Locus 3979

Sequence ID X_DroMel_CAF1
Location 10,541,443 – 10,541,541
Length 98
Max. P 0.564231
window6545

overview

Window 5

Location 10,541,443 – 10,541,541
Length 98
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 82.49
Mean single sequence MFE -25.49
Consensus MFE -19.82
Energy contribution -19.94
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -1.50
Structure conservation index 0.78
SVM decision value 0.06
SVM RNA-class probability 0.564231
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10541443 98 + 22224390
UCCACCUUCACACCUCGCUCUCG------CCCACGUCCACGUCCUCGUAUUCGUAUUCGUCCUGGCAACUUAAUUAUGCAGCUGUGCCAGGUCUAGGACAAGGA
....((((........((....)------)....(((((((....)))..........(.(((((((.(..............)))))))).)..)))))))). ( -23.74)
>DroSec_CAF1 67847 93 + 1
UCCACCUUCACAC-----------CCACGUCCACGUUCACGUCCUCGUAUUCGUAUUCGUCCUGGCAACUUAAUUAUGCAGCUGUGCCAGGUCUAGGACAAGGA
.............-----------((..(((((((...(((....)))...)))....(.(((((((.(..............)))))))).)..))))..)). ( -23.94)
>DroSim_CAF1 71813 104 + 1
UCCACCUUCACACCUCGUUCUCGCCCACGUCCACGUUCACGUCCUCGUAUUCGUAUUCGUCCUGGCAACUUAAUUAUGCAGCUGUGCCAGGUCUAGGACAAGGA
....((((.......((....)).....(((((((...(((....)))...)))....(.(((((((.(..............)))))))).)..)))))))). ( -24.84)
>DroYak_CAF1 70516 93 + 1
CCCACGCCCACGU-----------CCACGUUCACGUUCACGUCCACGUCCACGUCCUCGUCCUGGCAACUUAAUUAUGCAGCUGUGCCGGGUCUAGGACAAGGA
.(((((...((((-----------..(((....)))..))))...)))....(((((.(.(((((((.(..............)))))))).).)))))..)). ( -29.44)
>consensus
UCCACCUUCACAC___________CCACGUCCACGUUCACGUCCUCGUAUUCGUAUUCGUCCUGGCAACUUAAUUAUGCAGCUGUGCCAGGUCUAGGACAAGGA
............................(((((((...(((....)))...)))....(.(((((((.(..............)))))))).)..))))..... (-19.82 = -19.94 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:27 2006