Locus 5504

Sequence ID 3L_DroMel_CAF1
Location 15,096,570 – 15,096,664
Length 94
Max. P 0.797166
window8704

overview

Window 4

Location 15,096,570 – 15,096,664
Length 94
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 83.85
Mean single sequence MFE -13.95
Consensus MFE -9.30
Energy contribution -10.04
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.67
SVM decision value 0.61
SVM RNA-class probability 0.797166
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15096570 94 - 23771897
AUUUGUAUAACAUUAAAUCAAAAGGCACAGCCUUAAACAUCAAAGAAAAAUACCGAUGAAAUCAAAACGAAUAUA------UUUUCUGUGUUCAUUGAUU
...............(((((((((((...)))))...((((.............))))..........(((((((------.....))))))).)))))) ( -14.02)
>DroSec_CAF1 13700 85 - 1
---------AAAUUAAAUCAAAAGGCACAGCCUUAAACAUCACAGAAAAAUACCGAUGAAAUCAAAACGAAUAUA------UUUUCUGUGUACAUUGAUU
---------......(((((((((((...)))))......((((((((((((.((.((....))...))..))).------)))))))))....)))))) ( -16.00)
>DroSim_CAF1 14339 94 - 1
AUUUCUAUAAAAUUAAAUCAAAAGGCACAGCCUUAAACAUCACAGAAAAAUACCGAUGAAAUCAAAACGAAUAUA------UUUUCUGUGUACAUUGAUU
...............(((((((((((...)))))......((((((((((((.((.((....))...))..))).------)))))))))....)))))) ( -16.00)
>DroYak_CAF1 13486 100 - 1
AUUUGUAUAACUUGAAAUCAAUGAGCACAGCCUUAAACAUCAAAGCAAAAUACCAAUGAAAUCGAAACGAAUAUAUUUAUAUUUUCUGUGUAUUUCAAUU
...........(((((((......((((((.(((........))).((((((..((((.(.(((...))).).))))..))))))))))))))))))).. (  -9.80)
>consensus
AUUUGUAUAAAAUUAAAUCAAAAGGCACAGCCUUAAACAUCAAAGAAAAAUACCGAUGAAAUCAAAACGAAUAUA______UUUUCUGUGUACAUUGAUU
...............((((((...((((((.......((((.............))))...((.....))...............))))))...)))))) ( -9.30 = -10.04 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:58 2006