Locus 3927

Sequence ID 2R_DroMel_CAF1
Location 12,950,465 – 12,950,575
Length 110
Max. P 0.819592
window6342

overview

Window 2

Location 12,950,465 – 12,950,575
Length 110
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 94.14
Mean single sequence MFE -32.95
Consensus MFE -28.40
Energy contribution -28.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.86
SVM decision value 0.68
SVM RNA-class probability 0.819592
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12950465 110 + 20766785
AAGGGGGCGGUGGCGGCGAAUGG-GGGCGUGGCCCCCAGCCAGCUGUCCCAGACAAACAACUGCGACUAGAUAAAAGCACAAUAAUAAUAUAGCCUCAAAAUAAAACGACU
...(((((((.((((((...(((-((((...)))))))....))))))))...........(((............))).............))))).............. ( -37.90)
>DroSec_CAF1 2165 110 + 1
AAGGGGGCGGUGGCGGCGAAUGG-GGGCGUGGCCCCCAGCCAGCUGUCCCAGACAAACAACUGCGACUAGAUAAAAGCACAAUAAUAAUAUAGCCACAAAAUAAAACGACU
.....(((((.((((((...(((-((((...)))))))....))))))))...........(((............))).............)))................ ( -34.30)
>DroEre_CAF1 2225 110 + 1
AAGGGGGCGGUGGCGGCGAAUGGUGGGCGUGGCCCCCAGCCAGCUGUCCCAGGCAAACAACUGCGACUAGAUAAAAGCACAAUAAUAAUACAGCAACAA-AAAAAGCGACU
...((((((((...(((...(((.((((...)))))))))).))))))))..(((......)))............................((.....-.....)).... ( -30.80)
>DroYak_CAF1 2179 111 + 1
AAGGGGGCGGUGGCGACGAAUGGUGGGCGUGGCCCCCAGCCAGCUGUCCCAGACCAGCAACUGCGACUAGAUAAAAGCACAAUAAUAAUACAGCAACAACAAAAAACGACU
...(((((((((((......(((.((((...))))))))))).)))))))......((....))............................................... ( -28.80)
>consensus
AAGGGGGCGGUGGCGGCGAAUGG_GGGCGUGGCCCCCAGCCAGCUGUCCCAGACAAACAACUGCGACUAGAUAAAAGCACAAUAAUAAUACAGCAACAAAAAAAAACGACU
...(((((((((((......(((.((((...))))))))))).)))))))...........(((............)))................................ (-28.40 = -28.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:32 2006