Locus 6617

Sequence ID 3R_DroMel_CAF1
Location 17,418,671 – 17,418,767
Length 96
Max. P 0.895435
window10772

overview

Window 2

Location 17,418,671 – 17,418,767
Length 96
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 84.27
Mean single sequence MFE -26.50
Consensus MFE -17.41
Energy contribution -17.98
Covariance contribution 0.56
Combinations/Pair 1.20
Mean z-score -2.37
Structure conservation index 0.66
SVM decision value 0.99
SVM RNA-class probability 0.895435
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17418671 96 - 27905053
AGCAAAGUAAUCAGUGCUCAUC--UCCCGAGAGAAAGGAGAUGCAUUAAUUCUUCUUUUUCUUCUACGAGGAAAUGC-GAGAGUGCGGCUUUGUAGAAA
.(((((((.....(..(((.((--(((((((((((((((((.........))))))))))))....)).))).....-)))))..).)))))))..... ( -30.40)
>DroSec_CAF1 22819 96 - 1
CGCAAAGUAAUCAGUGCUCAUC--UCCCGAGAGAAAGGAAAUAAAUGAAUUCUUCUCUUUCGCCUACGAGAAUCUGU-GAGGGUGCGGCUUUGUAGAAA
.(((((((.....(..(((...--...(((((((.(((((.........))))).)))))))..((((......)))-).)))..).)))))))..... ( -25.00)
>DroSim_CAF1 20124 96 - 1
CGCAAAGUAAUCAGUGCUCAUC--UCCCGAGAGAAAGGAAAUAAAUCAAUUCUUCUCUUUCGCCUACGAGAAUCUGC-GAGAGUGCGGCUUUGUAGAAA
.(((((((.....(..(((.((--((.(((((((.(((((.........))))).))))))).....)))).((...-)))))..).)))))))..... ( -25.90)
>DroYak_CAF1 19925 99 - 1
CACAAAGUAAUCAAUGCUCAUCUUUCCCGAGAGAAAGAAAAUAAAUGAAUUCUUCUCUCUCGUCUACCGGAAUCUCAAAAGAGUUCGGCUCGAAAGAAA
.....((((.....))))..((((((.((((((((((((..........))))).)))))))....(((((.(((....))).)))))...)))))).. ( -24.70)
>consensus
CGCAAAGUAAUCAGUGCUCAUC__UCCCGAGAGAAAGGAAAUAAAUGAAUUCUUCUCUUUCGCCUACGAGAAUCUGC_GAGAGUGCGGCUUUGUAGAAA
.(((((((.....((((((.........(((((((.(((..........))))))))))((........)).........)))))).)))))))..... (-17.41 = -17.98 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:59 2006