Locus 5040

Sequence ID 3R_DroMel_CAF1
Location 13,266,052 – 13,266,143
Length 91
Max. P 0.956840
window8228

overview

Window 8

Location 13,266,052 – 13,266,143
Length 91
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 73.42
Mean single sequence MFE -22.29
Consensus MFE -12.37
Energy contribution -13.57
Covariance contribution 1.19
Combinations/Pair 1.07
Mean z-score -2.01
Structure conservation index 0.56
SVM decision value 1.47
SVM RNA-class probability 0.956840
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13266052 91 + 27905053
ACAGAAAUUACAAUUUUCAGGCGGUCGGAAAGCGUAACGCAAGUUGCGAGGCAGAUAUAGAGCGCAAUUCUAAAAA---------AAA--CUCGAAGAAAAU
............((((((..(((.((......((((((....))))))...........)).)))..(((......---------...--...))))))))) ( -18.03)
>DroVir_CAF1 23035 99 + 1
ACAGAAAUCACACCGUUCUGGCGGUCGCAGCGCAUAACGCAAAGGGCGUGGCAGCUCCAAGGCACAGCGCUAGAAGUAUGUCAA---GAGAUACACAAAAAC
...............(((((((((((..(((((...((((.....)))).)).)))....)))....))))))))((.((((..---..)))).))...... ( -25.80)
>DroSec_CAF1 18704 92 + 1
ACAGAAAUUACAAUUUUCAGGCGGUCGGAAGGCGUAACGCAAGUUGCGAGGCAAUGAUAGAGCGCAAUUCUAAAAGA--------AAA--CACAAAGAAAAU
............((((((..((((((....)))(((((....)))))...............)))..(((.....))--------)..--......)))))) ( -21.20)
>DroSim_CAF1 18795 94 + 1
ACAGAAAUUACAAUUUUCAGGCGGUCGGAAGGCGUAACGCAAGUUGCGAGGCAAAGAUAGAGCGCAAUUCUAAAAAAA------AAAA--CUCAAAGAAAAG
.............(((((..((.(((....)))(((((....)))))...)).....(((((.....)))))......------....--......))))). ( -20.20)
>DroEre_CAF1 20003 75 + 1
ACAGAAAUUACAAUUUUCAGGCGGCCGGAAGGCGUAACGCAAGUUGCGUGGCAACGACAGAGCGCAGUUCUAACC---------------------------
...((((.......))))..((((((....)))(((((....)))))(((....).))....)))..........--------------------------- ( -23.30)
>DroYak_CAF1 26788 89 + 1
ACAGAAAUUACAAUUUUCUGGCGGUCGGAAGGCGUAACGCAAGUUGCGUGGCAAAGACAGAGCGCAAUUCUAACA-----------AA--CGCAAUGAAAUU
.((((((.......))))))((((((.(...(((((((....)))))))..)...)))((((.....))))....-----------..--)))......... ( -25.20)
>consensus
ACAGAAAUUACAAUUUUCAGGCGGUCGGAAGGCGUAACGCAAGUUGCGAGGCAAAGACAGAGCGCAAUUCUAAAA___________AA__CUCAAAGAAAAU
...((((.......))))..((((((....)))(((((....)))))...............)))..................................... (-12.37 = -13.57 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:50 2006