Locus 5443

Sequence ID 2R_DroMel_CAF1
Location 17,492,369 – 17,492,489
Length 120
Max. P 0.740808
window8687

overview

Window 7

Location 17,492,369 – 17,492,489
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.06
Mean single sequence MFE -18.90
Consensus MFE -14.80
Energy contribution -15.17
Covariance contribution 0.37
Combinations/Pair 1.07
Mean z-score -2.12
Structure conservation index 0.78
SVM decision value 0.45
SVM RNA-class probability 0.740808
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17492369 120 + 20766785
AACGAAAAAAUUAAAUACAGGAAACCAAGCCACAUGGCCCGACAGUCAAGCUGGCAAAACAAAACUAAGAGUUUCCAGUCGAGUUAACCAAUAAUCCACUUCAAAAUCAUUUUCAUAAAU
...(((((...........((((((...(((((.((((......)))).).))))....(........).))))))(((.(..(((.....)))..)))).........)))))...... ( -18.30)
>DroSec_CAF1 20190 120 + 1
AACGAAAAAAAUAAGUACAGGAAACCAAGCCACAUGGCCCGACAGCCAAACUGGCAAAACAAAACUAAGAGUUUCCAGUCGAGUUAACCAAUAAUCCACUUCAAAAUCAUUUUCAUAAAU
...(((((...........(((((((..(((....)))......(((.....))).............).))))))(((.(..(((.....)))..)))).........)))))...... ( -20.20)
>DroSim_CAF1 33088 120 + 1
AACGAAAAAAUUAAAUACAGGAAAGCAAGCCACAUGGCUCGACAGCCAAACUGGCAAAACAAAACUAAGAGUUUCCAGUCGAGUUAACCAAUAAUCCACUUCAAAAUCAUUUUCAUAAAU
...(((((...........((........))...(((((((((.(((.....)))......((((.....))))...))))))))).......................)))))...... ( -22.20)
>DroYak_CAF1 29201 116 + 1
AACGAAAAAAUUAAAUACAGGAAACCAAGCCACAUGG----ACAGCAAAACUGGCCAAACAGAACUAAGAGUUUUCAGUCGAGUUAACCGAUAAUCCACUUCGAAAUCAUUUUCAUAAAC
..((((.............(((((((..(((....))----.).......(((......)))......).)))))).((((.(....))))).......))))................. ( -14.90)
>consensus
AACGAAAAAAUUAAAUACAGGAAACCAAGCCACAUGGCCCGACAGCCAAACUGGCAAAACAAAACUAAGAGUUUCCAGUCGAGUUAACCAAUAAUCCACUUCAAAAUCAUUUUCAUAAAU
...(((((...........((((((...((((..((((......))))...))))....(........).))))))(((.(..(((.....)))..)))).........)))))...... (-14.80 = -15.17 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:02 2006