUGGUUUGGGUGGCU-----CAACAUUAUGCUGGCACCCCACCUUCCGCCACUUCAUUCGCUUGGCUCUAGGCUCUGUUAUACAGCUUAUAGCUUUUCAAACUUAAU
(((((..((((((((((..((((((..-----...((......)).....))))))...)))))).....))))..)))))((((((((.....))).....)))))............ ( -38.90)
>DroEre_CAF1 67663 114 - 1
GGGGCUGAGCGGGUGGUUUGGGUGGCU-----CCACAUUAUGCUGGCGCCCCACCUUCCGCCACUUCAUUCGCUCGGCUCUAGGCUCUGUUAUACAGCUUAUAGCUUUUCAAACUUAAU
(((((((((((((((((..(((((((.-----(((........))).)))..))))...)))))).....)))))))))))((((((((.....))).....)))))............ ( -42.80)
>DroYak_CAF1 76039 114 - 1
GGAGCUGAGCGGGUGGCUUGGGUGGUU-----CAACAUUAUGCUGGCGCCCCACCUUCCGCCACUUCAUUCGCUCGACUCUAGGCUCUGUUAUACAGCUUAUAGCUUUUCAAACUUAAU
((((.((((((((((((..((((((..-----(..((......))..)..))))))...)))))).....)))))).))))((((((((.....))).....)))))............ ( -37.60)
>DroAna_CAF1 71382 109 - 1
GGUGGUG---------UUUGGGUGGUUUUGUACAACAUUAUGCUGGCACCACC-ACUCUGCCACUUCAUUCGCUCGGCCCUAGGCUCUGUUAUACAGCUUAUAGCUUUUCAAACUUAAU
(((((((---------(..(.(((((.((....)).))))).)..))))))))-.....................(((..((((((.........))))))..)))............. ( -26.30)
>consensus
GGAGCUGAGCGGGUGGUUUGGGUGGCU_____CAACAUUAUGCUGGCACCCCACCUUCCGCCACUUCAUUCGCUCGGCUCUAGGCUCUGUUAUACAGCUUAUAGCUUUUCAAACUUAAU
((((((((((((((((....(((((..........((......))............)))))...))))))))))))))))((((((((.....))).....)))))............ (-26.95 = -28.75 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:47 2006