Locus 4166

Sequence ID 3R_DroMel_CAF1
Location 11,328,676 – 11,328,788
Length 112
Max. P 0.637158
window6683

overview

Window 3

Location 11,328,676 – 11,328,788
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.46
Mean single sequence MFE -25.48
Consensus MFE -25.04
Energy contribution -25.08
Covariance contribution 0.04
Combinations/Pair 1.11
Mean z-score -1.13
Structure conservation index 0.98
SVM decision value 0.21
SVM RNA-class probability 0.637158
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11328676 112 - 27905053
--------AAAAAAAAAACACUCCCAUCGAAAUGAAGACAGCGUCGAAGGGAACUGGGAAAACUUUUGAAGCUGGCAAAUCGAACUGUUCCCGUUUCCACUUCGACUCCUCGAACUCCUC
--------..................((((..((....))..(((((((((((.((((((....(((((..........)))))...)))))).)))).)))))))...))))....... ( -28.20)
>DroSec_CAF1 67831 108 - 1
------------AAAAAACACUUCCAUCGAAAUGAAGACAGCGUCGAAGGGAACUGGGAAAACUUUUGAAGCUGGCAAAUCGAACUGUUUCCGUUUCCACUUCGACUCCUCGAACUCCUC
------------..............((((..((....))..(((((((((((.((((((....(((((..........)))))...)))))).)))).)))))))...))))....... ( -25.30)
>DroSim_CAF1 66028 107 - 1
-------------AAAAACACUUCCAUCGAAAUGAAGACAGCGACGAAGGGAACUGGGAAAACUUUUGAAGCUGGCAAAUCGAACUGUUCCCGUUUCCACUUCGACUCCUCGAACUCCUC
-------------.............((((..((....))....(((((((((.((((((....(((((..........)))))...)))))).)))).))))).....))))....... ( -23.70)
>DroEre_CAF1 63359 109 - 1
-----------AAAAAAACACUCCCAUCGAAAUGAAGACAGCGUCGAAGGGAGCUGGGAAAACUUUUGAAGCUGGCAAAUCGAACUGUUCCCGUUUCCACAUCGACUCCUCGGACUCCUC
-----------....((((.(((((.((((..((....))...)))).)))))..(((((....(((((..........)))))...))))))))).....((((....))))....... ( -25.40)
>DroYak_CAF1 65148 116 - 1
CAAAAAAAAGAAAAAAAACACUGCCAUCGAAAUGAAGACAGCGUCGAAGGGAACUGGGAAAACUUUUGAAGCUGGCAAAUCGAACUGUUCCCGUUUCCACAUCGACUCCUCGGACU----
.........((...........((..((........))..))(((((.(((((.((((((....(((((..........)))))...)))))).)))).).)))))...)).....---- ( -24.80)
>consensus
___________AAAAAAACACUCCCAUCGAAAUGAAGACAGCGUCGAAGGGAACUGGGAAAACUUUUGAAGCUGGCAAAUCGAACUGUUCCCGUUUCCACUUCGACUCCUCGAACUCCUC
..........................((((..((....))..(((((((((((.((((((....(((((..........)))))...)))))).)))).)))))))...))))....... (-25.04 = -25.08 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:02 2006