Locus 8396

Sequence ID 3R_DroMel_CAF1
Location 22,362,941 – 22,363,056
Length 115
Max. P 0.930286
window13525

overview

Window 5

Location 22,362,941 – 22,363,056
Length 115
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 87.79
Mean single sequence MFE -28.43
Consensus MFE -20.54
Energy contribution -20.36
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -2.69
Structure conservation index 0.72
SVM decision value 1.20
SVM RNA-class probability 0.930286
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22362941 115 + 27905053
CAAAAUGGCAAGGCCAGGCAAACACAAAA--AAGAA-AAAAGUCUAUCUUACGUUUUUCCCUUGCCGUUUCACGUAGCGCAACGCCUAACGUAAUCGCAAUGCGAGAAGCAAUCAAAU
......(((((((...(.....)......--..(((-(((.((.......)).)))))))))))))(((((.(((((((..(((.....)))...)))..)))).)))))........ ( -27.30)
>DroSim_CAF1 74639 113 + 1
CAAAAUGGCAAGGCCAGGCAA---CAAAA--ACGAAAAAAAGUCUAUCUUACGUUUUUCCCUUGCCGUUUCACGUAGCGCAACGCUUAACGUAAUCGCAAUGCGAGAAGCAAUCAAAU
......(((((((...(....---)((((--(((.....(((.....))).))))))).)))))))(((((((((((((...))))..))))..((((...)))))))))........ ( -30.90)
>DroEre_CAF1 73461 108 + 1
CAAAAUGGCAAGGCCAGGCAA---CAAGAAAAUAAAAAAAAGGCUAUCUUACGUU-UUCCCUUGCCGUUUCACGUAGCGCAACGCCUAACGUA------AUGCGCGAAGCAAUCAAAU
..(((((((((((...(....---)..((((((...................)))-))))))))))))))...((.((((((((.....))).------.)))))...))........ ( -27.31)
>DroYak_CAF1 73005 103 + 1
CAAAAUGGCAAGGCCAGGCAA---CAAGAA-----AAAAAAGUCUAUCUUACGUU-CUCCCUUGCCGUUUCACGUAGCGCAGCGCCUAACGUA------AUGCGCGAAGCAAUCAAAU
..(((((((((((...(....---).((((-----....(((.....)))...))-)).)))))))))))...((.((((((((.....))).------.)))))...))........ ( -28.20)
>consensus
CAAAAUGGCAAGGCCAGGCAA___CAAAA__A_GAAAAAAAGUCUAUCUUACGUU_UUCCCUUGCCGUUUCACGUAGCGCAACGCCUAACGUA______AUGCGAGAAGCAAUCAAAU
......(((((((...(((.................................)))....)))))))(((((.((((.....(((.....)))........)))).)))))........ (-20.54 = -20.36 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:32 2006