Locus 4946

Sequence ID X_DroMel_CAF1
Location 12,917,396 – 12,917,498
Length 102
Max. P 0.561244
window8064

overview

Window 4

Location 12,917,396 – 12,917,498
Length 102
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 91.22
Mean single sequence MFE -24.44
Consensus MFE -19.48
Energy contribution -18.92
Covariance contribution -0.56
Combinations/Pair 1.21
Mean z-score -1.41
Structure conservation index 0.80
SVM decision value 0.05
SVM RNA-class probability 0.561244
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12917396 102 + 22224390
AAGCGACAGGUGGGAAACACAGGUAAAUGCCAAAGGGAGCGAAAGCGAAAGAUGGCCG-------CGCAGAAUUAAAGAAUCUUUGCUCAUGAUGGCUUUCCAAAAUAA
..(((((..(((.....)))..))....((((......((....))......))))))-------)((((((((....))).)))))......(((....)))...... ( -23.30)
>DroSec_CAF1 3031 102 + 1
AAGCGACAGGUGGGAAACACAGGUAAAUUCCAAAGGGAGCGAAAGCGAAAGAUGGUCG-------CGCAGAAUUAAAGAAUCUUUGCUUAUGAUGGCUUUCCAAAAUAA
..(((((..(((.....)))........(((....)))((....))........))))-------)((((((((....))).))))).(((..(((....)))..))). ( -23.20)
>DroSim_CAF1 3041 102 + 1
AAGCGACAGGUGGGAAACACAGGUAAAUUCCAAAGGGAGCGAAAGCGAAAGAUGGCCG-------CGCAGAAUUAAAGAAUCUUUGCUUAUGAUGGCUUUCCAAAAUAA
..((.....(((.....))).(((....(((....)))((....))........))))-------)((((((((....))).))))).(((..(((....)))..))). ( -20.60)
>DroEre_CAF1 3000 102 + 1
AAGCGACAGGUGGGAAACACAGGUAAAUGCCAAAGGGAGCGAAAGCGAAAGAUGGCCG-------CGCAGAAUUAUAGAAUGUCUGCUUAUGAUGUCUUCCUAGGAUAA
..(((((..(((.....)))..))....((((......((....))......))))))-------)((((((((....))).)))))......(((((.....))))). ( -27.50)
>DroYak_CAF1 3057 109 + 1
AAGCGACAGGUGGAAAACACAGGUAAAUGCCAAAGGGAGCGAAAGCGAAAGAUGGCCGCAGAUGGCGCAGAAUUAAAGGAUCUCUGCUUAUGAUGUCUUCCUAAGAUAA
..(((((..(((.....)))..))....((((......((....))......))))))).......((((((((....))).)))))......(((((.....))))). ( -27.60)
>consensus
AAGCGACAGGUGGGAAACACAGGUAAAUGCCAAAGGGAGCGAAAGCGAAAGAUGGCCG_______CGCAGAAUUAAAGAAUCUUUGCUUAUGAUGGCUUUCCAAAAUAA
.....((..(((.....)))..))..........((((((....)).......(((((........((((((((....))).)))))......)))))))))....... (-19.48 = -18.92 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:40 2006