Locus 4756

Sequence ID 3R_DroMel_CAF1
Location 12,483,315 – 12,483,411
Length 96
Max. P 0.552285
window7803

overview

Window 3

Location 12,483,315 – 12,483,411
Length 96
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 79.42
Mean single sequence MFE -19.08
Consensus MFE -13.04
Energy contribution -13.37
Covariance contribution 0.32
Combinations/Pair 1.28
Mean z-score -1.19
Structure conservation index 0.68
SVM decision value 0.04
SVM RNA-class probability 0.552285
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12483315 96 + 27905053
GAGCGUACAACUCACGAUCAAUUAACGGCUCAAAACGAGAUCAAAAGCAAUUUCGCAUGCAAGCGGGU----------AGCCCGCGAAG---ACUCUCUCAAACAACUC
((((.......................)))).....((((((....(((........)))..(((((.----------..)))))...)---).))))........... ( -19.90)
>DroSec_CAF1 4820 96 + 1
GAGCGUUCAACUCACGAUCAAUUAACGGAUCGAAACGAGAUCAAAAGCAAUUUCGCAUGCAAGCGGGC----------AGUCCGCGAAC---UCUUUCUCAAACAACUC
(((...........(((((........)))))....(((.((....(((........)))..((((..----------...)))))).)---))...)))......... ( -21.20)
>DroSim_CAF1 3640 96 + 1
GAGCGUACAACUCACGAUCAAUUAACGGAUCGAAACGAGAUCAAAAGCAAUUUCGCAUGCAAGCGGGC----------AGCCCGCGAAC---UCUUUCUCAAACAACUC
(((...........(((((........)))))....(((.((....(((........)))..(((((.----------..))))))).)---))...)))......... ( -23.20)
>DroYak_CAF1 4871 89 + 1
GAGCGUACAACUCACGAUCAAUUAACGG-----AACGAGAUCAAAAGCAAUUUCGCAUGCAAGCGGGC----------AGCCCGCGAA-----CUCUCUCAAACAACUG
((.(((.......))).))........(-----(..(((.((....(((........)))..(((((.----------..))))))).-----)))..))......... ( -18.10)
>DroAna_CAF1 4568 88 + 1
GAUCGUACAACUUACGAUCAAUCAACGG----AAACGAGAUCAAAAGCAAUUUCGCAUGCAUUCUC--------------UCUAAAAAC---AAACUCGCAAACAACUC
(((((((.....))))))).......(.----...)((((......((......))......))))--------------.........---................. ( -15.10)
>DroPer_CAF1 6506 104 + 1
UAGCAUACAACUUACGAUCAAUUAACGG-----AACGAGAUCAAAAGCAAUUUCGCAUGCGAGCGGGAAAACAAAGCGAGCUCGCGAACUACUAUUUCUCAAAUAUUCU
............................-----...((((......((......)).(((((((...............)))))))..........))))......... ( -16.96)
>consensus
GAGCGUACAACUCACGAUCAAUUAACGG____AAACGAGAUCAAAAGCAAUUUCGCAUGCAAGCGGGC__________AGCCCGCGAAC___UCUCUCUCAAACAACUC
..((((.........((((......((........)).))))....((......))))))..((((((...........))))))........................ (-13.04 = -13.37 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:07 2006