Locus 5310

Sequence ID 2R_DroMel_CAF1
Location 17,228,613 – 17,228,711
Length 98
Max. P 0.942051
window8483

overview

Window 3

Location 17,228,613 – 17,228,711
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 73.19
Mean single sequence MFE -41.12
Consensus MFE -27.80
Energy contribution -27.08
Covariance contribution -0.72
Combinations/Pair 1.43
Mean z-score -1.56
Structure conservation index 0.68
SVM decision value 1.32
SVM RNA-class probability 0.942051
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17228613 98 - 20766785
AGCGGUGGCGGUGGCGGUGGCGGUGGCACCCGCAGCUGUCACGGAGCCCGUACGUCGGGUCACCGGCAGGAGGCUGGGCUGCUUGGACUGGGCCAGAA
..(((((.(.((((((((.((((......)))).)))))))).).(((((.....))))))))))......((((.((((....)).)).)))).... ( -46.20)
>DroPse_CAF1 28114 77 - 1
UGUGGCGG------------------CUGCUGCAGCUGCCACUGAGCCAGCCCGCCUGGUAACGGGCAGAAGGCUAGGCUGUGUGGA---GGCGAGAG
.(((((((------------------(((...))))))))))..((((((((.(((((....)))))....)))).)))).......---........ ( -37.80)
>DroSec_CAF1 28414 86 - 1
GGCGGUGGAGG------------UGGCAGCGGCAGCUGUCAGGGAGCCCGUUCGUCGGGUCACAGGCAGGAGGCUGGGCUGCUUGGACUGGGCCAGGA
((((((..(((------------..((..((((..(((((..(..(((((.....)))))..).)))))...)))).))..)))..)))..))).... ( -37.60)
>DroSim_CAF1 30821 86 - 1
GGCGGUGGCGG------------UGACAGCGGCAGCUGUCAGGGAGCCCGUUCGUCGGGUCACCGGCAGGAGGCUGGGCUGCUUGGACUGGGCCAGGA
(.(((((((..------------(((((((....)))))))......(((.....)))))))))).)....((((.((((....)).)).)))).... ( -39.50)
>DroEre_CAF1 28917 92 - 1
GGUGGUGGCGGUGGC------GGCUGCAGCGGCAGCUGUCAUGGAGCCCGCUCGUCGGGUCACCGGCAGGAGGCUGGGUUGCGUGGACUGGGCCAGAA
(((((...(.(((((------((((((....))))))))))).)...))))).(((((....)))))....((((.((((.....)))).)))).... ( -46.70)
>DroPer_CAF1 28128 77 - 1
AGUGGCGG------------------CUGCUGCAGCUGCCACUGAGCCAGCCCGCCUGGUAACGGGCAGAAGGCUAGGCUGUGUGGA---GGCGAGAG
((((((((------------------(((...))))))))))).((((((((.(((((....)))))....)))).)))).......---........ ( -38.90)
>consensus
GGCGGUGGCGG____________UGGCAGCGGCAGCUGUCACGGAGCCCGCUCGUCGGGUCACCGGCAGGAGGCUGGGCUGCGUGGACUGGGCCAGAA
..............................(((.....(((((.((((((((.(((((....)))))....))).))))).))))).....))).... (-27.80 = -27.08 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:45 2006