Locus 4321

Sequence ID X_DroMel_CAF1
Location 11,378,507 – 11,378,614
Length 107
Max. P 0.915518
window7099

overview

Window 9

Location 11,378,507 – 11,378,614
Length 107
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 90.20
Mean single sequence MFE -18.05
Consensus MFE -14.73
Energy contribution -15.72
Covariance contribution 1.00
Combinations/Pair 1.04
Mean z-score -2.16
Structure conservation index 0.82
SVM decision value 1.10
SVM RNA-class probability 0.915518
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11378507 107 - 22224390
AAAAAAAAGAUUGCAGUUGAUUGACAGAAUUGGGACGACAACAAAACUCUUACAUCGUGUGGCACAUAGCAACGUUCGCAAAGGCGAACACAAA----AAAAAAAAUUAAA
..........((((.((((.(((.(........).)))))))..............(((...)))...)))).((((((....)))))).....----............. ( -16.90)
>DroSec_CAF1 38525 109 - 1
AA--AAAAGAUUGCAGUUGAUUGACAGAAUUGGGACGACAACAAAACUCUUACAUCGUGUGGCACAUAGCAACGAUAUGUAAGGCGAACAGAAAACAAAAAAAAAAUUAAA
..--....(.((((.((((.(((.(........).)))))))......((((((((((...((.....)).))))..)))))))))).)...................... ( -18.50)
>DroEre_CAF1 44782 106 - 1
AAAAAAAAGAUUGCAGUUGAUUGACAGAAUUGGGACGACAACAAAACUCUUACAUCGUGCGGCACAUAGCAACAAUAUGUAAGGCGAACAAAAA----ACA-AAAAUAAAA
........(.((((.((((.(((.(........).)))))))......(((((((..((..((.....))..))..))))))))))).).....----...-......... ( -18.20)
>DroYak_CAF1 43642 105 - 1
-AAAAAAAGAUUGCAGUUGAUUGACAGAAUUGGGACGACAACAAAACUCUUACAUCGUGUGGCACAUAGCAACAAUAUGUAAGGCGAACAACAA----AAA-AAAAAUAAA
-.......(.((((.((((.(((.(........).)))))))......(((((((..(((.((.....)).)))..))))))))))).).....----...-......... ( -18.60)
>consensus
AAAAAAAAGAUUGCAGUUGAUUGACAGAAUUGGGACGACAACAAAACUCUUACAUCGUGUGGCACAUAGCAACAAUAUGUAAGGCGAACAAAAA____AAA_AAAAUUAAA
........(.((((.((((.(((.(........).)))))))......(((((((..(((.((.....)).)))..))))))))))).)...................... (-14.73 = -15.72 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:03 2006