Locus 7549

Sequence ID 3L_DroMel_CAF1
Location 20,255,171 – 20,255,291
Length 120
Max. P 0.834459
window12270

overview

Window 0

Location 20,255,171 – 20,255,291
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.51
Mean single sequence MFE -30.87
Consensus MFE -21.80
Energy contribution -20.37
Covariance contribution -1.43
Combinations/Pair 1.31
Mean z-score -1.92
Structure conservation index 0.71
SVM decision value 0.73
SVM RNA-class probability 0.834459
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20255171 120 + 23771897
AUUUAGAACUCGUGAAAGGGUACAACAGUGUAGUCCUAGAAGGAGUAGGAGAAGGAAAUGUGGUUCUUCGAGAGGGUCGGCCAAGGGGUGUGGACUUCGACCAGGGGGCGAGUAUAAUAA
.......((((((...((((((((....)))).))))..........((.((((((.......))))))..((((..(((((....))).))..))))..)).....))))))....... ( -28.30)
>DroSec_CAF1 8001 114 + 1
AUAUAACAUUCGUGGAAGGAUUCAAUAGUACAGUUCUU-----AGU-GGAGAAGGAAAUGUGGUCCUUAAGGAGGGCCAGCCAAGGGCUGUAAAGUUCACCGAGGGGGCGAGUGAAAUAA
......(((((((....(((((......((((((((((-----.((-.............((((((((...)))))))))).)))))))))).))))).((....)))))))))...... ( -32.11)
>DroSim_CAF1 7918 114 + 1
AUAUAAUAUUCGUGGAAGAAUUCAACAGUACAGUUCUU-----AGU-GGAGAAGGAAAUGUGGUCCUUAAGGAGGGCCAGCCAAGGGCUGUAAAGUUCACCGAGGGGGCGAGUGAAAUAA
......(((((((....(((((..((((..(..(((((-----...-.)))))((.....((((((((...)))))))).))..)..))))..))))).((....)))))))))...... ( -32.20)
>consensus
AUAUAAAAUUCGUGGAAGGAUUCAACAGUACAGUUCUU_____AGU_GGAGAAGGAAAUGUGGUCCUUAAGGAGGGCCAGCCAAGGGCUGUAAAGUUCACCGAGGGGGCGAGUGAAAUAA
......(((((((...(((((...........)))))..........((....((.....((((((((...)))))))).))..(((((....))))).))......)))))))...... (-21.80 = -20.37 +  -1.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:00 2006