Locus 8719

Sequence ID 3R_DroMel_CAF1
Location 23,302,337 – 23,302,437
Length 100
Max. P 0.706025
window14002

overview

Window 2

Location 23,302,337 – 23,302,437
Length 100
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.78
Mean single sequence MFE -19.35
Consensus MFE -11.06
Energy contribution -10.48
Covariance contribution -0.58
Combinations/Pair 1.32
Mean z-score -2.41
Structure conservation index 0.57
SVM decision value 0.36
SVM RNA-class probability 0.706025
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23302337 100 + 27905053
CAGCAGUACGG--AGCAGCAAUGAAAACUGCAACAAAAA-UAUA---CGGGCAAAAAGGAAAAUUGCUCGCAAUAAAUUUCGAAUUAAAUAGAAAUUUGCACAGUC
..(((((....--..((....))...)))))........-....---(((((((.........)))))))...((((((((..........))))))))....... ( -18.60)
>DroVir_CAF1 109708 94 + 1
-------GCGGA-UGC--GGCCGCAAGAGCU-ACGAAAGAUACGCAGCAAGCAAAAA-GAAAAUUGCUUGCAAUAAAUUUCAAAUUAAAUAGAAAUUUGCAGCGCC
-------(((..-(((--((((....).)).-.(....)...))))((((((((...-.....))))))))..((((((((..........))))))))...))). ( -28.60)
>DroSec_CAF1 99767 101 + 1
CAGCAGUACGAAAAGCAGCAAUGAAAACUGCAACAAAAA-UCUA---CGGGCAAGAA-GAAAAUUGCUCGCAAUAAAUUUCGAAUUAAAUAGAAAUUUGCACAGUC
..(((((........((....))...)))))........-....---(((((((...-.....)))))))...((((((((..........))))))))....... ( -19.00)
>DroSim_CAF1 103627 101 + 1
CAGCAGUACGAAAAGCAGCAAUGAAAACUGCAACAAAAA-UCUA---CGGGCAAAAA-GAAAAUUGCUCGCAAUAAAUUUCGAAUUAAAUAGAAAUUUGCACAGUC
..(((((........((....))...)))))........-....---(((((((...-.....)))))))...((((((((..........))))))))....... ( -18.20)
>DroEre_CAF1 106191 99 + 1
CAGUACUACCG--AGCACGAAUGAAAAUUCCAACAAAAA-UAUA---CGGGCAAAAA-GAAAAUUGCUCGCAAUAAAUUUCGAAUUAAAUAGAAAUUUGCACAGUC
...........--.((..((((....)))).........-....---.((((((...-.....))))))))..((((((((..........))))))))....... ( -16.30)
>DroYak_CAF1 110161 99 + 1
CAGCACUGCGG--AACACGAAUGAAAAUUCCAACAAAAA-UAGA---CGGGCAAAAA-GAAAAUUGCUAGCAAUAAAUUUCGAAUUAAAUAGAAAUUUGCACAGUC
..((..(((..--.....((((....)))).........-....---..(((((...-.....))))).)))..(((((((..........)))))))))...... ( -15.40)
>consensus
CAGCAGUACGG__AGCAGCAAUGAAAACUCCAACAAAAA_UAUA___CGGGCAAAAA_GAAAAUUGCUCGCAAUAAAUUUCGAAUUAAAUAGAAAUUUGCACAGUC
..........................((((.................(((((((.........)))))))...((((((((..........))))))))..)))). (-11.06 = -10.48 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:01 2006