Locus 3123

Sequence ID X_DroMel_CAF1
Location 8,328,435 – 8,328,535
Length 100
Max. P 0.813635
window5105

overview

Window 5

Location 8,328,435 – 8,328,535
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.08
Mean single sequence MFE -25.64
Consensus MFE -12.95
Energy contribution -14.28
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.51
SVM decision value 0.66
SVM RNA-class probability 0.813635
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8328435 100 + 22224390
AUCGACCAA---------CGCCCAUGCCUACGCCCACGCCCACUCAUGCACACCCC-----AAUACCACCC----ACUCACCC--AUUCAACGGCCCAGGAGGGGCGUGGCACUCAGGUU
...((((..---------.((....))....(((.((((((.(((..((.......-----..........----........--........))....)))))))))))).....)))) ( -24.31)
>DroSec_CAF1 585 100 + 1
AUCGACCAA---------CGCCCAUGCCUACGCCCACGCCCACUCAUGCACACCCC-----AAUACCACCC----ACCCACCC--AUUCAAUGGCCAAGGAGGGGCGUGGCACUCAUGUU
.......((---------((....((((.((((((..((........)).......-----..........----.((...((--((...))))....))..))))))))))....)))) ( -22.50)
>DroSim_CAF1 564 100 + 1
AUCGACUAA---------CGCCCAUGCCUACGCCCACGCCCACUCAUGCACACCCC-----AAUACCACCC----ACCCACCC--AUUCAACGGCCCAGGAGGGGCGUGGCACUCAGGUU
.........---------.......((((....((((((((.(((..((.......-----..........----........--........))....))))))))))).....)))). ( -23.21)
>DroEre_CAF1 985 92 + 1
AUCGUUCAA---------CGCCCAUGC------CCACGCCCACACAUGCACACCCCAUA------CCACCC----ACCCACCC--AUUUAACGGCUAAGG-GGGGCCUGGCAUUCAGGUU
.........---------.(((.((((------(...((((....(((.......))).------......----.(((..((--.......))....))-)))))..)))))...))). ( -19.80)
>DroYak_CAF1 1024 109 + 1
AUCGACCAA---------CGCCCAUGCCUACGCCCACGCCCACUCAUGCACACCCACUUCCACCACCACCCACCAACCAACCC--AUUCAACGGCCCAGGAGGGGCGUGGCACUCAGGUC
...((((..---------.((....))....(((.((((((.(((..((..................................--........))....)))))))))))).....)))) ( -25.65)
>DroAna_CAF1 1025 102 + 1
AUCGCCUGAGAAGACCACCGCCCCCCC------ACCAGCCCCAACAUCCACCCACC-----AA-ACAGUCC----ACCCGCCCACAGUCCAUGGCU--GGCGGGGCGUGGUUCUCAGGUU
...((((((((..(((((.(((((...------.((((((................-----..-.......----.................))))--)).)))))))))))))))))). ( -38.35)
>consensus
AUCGACCAA_________CGCCCAUGCCUACGCCCACGCCCACUCAUGCACACCCC_____AAUACCACCC____ACCCACCC__AUUCAACGGCCCAGGAGGGGCGUGGCACUCAGGUU
.................................((((((((.(((..((............................................))....))))))))))).......... (-12.95 = -14.28 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:28 2006