Locus 1053

Sequence ID 3R_DroMel_CAF1
Location 3,268,617 – 3,268,720
Length 103
Max. P 0.769307
window1704

overview

Window 4

Location 3,268,617 – 3,268,720
Length 103
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 79.97
Mean single sequence MFE -33.45
Consensus MFE -16.05
Energy contribution -18.17
Covariance contribution 2.12
Combinations/Pair 1.25
Mean z-score -2.53
Structure conservation index 0.48
SVM decision value 0.52
SVM RNA-class probability 0.769307
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3268617 103 + 27905053
CAGCUGAUUGACAUUA-UGCAUU-GCCAUUG----GGAUGAUUGUGUUAUUGGCGGCAAGUCCGGUGGCGAUCUGCAUGCAACAGCUUAUUUAAAUGGCUGUCGGCUAU
.((((((.......((-((((((-(((((((----((....((((((.....)).)))).)))))))))))..))))))...(((((.........))))))))))).. ( -36.60)
>DroSec_CAF1 21811 102 + 1
CAGCUGAUUGACAUUA-UGCAUU-GCCAUUG-----GAUGAUUGUGUUAUUGGCGGCAAGUCCGUUGGCGAUCUGCAUGCAACAGCUUAUUUAAAUGGCUGUCGGCUAU
.((((((.......((-((((((-((((.((-----(((..((((((.....)).))))))))).))))))..))))))...(((((.........))))))))))).. ( -34.00)
>DroSim_CAF1 22692 102 + 1
CAGCUGAUUGACAUUA-UGCAUU-GCCAUUG-----GAUGAUUGUGUUAUUGGCGGCAAGUCCGUUGGCGAUCUGCAUGCAACAGCUUAUUUAAAUGGCUGUCGGCUAU
.((((((.......((-((((((-((((.((-----(((..((((((.....)).))))))))).))))))..))))))...(((((.........))))))))))).. ( -34.00)
>DroEre_CAF1 23554 88 + 1
CAGCUGAUUGACAUUA-UGCAUC-GCCAUUG-----GAUGAUUGUG--------------UCCGGUGGCGAACUGCAUGCAACAGCUUAUUUAAAUGGCUGUCGGCUAU
.((((((.......((-((((((-(((((((-----(((......)--------------)))))))))))..))))))...(((((.........))))))))))).. ( -38.20)
>DroYak_CAF1 41298 102 + 1
CAGCUGAUUGACAUUA-UGCGUU-GCCAUUG-----AAUGAUUGUUUUAUUGGCGGCAAGACCGGUGGCGAUCCGCAUGCAACAGCUUAUUUGAAUGACUGUCGGCUAU
.(((((((.(.(((((-((((((-(((((((-----.....(((((........)))))...)))))))))..)))))((....)).......)))).).))))))).. ( -30.50)
>DroPer_CAF1 21631 96 + 1
CGGCUGAUUGACAUUAAUGCGUUCGCCCGUGUAGAGGAUGAAGAGG------AUGCCCCUGCCACUGGCGAUCUUGAUGCAACAGCUUAUUCAAAUUG-------AUAU
.(((((.(((.((((((.(...(((((.((((((.((.........------...)).))).))).))))).)))))))))))))))...........-------.... ( -27.40)
>consensus
CAGCUGAUUGACAUUA_UGCAUU_GCCAUUG_____GAUGAUUGUGUUAUUGGCGGCAAGUCCGGUGGCGAUCUGCAUGCAACAGCUUAUUUAAAUGGCUGUCGGCUAU
.(((((((...((((..((((...(((((((........((((.((((......)))))))))))))))....)))).((....)).......))))...))))))).. (-16.05 = -18.17 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:22 2006