Locus 4742

Sequence ID 3R_DroMel_CAF1
Location 12,443,519 – 12,443,639
Length 120
Max. P 0.907289
window7785

overview

Window 5

Location 12,443,519 – 12,443,639
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.83
Mean single sequence MFE -35.44
Consensus MFE -31.24
Energy contribution -31.16
Covariance contribution -0.08
Combinations/Pair 1.10
Mean z-score -1.51
Structure conservation index 0.88
SVM decision value 1.05
SVM RNA-class probability 0.907289
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12443519 120 + 27905053
UUUCGCUGAGUUUAGAGCACGAGCUCCUCCCUAAAACGGGAGACCAUUGGGUGUCUUGAAUAUGCUGAACUCGACCUUUGUUGGGUGUAACUUAUAGAUUCCCAAAUAAAUAGAAGCGCU
...((((..(((((((((....))))(((((......)))))....(((((.((((......(((...(((((((....))))))))))......)))).))))).)))))...)))).. ( -36.50)
>DroSec_CAF1 8173 120 + 1
UUUCGCUGCGUGUGGAGCACGAGCUCCUCCCUAAAACGGGAGUCCAUUGGGUGUCUUGAAUAUGCUGAACUCGACCUUUGUUGGGUGUAACUUAUAGAUUCCCAAAUAAAUAGAAGCGCU
.......((((..(((((....)))))((((......)))).....(((((.((((......(((...(((((((....))))))))))......)))).)))))..........)))). ( -36.00)
>DroSim_CAF1 7042 120 + 1
UUUCGCUGCGUUUGGAGCACGAGCUCCUCCCUAAAACGGGAGUCCAUUGGGUGUCUUGAAUAUGCUGAACUCGACCUUUGUUGGGUGUAACUUAUAGAUUCCCAAAUAAAUAGAAGCGCU
.......(((((((((((....)))))((((......)))).....(((((.((((......(((...(((((((....))))))))))......)))).)))))........)))))). ( -37.60)
>DroEre_CAF1 17869 119 + 1
UGUCGCAGCAGUUGAAGCACGAGCUCCUCCCUA-AACGGGAGUCCAUCGGGUAUCUUGAAUAUACUGAACUCGACCUUUGUUGGGUGUAACUUAUAGAUUCCCAAAUAAAUAGAAGUGCU
...............(((((((....(((((..-...)))))....))(((.((((....((((((.(((.........))).))))))......)))).)))............))))) ( -32.30)
>DroYak_CAF1 17944 120 + 1
UUUCGCAGCAGUUGGAGCACGAGCUCCUCCCUAAAACGGGAGUCCAUUGGGUGUCUUGAAUAUGCUGAACUCGACCUUUGUUGGGUGUAACUUAUAGAUUCCCAAAUAAAUAGAAGCGCU
....((.((....(((((....)))))((((......)))).....(((((.((((......(((...(((((((....))))))))))......)))).)))))..........)))). ( -34.80)
>consensus
UUUCGCUGCGUUUGGAGCACGAGCUCCUCCCUAAAACGGGAGUCCAUUGGGUGUCUUGAAUAUGCUGAACUCGACCUUUGUUGGGUGUAACUUAUAGAUUCCCAAAUAAAUAGAAGCGCU
...(((........((((....))))(((((......)))))....(((((.((((......(((...(((((((....))))))))))......)))).)))))..........))).. (-31.24 = -31.16 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:50 2006