Locus 1931

Sequence ID X_DroMel_CAF1
Location 5,305,996 – 5,306,097
Length 101
Max. P 0.671407
window3139

overview

Window 9

Location 5,305,996 – 5,306,097
Length 101
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 80.75
Mean single sequence MFE -21.65
Consensus MFE -15.04
Energy contribution -14.60
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.70
Structure conservation index 0.69
SVM decision value 0.29
SVM RNA-class probability 0.671407
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5305996 101 - 22224390
AAAACUUUAAUCUUC-----------AUACACCAUGUGGUGCUAACAAAUCGAAAGGGUUGUUCU-CCGGGCAACCUCAGUUAUUAAACAAUACAUCAUCAAUAAAGGUCACA
....(((((......-----------...((((....)))).((((....(....)(((((((..-...)))))))...))))...................)))))...... ( -19.40)
>DroSec_CAF1 42811 107 - 1
AAAACU-----CUUCAAAAAUGACCCACACGCCAUGUGGUGCUUACAAAUCGAAAGGGUUGUGUU-GCUCGCAACCUCAGUUAUUAAACAAUACUUCAUCAAUAAAGGUCACA
......-----.........(((((....((((....))))..........(((.((((((((..-...))))))))..(((....))).....))).........))))).. ( -22.30)
>DroSim_CAF1 34342 112 - 1
AAAACUUUAAUCUUCAAAAAUGACCCACACGCCAUGUGGUGCUGACAAAUCGAAAGGGUUGUGUU-GCUCGCAACCUCAGUUAUUAAACAAUACUUCAUCAAUAAAGGUCACA
....................(((((....((((....))))((((.....(....)(((((((..-...)))))))))))..........................))))).. ( -24.40)
>DroYak_CAF1 45188 103 - 1
-----U-----CUUCAAAAAUCACCCAUACGCCAUGUGGUGCUUACGAAUCGAAUGGGUUUUUUUGCCAGGCAACCUCAGUUAUCAAACGAUACUUCAUCAAUAUGGGUCACA
-----.-----...........(((((((((((....)))).......((((....(((......))).(..(((....)))..)...))))..........))))))).... ( -20.50)
>consensus
AAAACU_____CUUCAAAAAUGACCCACACGCCAUGUGGUGCUUACAAAUCGAAAGGGUUGUGUU_CCUCGCAACCUCAGUUAUUAAACAAUACUUCAUCAAUAAAGGUCACA
..............................(((...(((((..............((((((((......))))))))..(((....))).......))))).....))).... (-15.04 = -14.60 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:08 2006