Locus 4758

Sequence ID 3R_DroMel_CAF1
Location 12,484,423 – 12,484,519
Length 96
Max. P 0.789521
window7805

overview

Window 5

Location 12,484,423 – 12,484,519
Length 96
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 80.97
Mean single sequence MFE -21.22
Consensus MFE -14.80
Energy contribution -16.24
Covariance contribution 1.44
Combinations/Pair 1.04
Mean z-score -1.84
Structure conservation index 0.70
SVM decision value 0.58
SVM RNA-class probability 0.789521
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12484423 96 + 27905053
UCUGUC------UCCGCGUCAUUUCGCCCAAUCCCACAUACACCCUACGGAUCUAAGGAUCUAAGGAUCUAAGGAUCUACUGAUCUAAGUGUCCACCUUGGA
......------((((((......))).....................((((....(((((...(((((....)))))...)))))....)))).....))) ( -21.00)
>DroSec_CAF1 5928 96 + 1
UCUGUC------UCCGCGUCAGUACGCCCAAUCCCACAUACACCCUACGGAUCUAAGGAUCUACGGAUCUAAGGAUCUACUGAUCUAAGUGUCCUCCUUGGA
(((((.------...((((....)))).....................(((((....))))))))))((((((((..((((......))))...)))))))) ( -23.20)
>DroSim_CAF1 4741 96 + 1
UCUGUC------UCCGCGUCAGUACGCCCAAUCCCACAUACACCCUACGGAUCUAAGGAUCUACGGAUCUAAGGAUCUACUGAUCUAAGUGUCCUCCUUGGA
(((((.------...((((....)))).....................(((((....))))))))))((((((((..((((......))))...)))))))) ( -23.20)
>DroEre_CAF1 6104 90 + 1
UCUGUCUCCGUCUCCGCGUCCUUCCGCCCAAUCCCACAUACACCCC----A--------UCAGUUGAUCCAAGGAUCUACUGAUCUAAGUGUCCUCCCUGGA
............((((((......)))............((((...----(--------(((((.((((....)))).))))))....)))).......))) ( -19.80)
>DroYak_CAF1 5971 78 + 1
UCUGUC------UCCGCGCCAUUCCGCCCAAUCCC---UACA---G----A--------UCUAAGGAUCUAAGGAUCUACUGAUCCAAGUGUCCUCCUUGGA
(((((.------...(((......)))........---.)))---)----)--------((((((((.(...(((((....)))))....)...)))))))) ( -18.92)
>consensus
UCUGUC______UCCGCGUCAUUACGCCCAAUCCCACAUACACCCUACGGAUCUAAGGAUCUAAGGAUCUAAGGAUCUACUGAUCUAAGUGUCCUCCUUGGA
............((((((......))).....................(((((....)))))..)))((((((((..((((......))))...)))))))) (-14.80 = -16.24 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:09 2006