Locus 4074

Sequence ID 3L_DroMel_CAF1
Location 11,870,586 – 11,870,690
Length 104
Max. P 0.549539
window6342

overview

Window 2

Location 11,870,586 – 11,870,690
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 81.93
Mean single sequence MFE -19.62
Consensus MFE -14.62
Energy contribution -15.22
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.75
SVM decision value 0.03
SVM RNA-class probability 0.549539
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11870586 104 + 23771897
CCCAACCAACCACCUAGCCACCCACUUUCACCCACAUUUCUCACUUUUCUCCGCACGGAGCACAGAUGUGUGGCAGCAAAUGCCGUAAAACAAAUGUAAAGUGA
......................((((((((.((((((.(((.......((((....))))...))).))))))..((....))...........)).)))))). ( -20.20)
>DroSec_CAF1 45939 96 + 1
--------ACCACCUAGUCACCCACUUUCACCCACAUUUCUCACUUUUCUCCGCACGGAGCACAGAUGUGUGGCAGCAAAUGCCGUAAAACAAAUGUAAAGUGA
--------..............((((((((.((((((.(((.......((((....))))...))).))))))..((....))...........)).)))))). ( -20.20)
>DroSim_CAF1 46508 96 + 1
--------ACCAGCUAGCCACCCACUUUCACCCACAUUUCUCACUUUUCUCCGCACGGAGCACAGAUGUGUGGCAGCAAAUGCCGUAAAACAAAUGUAAAGUGA
--------..............((((((((.((((((.(((.......((((....))))...))).))))))..((....))...........)).)))))). ( -20.20)
>DroEre_CAF1 47975 99 + 1
GCCACCCAACCAC-----CGCCCACUUUCACUCACAUUUCUCACUUUUCUCCGCACGACGCACAGAUGUGUGGCAGCAAAUGCCGUAAAACAAAUGUAAAGUGA
.............-----.........(((((.((((((..(((...(((..((.....))..))).))).((((.....)))).......))))))..))))) ( -17.60)
>DroAna_CAF1 45023 91 + 1
C-------CCUCCCUACCCACCCACAUAGCCGCCCAUUUUUCGCUCCU------GCCGAGCACAGAUGUGUGGCAACAAAUGCCGUAAAACAAAUGUAAAGUGA
.-------..............(((...(((((.(((((...((((..------...))))..))))).))))).(((..((........))..)))...))). ( -19.90)
>consensus
________ACCACCUAGCCACCCACUUUCACCCACAUUUCUCACUUUUCUCCGCACGGAGCACAGAUGUGUGGCAGCAAAUGCCGUAAAACAAAUGUAAAGUGA
......................((((((.....((((((....................((((....))))((((.....)))).......)))))))))))). (-14.62 = -15.22 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:52 2006