Locus 6408

Sequence ID X_DroMel_CAF1
Location 16,069,614 – 16,069,732
Length 118
Max. P 0.686448
window10466

overview

Window 6

Location 16,069,614 – 16,069,732
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 97.05
Mean single sequence MFE -24.10
Consensus MFE -21.04
Energy contribution -21.35
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.97
Structure conservation index 0.87
SVM decision value 0.32
SVM RNA-class probability 0.686448
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16069614 118 + 22224390
AAACAAACAAGACCAAAUAAAGCGCAAACGGACUGAAUUCCUUUCUGCAAGGACUUCCCGUCCACUUUGCACACACAAA--UACAAAUGUUUUCUCGUGUGGAACAGACAUAAAAAAUGG
............(((........(((((.((((.(((.(((((.....))))).)))..))))..))))).(((((...--.((....))......)))))................))) ( -24.00)
>DroSec_CAF1 15457 117 + 1
AAACAAACAAGACCAAAUAAAGCGCAAACGGACUGAAUUCCU-UCUGCAAGGACUUCCCGUCCACUUUGCACACACAAA--UACAAAUGUUUUCUCGUGUGGAACAGACAUAAAAAAUGG
............(((........(((((.((((.(((.((((-(....))))).)))..))))..))))).(((((...--.((....))......)))))................))) ( -24.00)
>DroEre_CAF1 15089 116 + 1
AAACAAACAAGACCAAAUAAAGCGCAAACGGACUGAGUUCCU-UCUGCAAGGACUUCCCGUCCACU-UGCCCACACAAA--UACAAAUGUUUUCUCGUGUGGAACAGACAUAAAAAAUGG
............(((........((((..((((.(((.((((-(....))))).)))..))))..)-)))((((((...--.((....))......))))))...............))) ( -25.60)
>DroYak_CAF1 13090 119 + 1
AAACAAACAAGACCAAAUAAAGCGCAAACGGACUGAAUUCCU-UCUGCAAGGACUUGCCGUCCACUUUGCACACACAAAUUUACAAAUGUUUUCUCGUGUGGAACAGACAUAAAAAAUGG
............(((........(((((.((((.(((.((((-(....))))).)).).))))..))))).(((((......((....))......)))))................))) ( -22.80)
>consensus
AAACAAACAAGACCAAAUAAAGCGCAAACGGACUGAAUUCCU_UCUGCAAGGACUUCCCGUCCACUUUGCACACACAAA__UACAAAUGUUUUCUCGUGUGGAACAGACAUAAAAAAUGG
............(((........(((((.((((.(((.((((.......)))).)))..))))..))))).(((((......((....))......)))))................))) (-21.04 = -21.35 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:03 2006