Locus 3854

Sequence ID 3L_DroMel_CAF1
Location 11,163,637 – 11,163,745
Length 108
Max. P 0.748215
window6001

overview

Window 1

Location 11,163,637 – 11,163,745
Length 108
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 81.65
Mean single sequence MFE -22.58
Consensus MFE -15.98
Energy contribution -16.68
Covariance contribution 0.70
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.71
SVM decision value 0.47
SVM RNA-class probability 0.748215
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11163637 108 + 23771897
C----AUGCUACAUAUCGCAUAUCGGUGUGGCGGCAGAGAUUUUUAACCAUAAUGGAGUCAAACAGUGGGGCAUUUAUCAAAUCAUAUCUGCCACACAACCAUAC-------CACCUAU
.----((((........))))...(((((((.......((((((..........)))))).....(((.((((..(((......)))..)))).)))..))))))-------)...... ( -27.20)
>DroSec_CAF1 24106 116 + 1
CACAUAUGCUACAUAUCGCAUAACGGUAUG---ACAGAGAUUUUCAACCAUAAAUGAGUCAAACAGUGGGGCAUUUAUCAAAUCAUAGCUGCCACACAACCAUAUACAUAUACACCUAU
...(((((...(((((((.....)))))))---.....(((((............))))).....(((.((((.((((......)))).)))).))).........)))))........ ( -21.20)
>DroSim_CAF1 24781 113 + 1
C---UAUGCUACAUAUCGCAUAUCGGUAUG---GCAGAGAUUUUCAACCAUAAAGGAGUCAAACUGUGGGGCAUUUAUCAAAUCAUAGCUGCCACACAACCAUAUACAUAUACACCUAU
.---(((((........)))))...(((((---(....((((((..........))))))....((((.((((.((((......)))).)))).)))).)))))).............. ( -23.00)
>DroEre_CAF1 25287 96 + 1
C----AUGCUACACAUCGCA---GGGU--------CUAGAUUUCUAGCCAUAAAAGAGUCAAACAGUGGGGCAUUUAUCAAAUCAUAUAUGCCACACAACCAU--------UCACCUAU
.----.(((........)))---.((.--------((((....))))))......((((......(((.(((((.(((......))).))))).)))....))--------))...... ( -20.00)
>DroYak_CAF1 25568 101 + 1
C----GUGCUACAUGUCGCA---CGGUUCG---GCCGAGAUUUCUAACCAUAAAAGAGUCAAACAGUGGGGCAUUUAUCAAAUCAUAUCUGCCACACAACCAU--------UCACCUAU
.----((((........)))---)((((.(---(...((....))..))................(((.((((..(((......)))..)))).)))))))..--------........ ( -21.50)
>consensus
C____AUGCUACAUAUCGCAUA_CGGUAUG___GCAGAGAUUUUUAACCAUAAAAGAGUCAAACAGUGGGGCAUUUAUCAAAUCAUAUCUGCCACACAACCAUA_______ACACCUAU
....(((((........)))))..(((...........(((((............))))).....(((.((((..(((......)))..)))).))).))).................. (-15.98 = -16.68 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:24 2006