Locus 6779

Sequence ID X_DroMel_CAF1
Location 16,855,720 – 16,855,826
Length 106
Max. P 0.963125
window11104

overview

Window 4

Location 16,855,720 – 16,855,826
Length 106
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 84.07
Mean single sequence MFE -25.23
Consensus MFE -19.52
Energy contribution -21.02
Covariance contribution 1.50
Combinations/Pair 1.04
Mean z-score -2.37
Structure conservation index 0.77
SVM decision value 1.55
SVM RNA-class probability 0.963125
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16855720 106 + 22224390
GUAGGUGUUUCGCUCGUGGCCAUCUUUUGGCCUCAGUUUACCAUUUUUCUUCAUCUUUUGUGAGCGCUGAUGAAUUCGUUAGACGCCACCCCCCCCCCCCCUUUUA
...((((....(((.(.(((((.....))))).)))).)))).................(((.(((((((((....)))))).))))))................. ( -28.90)
>DroSec_CAF1 54389 97 + 1
GUAGGUGUUUCGCUCGUGGCCAUCUUUUGGCCUCAGCUUACCAUUUUUCUUCAUCUUUUGUGAGCGCUGAUGAAUUCGUUAGACGCCACCUUC---------UUUA
...((((....(((.(.(((((.....))))).)))).)))).................(((.(((((((((....)))))).))))))....---------.... ( -30.50)
>DroEre_CAF1 39686 96 + 1
GUAGGUGUUUCGCUCGUGGCCAUCUUUUGGCCUCAAUAUACCAUUUUUCUUCAUCUUUUGUGAGCGCUGAUGAAUUCGUUAGACGCAACCCCC---------CAU-
...(((((.........(((((.....))))).....)))))........((((.....))))(((((((((....)))))).))).......---------...- ( -25.04)
>DroYak_CAF1 39050 87 + 1
GUAGGUGUUUAGCUUGUGGCCAUC----------AGCUUACCAUUUUUCUUCAUCUUUUGUGAGCGCUUAUGAAUUCGUUAGACGCAACCCCC---------AUUA
....(((((((((..((.......----------.((((((..................))))))........))..))))))))).......---------.... ( -16.46)
>consensus
GUAGGUGUUUCGCUCGUGGCCAUCUUUUGGCCUCAGCUUACCAUUUUUCUUCAUCUUUUGUGAGCGCUGAUGAAUUCGUUAGACGCAACCCCC_________UUUA
...((((....(((...(((((.....)))))..))).))))........((((.....))))(((((((((....)))))).))).................... (-19.52 = -21.02 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:46 2006