Locus 5972

Sequence ID 2R_DroMel_CAF1
Location 18,805,453 – 18,805,558
Length 105
Max. P 0.865294
window9577

overview

Window 7

Location 18,805,453 – 18,805,558
Length 105
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 77.60
Mean single sequence MFE -22.51
Consensus MFE -13.91
Energy contribution -13.63
Covariance contribution -0.28
Combinations/Pair 1.20
Mean z-score -1.92
Structure conservation index 0.62
SVM decision value 0.85
SVM RNA-class probability 0.865294
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18805453 105 + 20766785
UUUGUUUCAGUGGGGCGCCAACACCUCCCGGCCAGCC-CACACCCACACACUCAAACAAACGUCAAUCACUUGGGAAAAACCCA-----ACCCGAAUGCCCAAAGUAUUGA
(((((((.(((((((((((..........)))..)))-).........)))).)))))))..(((((.(((((((.........-----.........))).))))))))) ( -24.67)
>DroSec_CAF1 24780 84 + 1
UUUGUUUCAGUGGGGCGCCAA---------------------CCCACACACUCAAACAAACGUCAAUCACUUGGGAA-AACCCA-----ACCCGAGUGCCCAAAGUAUUGA
(((((((.(((((((......---------------------)))...)))).)))))))..(((((((((((((..-......-----.))))))))........))))) ( -23.10)
>DroSim_CAF1 25264 101 + 1
UUUGUUUCAGUGGGGCGCCAACACCUCCCAGCCACC----CACCCACACACUUAAACAAACGUCAAUCACUUGGGAA-AACCCA-----ACCCGAGUGCCCAAAGUAUUGA
(((((((.((((.(((..............)))...----........)))).)))))))..(((((((((((((..-......-----.))))))))........))))) ( -22.54)
>DroEre_CAF1 24934 88 + 1
UUUGUUUCAGUGGGGCGCCAACACCUCC----------------CAUACACUCAAACAAACGUCAAUCGCUGGGGAA-AACCCA-----AGCCAAAUGCCCGUGGUAUGG-
(((((((.(((((((.(.......).))----------------)...)))).)))))))........((((((...-..))).-----)))...(((((...)))))..- ( -21.80)
>DroYak_CAF1 25258 110 + 1
UUUGUUUCAGUGGGGCACCAACACCUCCCCGGCAGCCACCCACUCACACACUCAAACAAAUGUCAAUCACUUGGGGA-AAACCAAAUAAAAGCAAAUACCCAAAGUAUUGG
(((((((.(((((((............)))((......))........)))).)))))))...((((.(((((((..-....................))).)))))))). ( -20.45)
>consensus
UUUGUUUCAGUGGGGCGCCAACACCUCCC_G_CA_C____CACCCACACACUCAAACAAACGUCAAUCACUUGGGAA_AACCCA_____ACCCGAAUGCCCAAAGUAUUGA
(((((((.((((.((............................))...)))).)))))))..(((((.(((((((.......................))).))))))))) (-13.91 = -13.63 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:20 2006