Locus 7138

Sequence ID X_DroMel_CAF1
Location 17,922,551 – 17,922,654
Length 103
Max. P 0.500000
window11658

overview

Window 8

Location 17,922,551 – 17,922,654
Length 103
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 84.01
Mean single sequence MFE -35.28
Consensus MFE -25.10
Energy contribution -26.72
Covariance contribution 1.62
Combinations/Pair 1.15
Mean z-score -1.43
Structure conservation index 0.71
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17922551 103 + 22224390
A--GCGUACGGCUAAUUAAAGCCAAACAAGCGAGCCGGCCAUCUUCGAUCGGAGGAAGCCCUUCCGGGCCACGCGGAUUGGCUAUCUCUAGAACGCUAAUCGCCA
(--((((.(((((......))))........(((..((((((((.((.(((((((.....)))))))....)).))).)))))..)))..).)))))........ ( -35.80)
>DroSec_CAF1 16745 103 + 1
GGGGCGUGCGGCUAAUUAAAGCCAAACAAGCGAGCGGGCCAUCUUCGAUCGGAGGAAGCCCUUCCGGGCCACGCGGAUUGGCUAUCU--UGAACGCUAAUCGCCA
..((((.((((((......))))...((((..(((((((..(((((....)))))..)))).(((((....).))))...)))..))--))...))....)))). ( -40.10)
>DroEre_CAF1 18004 96 + 1
G--GUGUGCGGCUAAUUAAAUCCAAACAAGCGGGCC-----CCUUCGAUCGAAGGAAGCUCUUCCGGGGACCGCGGAUUCUCUAUCU--CGAUCGGUAAUCGCCA
(--(((....((..(((............((((.((-----(((((....)))((((....)))))))).))))((((.....))))--.)))..))...)))). ( -31.50)
>DroYak_CAF1 15989 96 + 1
G--GCGUGCGGCUAAUUAAAUCCAAACAAGCGGGCC-----CCUUCGAUCGGAGGAAGCCCUUCCGGGGACCGCGGAUUCCAUAUCU--CGAUCGCUAAUCGCCA
(--(((.((((..................((((.((-----(((((....)))((((....)))))))).))))((((.....))))--...))))....)))). ( -33.70)
>consensus
G__GCGUGCGGCUAAUUAAAGCCAAACAAGCGAGCC_____CCUUCGAUCGGAGGAAGCCCUUCCGGGCAACGCGGAUUCGCUAUCU__CGAACGCUAAUCGCCA
.........(((.................((((........(((((....)))))..((((....)))).)))).(((((((.(((....))).)))))))))). (-25.10 = -26.72 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:04 2006