Locus 3907

Sequence ID 3L_DroMel_CAF1
Location 11,322,254 – 11,322,344
Length 90
Max. P 0.639274
window6084

overview

Window 4

Location 11,322,254 – 11,322,344
Length 90
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 80.62
Mean single sequence MFE -24.80
Consensus MFE -16.86
Energy contribution -17.28
Covariance contribution 0.42
Combinations/Pair 1.21
Mean z-score -1.45
Structure conservation index 0.68
SVM decision value 0.22
SVM RNA-class probability 0.639274
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11322254 90 + 23771897
AAUGAGUUGGCUCAUCAGAAGGCCUUGGCACUAUGCUAGUCUAGGCACGUGCCCCAAUCUUGGCCUUGUCUUCAUCAAAAA---------ACACCUCUA--------------
.(((((....)))))..((((((...(((((..((((......)))).)))))(((....)))....))))))........---------.........-------------- ( -23.70)
>DroSec_CAF1 43048 89 + 1
AAUGAGUUGGCUCGUCAGAAGGCCUUGGCACUAUGCUAGUCUAGGCACGUGCCCCUAUCUUGGCCUCGUCUUCAUCCA-AA---------ACACCUCUA--------------
.(((((....)))))..((((((...(((((..((((......)))).)))))((......))....)))))).....-..---------.........-------------- ( -23.40)
>DroSim_CAF1 50082 89 + 1
AAUGAGUUGGCUCGUCAGAAGGCCUUGGCACUCUGCUAGUCUAGGCACGUGCCCCAAUCUUGGCCUUGUCUUCAUCCA-AA---------ACACCUCUA--------------
..((..((((......(.((((((..(((((..((((......)))).)))))........)))))).)......)))-).---------.))......-------------- ( -24.00)
>DroEre_CAF1 47000 87 + 1
AAUGAGUUGGCUCAUCA--AGGCCUUGGCACUAUGCUAGUCUAGGCACGUGCCCCAAUCUUGGCCUUGUCUUCAUCCA-CA---------ACACCUCUG--------------
.(((((....)))))((--(((((..(((((..((((......)))).)))))........)))))))..........-..---------.........-------------- ( -25.60)
>DroYak_CAF1 35089 98 + 1
AAUGAGUUGGCUCAUCAAAAGGCCUUGGCACUAUGCUAGUCUAGGCACGUGCCCCAAUCUUGGCCUUGUCUUCAUCCA-AAACACACAAAACACCUCUA--------------
..((..((((........((((((..(((((..((((......)))).)))))........))))))........)))-)..))...............-------------- ( -23.79)
>DroAna_CAF1 35370 102 + 1
UAAAGGCUUGCUCAUCCAAUAACCUUGGCGUGGUGAUAGUCUAGGCACGUGCCCCGAUCUUGGCCUCGUCUUAACUCA--A---------ACACCUUUGGGUCGUCGGUCGGU
....((((.((...............((((.(((.(..(((..(((....)))..)))..).))).))))...(((((--(---------(....))))))).)).))))... ( -28.30)
>consensus
AAUGAGUUGGCUCAUCAGAAGGCCUUGGCACUAUGCUAGUCUAGGCACGUGCCCCAAUCUUGGCCUUGUCUUCAUCCA_AA_________ACACCUCUA______________
.(((((....)))))....(((((..(((((..((((......)))).)))))........)))))............................................... (-16.86 = -17.28 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:43 2006