Locus 5660

Sequence ID 3R_DroMel_CAF1
Location 14,862,307 – 14,862,407
Length 100
Max. P 0.627328
window9251

overview

Window 1

Location 14,862,307 – 14,862,407
Length 100
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 82.77
Mean single sequence MFE -24.18
Consensus MFE -22.98
Energy contribution -22.98
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.95
SVM decision value 0.19
SVM RNA-class probability 0.627328
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14862307 100 + 27905053
GCAACAGAAACAGUGGAAAA-AAAUG-AAACAAACGUGAGGCAGACCGGCGGGCAGGAAGAAGACUGGCUUCCUCGGUAUUUGGGAUCAGAAGUUGCCUCAU
....................-.....-........((((((((((((((.((.(((........))).))...))))).((((....))))..))))))))) ( -24.40)
>DroSec_CAF1 5045 101 + 1
GCAACAGAAACAGUGGAAAAGAAGUG-AAACAAACGUGAGGCAGACCGGCGGGCAGGAAGAAGACUGGCUUCCUCGGUAUUUGGGAUCAGAAGUUGCCUCAU
..........................-........((((((((((((((.((.(((........))).))...))))).((((....))))..))))))))) ( -24.40)
>DroSim_CAF1 4956 84 + 1
-----------------AAAGAAAUG-AAACAAACGUGAGGCAGACCGGCGGGCAGGAAGACGACUGGCUUCCUCGGUAUUUGGGAUCAGAAGUUGCCUCAU
-----------------.........-........((((((((((((((.((.(((........))).))...))))).((((....))))..))))))))) ( -24.40)
>DroEre_CAF1 5055 91 + 1
GAAACAGAAAAAAAA-------AAUA-AAACAAACGUGAGGCAGACCGGCGAGCAGGAAG---ACUGGCUUCCUCGGUAUUUGGGAUCAGAAGUUGCCUCAU
...............-------....-........((((((((((((((.((((((....---.)).)))).).)))).((((....))))..))))))))) ( -24.20)
>DroYak_CAF1 5038 96 + 1
GAAACAGAAACAACAGCUA---AAUAAAAAAAAACGUGAGGCAGACCGGCGGGCAGGAAG---AAUGGCUUCCUCGGUAUUUGGAAUCAGAAGUUGCCUCAU
...................---.............((((((((((((((....)((((((---.....)))))))))).((((....))))..))))))))) ( -23.50)
>consensus
GAAACAGAAACAAUAG_AAA_AAAUG_AAACAAACGUGAGGCAGACCGGCGGGCAGGAAGA_GACUGGCUUCCUCGGUAUUUGGGAUCAGAAGUUGCCUCAU
...................................((((((((((((((....)((((((........)))))))))).((((....))))..))))))))) (-22.98 = -22.98 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:01 2006