Locus 659

Sequence ID 2L_DroMel_CAF1
Location 1,961,286 – 1,961,382
Length 96
Max. P 0.939949
window1079

overview

Window 9

Location 1,961,286 – 1,961,382
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.87
Mean single sequence MFE -27.38
Consensus MFE -12.01
Energy contribution -12.40
Covariance contribution 0.39
Combinations/Pair 1.24
Mean z-score -2.35
Structure conservation index 0.44
SVM decision value 1.30
SVM RNA-class probability 0.939949
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1961286 96 - 22407834
-GAGUGGAAACGCUCAAAGGAUUUAGGCAGUAAUUUGCGCUAAUUUGGGUCCAG-CGG------------AAAAAUAUGGAAGAGAGGGAGG-------GCCC---UUUUCAAUGCAGAA
-(((((....))))).......((((((((....)))).))))((((..((((.-...------------.......)))).(((((((...-------..))---)))))....)))). ( -28.00)
>DroSec_CAF1 3736 96 - 1
-GAGUGGAAACGCUCAAAGGAUUUAGGCAGUAAUUUGCGCUAAUUUGGGUCCAG-CGG------------AAAAAUAUGGAAGAGAGGGAGG-------UUCC---UUUUCAAUACAGAA
-(((((....))))).......((((((((....)))).))))((((..((((.-...------------.......)))).(((((((...-------..))---)))))....)))). ( -28.90)
>DroSim_CAF1 7904 96 - 1
-GAGUGGAAACGCUCAAAGGAUUUAGGCAGUAAUUUGCGCUAAUUUGGGUCCAG-CGG------------AAAAAUAUGGAAGAGAGGGAGG-------UUCC---UUUUCAAUACAGAA
-(((((....))))).......((((((((....)))).))))((((..((((.-...------------.......)))).(((((((...-------..))---)))))....)))). ( -28.90)
>DroEre_CAF1 12928 94 - 1
AGAGUGGAAACGCUCAAAGGAUUUGGGCAGUAAUUUGUGCUGAUUUGGGUGCAG-CGG------------AUAGA---AGAUGGUAGAGA-------GUGCCC---CUCUCAGCACAGAA
.(((((....)))))..................((((((((((...(((..(..-(..------------.((..---...))...)...-------)..)))---...)))))))))). ( -32.60)
>DroYak_CAF1 10728 107 - 1
GCAGUGCAAACGCUCAAAGGAUUUGGCCCGUAAUUUGUGUUAAUUUGGGUGCAG-CGA------------AAAAAAAGAGAUGAAAGGGAGAUGGAAGUGGCCUUCUUCUCAAUACAGAA
...(((....(((((((.....)))(((((.((((......)))))))))..))-)).------------..................((((.(((((....)))))))))..))).... ( -19.90)
>DroAna_CAF1 33785 105 - 1
-GAGUGGAAACGCUCAAAGGAUUUCGGCAGUAAUUUGUGCUAAUUUGGGUCCACACGGAUGUGGGUAUUGAAAAUCAUAGAA---AGAUAUA--------UCC---CAUACAAAGGAGUA
-(((((....))))).....(((((((((........))))....((((((((((....))))))........(((......---.)))...--------.))---))......))))). ( -26.00)
>consensus
_GAGUGGAAACGCUCAAAGGAUUUAGGCAGUAAUUUGCGCUAAUUUGGGUCCAG_CGG____________AAAAAUAUAGAAGAGAGGGAGG_______GUCC___UUUUCAAUACAGAA
.(((((....)))))...((((((((((((....)))).)))).....)))).................................................................... (-12.01 = -12.40 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:12 2006