Locus 4588

Sequence ID 3R_DroMel_CAF1
Location 12,082,021 – 12,082,126
Length 105
Max. P 0.722890
window7536

overview

Window 6

Location 12,082,021 – 12,082,126
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.63
Mean single sequence MFE -31.84
Consensus MFE -27.73
Energy contribution -27.93
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.87
SVM decision value 0.40
SVM RNA-class probability 0.722890
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12082021 105 - 27905053
AGCCAUGAAAAUGGA-----AUGGAAAAUGCCAGGCGGCAACAAUAACAGC------AGCCAAGCCAGCCAA----GUCGAGGCUGUCUUUCCGUCAGUCAGCCACCCUGCGCCUCACCC
..((((....)))).-----(((((((..((..(((.((..........))------.)))..))(((((..----.....)))))..)))))))..(.(((.....))))......... ( -27.00)
>DroSec_CAF1 18719 105 - 1
AGCCAUGAAAAUGGC-----AUGGAAAAUGCCAGGCGGCAACAACAACAGC------AGCCAAGCCAGGCAA----GUCGAGGCUGUCUUUCCGUCAGUCAGCCACCCUGCGCCUCACCC
.(((((....)))))-----.(((......)))((((....).......((------((((......)))..----.....(((((.((.......)).)))))....))))))...... ( -35.50)
>DroSim_CAF1 18907 105 - 1
AGCCAUGAAAAUGGA-----AUGGAAAAUGCCAGGCGGCAACAACAACAGC------AGCCAAGCCAGGCAA----GUCGAGGCUGUCUUUCCGUCAGUCAGCCACCCUGCGCCUCACCC
..((((....)))).-----.(((......)))((((....).......((------((((......)))..----.....(((((.((.......)).)))))....))))))...... ( -31.50)
>DroEre_CAF1 20779 114 - 1
AGCCAUGAAAAUGGAAUGGAAUGGAAAAUGCCAGGCGGCAACAACGCCAAC------AGCCAAGCCAGGCAAGCCAGUCGAGGCUGUCUUUCCGUCAGUCAGCCACCCUGCGCCUCACCA
..((((....))))..(((..(((......)))((((((......)))...------.(((......)))..((.((..(.(((((.((.......)).))))).).)))))))...))) ( -35.10)
>DroYak_CAF1 21164 111 - 1
AGCCAUGAAAAUGGA-----AUGGAAAAUGCCAGGCGGCAACAACACCAACAGCAACAGCCAAGCCAGGCAA----CUCGAGGCUGUCUUUCCGUCAGUCAGCCACCCUCUGCCUCACCC
..((((....)))).-----..((....((((.((((....)..........((....))...))).)))).----.....(((((.((.......)).)))))..))............ ( -30.10)
>consensus
AGCCAUGAAAAUGGA_____AUGGAAAAUGCCAGGCGGCAACAACAACAGC______AGCCAAGCCAGGCAA____GUCGAGGCUGUCUUUCCGUCAGUCAGCCACCCUGCGCCUCACCC
..((((....))))........((....((((.((((((...................)))..))).))))..........(((((.((.......)).)))))..))............ (-27.73 = -27.93 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:48 2006