Locus 6647

Sequence ID X_DroMel_CAF1
Location 16,588,172 – 16,588,292
Length 120
Max. P 0.960477
window10859

overview

Window 9

Location 16,588,172 – 16,588,292
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.58
Mean single sequence MFE -42.80
Consensus MFE -37.54
Energy contribution -37.70
Covariance contribution 0.16
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.88
SVM decision value 1.51
SVM RNA-class probability 0.960477
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16588172 120 - 22224390
CCAGAGUCUGGGCCAAAGCCAGGGUCAGUUCCAGGCCAAUGCCAACCAGGGACAUUACCAGGGACAAAAUCAGGCCCAGUUCCAGGCACGUAAUCCGGGCUUCCAGGGACAGACUUCCUA
...(((((((((((...((....))..(((((.(((....))).....((.......)).))))).......))))).(((((((((.((.....)).))))...))))))))))).... ( -40.90)
>DroSec_CAF1 773 120 - 1
CCAGAGUCUGGGCCAAAGCCAGGGUCAGUUCCAGGCCAGUGCCAACCAGGGACACUACCAGGGACAAAACCAGGCUCAGUUCCAGGCUCGCAAUCCGGGCUUCCAGGGACAGACUUCCUA
...(((((((((((........)))..(((((.((..((((((......)).)))).)).)))))....)))))))).((((((((((((.....)))))))...))))).......... ( -45.60)
>DroSim_CAF1 772 120 - 1
CCAGAGUCUGGGCCAAAGCCAGGGUCAGUUCCAGGCCAAUGCCAACCAGGGACACUACCAGGGACAAAACCAGGCCCAGUUCCAGGCUCGCAAUCCGGGCUUCCAGGGACAGACUUCCUA
...(((((((((((...((....))..(((((.(((....))).....((.......)).))))).......))))).((((((((((((.....)))))))...))))))))))).... ( -44.60)
>DroEre_CAF1 892 120 - 1
CCAGAGUCUGGGCCAAAGUCAGGGUCAGUUCCAGGCCAAUGCCAACCAGGGACACUAUCAGGGGCAAAACCAGGCCCAGUUCCAGGCUCGCAAUCCGGGCUACCAGGGACAGACAUCCUA
.....(((((((((...(((.(((.....))).(((....))).......)))........((......)).))))).(((((.((((((.....))))))....)))))))))...... ( -41.20)
>DroYak_CAF1 761 120 - 1
CCAGAGUCUGGGCCAAAGCCAGGGUCAGUUCCAAGCCAAUGGCAACCAGGGACACUACCAGGGCCAGAAUCAGGCCCAGUUCCAAGCUCGUAAUCCGGGGUUCCAGGGACAGACAUCGUA
...(((((((..((...((((.(((.........)))..)))).....(((((.......(((((.......))))).........((((.....))))))))).))..))))).))... ( -41.70)
>consensus
CCAGAGUCUGGGCCAAAGCCAGGGUCAGUUCCAGGCCAAUGCCAACCAGGGACACUACCAGGGACAAAACCAGGCCCAGUUCCAGGCUCGCAAUCCGGGCUUCCAGGGACAGACUUCCUA
...(((((((((((...(((.(((.....))).))).........((..((......))..)).........))))).((((((((((((.....)))))))...))))))))).))... (-37.54 = -37.70 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:09 2006