Locus 1893

Sequence ID 3R_DroMel_CAF1
Location 5,420,729 – 5,420,829
Length 100
Max. P 0.996351
window3105

overview

Window 5

Location 5,420,729 – 5,420,829
Length 100
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 79.07
Mean single sequence MFE -34.65
Consensus MFE -19.20
Energy contribution -20.95
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -3.35
Structure conservation index 0.55
SVM decision value 2.69
SVM RNA-class probability 0.996351
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5420729 100 + 27905053
------AUGACUACGGUUAAGAAAAAACAAA-----AACCA--AAAAAAAAGACAGG-------UGCGCAAGCGCGCGCGCAUUUUUGGUUUUGCUUACUGGUUUUUUUUUUCGGUGGCU
------....((((.(..((((((((((.((-----(((((--((((.........(-------(((((......)))))).)))))))))))........)))))))))).).)))).. ( -29.20)
>DroSec_CAF1 7468 90 + 1
--------GACUACGGUUAAGAAAAAACAAA-----A-------------AAACAGGUGCGCAGUGCGCAAGCGCGCUCGCAUUUUUGGUUUUGCUUACUGGUUU----UUUCGGUGGCU
--------......(((((.((((((((...-----(-------------((((.((((((.((((((....))))))))))))....)))))........))))----))))..))))) ( -29.20)
>DroEre_CAF1 7934 108 + 1
------ACGACUACGGUUAAGAAAAACCAAAUCCAAAACCAGCAAAAAAAAAACAGGUGCGCAGUGCGCAAGCGC--GCGCAUUUUUGGUUUUGCUUACUGGUUU----UUUCGGUGGCU
------..(.((((.(....(((((((((....(((((((((............((((((((.((((....))))--))))))))))))))))).....))))))----)))).))))). ( -38.80)
>DroYak_CAF1 8138 106 + 1
UCGACUACGACUACGGUUAAGAAAAACCAAA----------GCAACAAAAAAACAGGUGCGCAGUGCGCAAGCGCGCGCGCAUUUUUGGUUUUGCUUACUGGUUU----UUUCGGUGGCU
..(.(((((((....)))..(((((((((((----------((((.(..((((...((((((.((((....))))))))))..))))..).))))))..))))))----)))..))))). ( -41.40)
>consensus
______ACGACUACGGUUAAGAAAAAACAAA_____A______AAAAAAAAAACAGGUGCGCAGUGCGCAAGCGCGCGCGCAUUUUUGGUUUUGCUUACUGGUUU____UUUCGGUGGCU
.............((((.(((.(((((((((........................((((((..((((....))))...))))))))))))))).)))))))................... (-19.20 = -20.95 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:03 2006