Locus 3904

Sequence ID 2R_DroMel_CAF1
Location 12,873,668 – 12,873,777
Length 109
Max. P 0.520481
window6303

overview

Window 3

Location 12,873,668 – 12,873,777
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 85.34
Mean single sequence MFE -14.33
Consensus MFE -14.20
Energy contribution -13.70
Covariance contribution -0.50
Combinations/Pair 1.12
Mean z-score -0.97
Structure conservation index 0.99
SVM decision value -0.03
SVM RNA-class probability 0.520481
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12873668 109 + 20766785
CUAUUAUGUAUUUUUCAUCUGUUCGCCUGUGCCAACACAAAUACAAACUCAACCACACCCACCCACACACACACUGUAACUGCUUCUACGAUGGAUGGUACGAAUACAA
......(((((((.(((((((((....((((....))))....................................(((........))))))))))))...))))))). ( -15.40)
>DroSec_CAF1 6762 105 + 1
CUAUUAUGUAUUUUUCAUCUGUUCGCCUGUGCCAACACAAAAACAAACUCAACCACACCCAC--AC--ACACACUGUAACUGCUUCUACGAUGGAUGGUACGAAUACAA
......(((((((.(((((((((....((((....)))).......................--..--.......(((........))))))))))))...))))))). ( -15.40)
>DroSim_CAF1 6633 107 + 1
CUAUUAUGUAUUUUUCAUCUGUUCGCCUGUGCCAACACAAAAACAAACUCAACCACACCCAC--ACACACACACUGUAACUGCUUCUACGAUGGAUGGUACGAAUACAA
......(((((((.(((((((((....((((....)))).......................--...........(((........))))))))))))...))))))). ( -15.40)
>DroAna_CAF1 7635 86 + 1
CUGUUAUGUAUUUUUCAUCUGUUCGCCUGUGCCAAUAC------------------ACCCAC--ACACACACACUGUAACCGCUUCUACGAUGGAUGGUAUCAACA---
..(((..((((..((((((.....(..((((.......------------------.....)--)))..).....(((........)))))))))..)))).))).--- ( -11.10)
>consensus
CUAUUAUGUAUUUUUCAUCUGUUCGCCUGUGCCAACACAAAAACAAACUCAACCACACCCAC__ACACACACACUGUAACUGCUUCUACGAUGGAUGGUACGAAUACAA
.((((.(((((..((((((((((.((....)).))))......................................(((........)))))))))..)))))))))... (-14.20 = -13.70 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:54 2006