Locus 9642

Sequence ID 3R_DroMel_CAF1
Location 25,489,930 – 25,490,038
Length 108
Max. P 0.971065
window15416

overview

Window 6

Location 25,489,930 – 25,490,038
Length 108
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 73.83
Mean single sequence MFE -20.48
Consensus MFE -9.00
Energy contribution -10.60
Covariance contribution 1.60
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.44
SVM decision value 1.67
SVM RNA-class probability 0.971065
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25489930 108 + 27905053
AACACAGACUCCUCCAACCACCAGUCGUGGUCACUUACACUACGAGAAAACUACAGUAAUGGGGUCGAAUAAAUAUCGAACAAAA-------UAAAACAAAUUCUAUAACUGAUA
....(((....(((((........(((((((.......)))))))....((....))..)))))((((.......))))......-------.................)))... ( -16.60)
>DroSec_CAF1 171046 106 + 1
AACACAGACUCCUCCAACCACCAGUGGUGGUCACUUACACUGGCAGAAAACUGCAGAUAUGGGGUCGAAUAAA--UCCAAAUAAA-------UACAACAAAUUCCAUAAUUAAUA
......((((((....((((((...))))))........(((.(((....))))))....)))))).......--..........-------....................... ( -22.40)
>DroSim_CAF1 173060 106 + 1
AACACAGACUCCUCCAACCACCAGUGGUGGUCACUUACACUGGCAGAAAACUGCAGGCAUAGUUUCGAAUAAG--UCCAAAUAAA-------UACAACAAAUUUCAUAAUUCAUA
......((((......((((((...)))))).(((....(((.(((....))))))....)))........))--))........-------....................... ( -16.80)
>DroEre_CAF1 178320 89 + 1
AACACAGACUCCUCCGACCGCCAGUGGUUGGCACUUACACUGGGAGAAAACUGCUGU---GCGGUGAAAUAAA--UCCAAAUAAA-------UAAAUCAAA--------------
................((((((((..(((..(.(((.....))).)..)))..))).---)))))........--..........-------.........-------------- ( -20.50)
>DroYak_CAF1 186008 106 + 1
AACACAGACUCCUCCAACCGCCAGUGGUUGGCACUUACACUGGGAGAAAACUACAGACCAGGGGUCAAAGAAA--ACCAAAAAAAAUUUGGAAAAUUUAAA-------UUUUACU
......((((((((((((((....)))))))........(((..((....)).)))...))))))).......--.(((((.....)))))..........-------....... ( -26.10)
>consensus
AACACAGACUCCUCCAACCACCAGUGGUGGUCACUUACACUGGGAGAAAACUGCAGACAUGGGGUCGAAUAAA__UCCAAAUAAA_______UAAAACAAAUU__AUAAUU_AUA
......((((((........((((((...........)))))).((....))........))))))................................................. ( -9.00 = -10.60 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:58 2006