Locus 1092

Sequence ID X_DroMel_CAF1
Location 3,210,657 – 3,210,766
Length 109
Max. P 0.561025
window1770

overview

Window 0

Location 3,210,657 – 3,210,766
Length 109
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.86
Mean single sequence MFE -24.18
Consensus MFE -16.65
Energy contribution -16.77
Covariance contribution 0.13
Combinations/Pair 1.10
Mean z-score -1.54
Structure conservation index 0.69
SVM decision value 0.05
SVM RNA-class probability 0.561025
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3210657 109 + 22224390
AAUCACAAAUAAAC---ACCAAACUUGCACGAUCCCCAAAAUGAUUUUGAGAAAUGCAUUUCAGCCUAUCAGCUGCCA-------CUGUAAAUAUUUACA-UGUGCAGCCGUGGAAAAUU
..............---.......((.((((..........((((.((((((......))))))...))))(((((((-------.(((((....)))))-)).))))))))).)).... ( -22.60)
>DroSec_CAF1 19958 109 + 1
AAUCACAAAUAAACCGAGCCAACCUUGCGCGAUCCC--AGAUGAU-UUGAGGAAUGCAUGUCAGCCUAUCAGCUGC-A-------CUGUAAAUAUUUACAGUGUGCAGCCGUGGAAAAUU
..................(((...(((((((.((((--(((...)-))).))).)))....((((......))))(-(-------((((((....)))))))).))))...)))...... ( -27.40)
>DroEre_CAF1 21916 118 + 1
AAUCACAAAUAAACCGAGACAACCUUGCACGAUCCCA-AAAUGAU-UUGAGAAAUGCAUGUCAGCAUAUCAGCUGCAGCAAAGUCUUGUAAAUAUUUACAGUGUGCAGACGUGGAAAAUU
..((((.........(((.....)))(((((......-.......-..((((..(((.((.((((......)))))))))...))))((((....))))..)))))....))))...... ( -23.90)
>DroYak_CAF1 24817 118 + 1
AAUCACAAAUAAACCGACCCAACCUUGCGCGAUACCC-AAAUGAU-UUGAGAAAUGCAUGUCAGCAUAUCAGCUGCACCAAAAUCUUGUAAAUAUUUACAGUGUGCAGCCGUGGAAAAUU
........................((.((((......-.......-....((.((((......)))).)).(((((((.......((((((....)))))).))))))))))).)).... ( -22.80)
>consensus
AAUCACAAAUAAACCGAGCCAACCUUGCACGAUCCCC_AAAUGAU_UUGAGAAAUGCAUGUCAGCAUAUCAGCUGCAA_______CUGUAAAUAUUUACAGUGUGCAGCCGUGGAAAAUU
..................(((...(((((((..............................((((......))))..........((((((....)))))))))))))...)))...... (-16.65 = -16.77 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:21 2006