Locus 1003

Sequence ID 2R_DroMel_CAF1
Location 4,207,635 – 4,207,728
Length 93
Max. P 0.554509
window1775

overview

Window 5

Location 4,207,635 – 4,207,728
Length 93
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.04
Mean single sequence MFE -33.98
Consensus MFE -19.60
Energy contribution -20.35
Covariance contribution 0.75
Combinations/Pair 1.29
Mean z-score -1.72
Structure conservation index 0.58
SVM decision value 0.04
SVM RNA-class probability 0.554509
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4207635 93 + 20766785
UA-----GAACCUGCU-------UUCUGGGAAUCUAAGCUCGGAAGAGCACGUAAGAGAG--------------A-AGUGAAGAGGAGUGGGUUUUCCCAACGCUAUUUAGUUACACAGC
.(-----(((((..((-------((((..(..(((..((((....)))).(....)..))--------------)-..)..))).)))..))))))...(((........)))....... ( -24.90)
>DroSec_CAF1 19423 114 + 1
UA-----GAACCUGCUCGGAAGAUUCUUGGAAUCUUAGUUCGAAAGAGCACGUAAGAGAGAAAGGCUUAUAAAGA-AGUGAAGAGGGGUGGGUUUUCCCAUCCCCAUCUGGGCCCACAGC
..-----......(((((((....((((.(..((((.((((....))))..(((((.........))))).))))-..).))))((((((((....))))))))..)))))))....... ( -39.00)
>DroSim_CAF1 45574 118 + 1
UAGAAUAGAACCUGCUCGGAAGAUUCUGGGAAUCUCAGUUCGAAAGAGCACGUAAGAGAGAAAGG-UUAUAAAGA-AGUGAAGAGGGGUGGGUUUUCCCAUCUAUACCUAGGCCCACAGC
........(((((.((((((....))))))..((((.((((....)))).(....).)))).)))-)).......-.(((...(((((((((....))))))....))).....)))... ( -35.10)
>DroEre_CAF1 21666 115 + 1
UA-----GAACCUGCUCGGAAGUAUCUGGGAACCGCAGCGCGAAAGCGAACGUGAGAGAUACAGCCUUAUAGAGAGAGUGAAGAGGUCUGGGUUUUCCCAUCCCGAUCUAGGCACGCAGC
..-----....((((..((..(((((((....)(((..(((....)))...)))..))))))..))...........(((...(((((((((....))))....)))))...))))))). ( -36.90)
>consensus
UA_____GAACCUGCUCGGAAGAUUCUGGGAAUCUCAGCUCGAAAGAGCACGUAAGAGAGAAAGG_UUAUAAAGA_AGUGAAGAGGGGUGGGUUUUCCCAUCCCUAUCUAGGCACACAGC
...........(((..(....)...(((((.......((((....))))...................................((((((((....))))))))..))))).....))). (-19.60 = -20.35 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:49 2006