Locus 6664

Sequence ID 3R_DroMel_CAF1
Location 17,526,786 – 17,526,902
Length 116
Max. P 0.554064
window10840

overview

Window 0

Location 17,526,786 – 17,526,902
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 82.76
Mean single sequence MFE -23.71
Consensus MFE -18.04
Energy contribution -19.60
Covariance contribution 1.56
Combinations/Pair 1.22
Mean z-score -1.50
Structure conservation index 0.76
SVM decision value 0.04
SVM RNA-class probability 0.554064
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17526786 116 + 27905053
UUACUUAGAUGUGAAGAGCAACCGAAAAGUAUUUUAUAACUAAAUGCUUUUUUGUUUGUAAUUUUUUAUUUAUAAACAUAAUUUUGAGAACUAGCAGUUGUCUGUGCUUCAAGACU
...........(((((.(((...(((((((((((.......)))))))))))(((((((((........))))))))).......((.(((.....))).))))).)))))..... ( -23.90)
>DroSec_CAF1 35451 116 + 1
UUACUUAGCUGUAAAAAACAUGCGAAAAGUAUUUUAUGACUAAGUGCCUGUUUGUUUGUAAUGUUUUACUUAUAAACGUAAUUUUGAGGACUACCAGUUGUCUGUGUUUCAAGACU
.(((((((..(((((....((((.....)))))))))..)))))))...((((((..((((....))))..))))))....(((((((.((...(((....))).))))))))).. ( -24.30)
>DroSim_CAF1 36253 116 + 1
UUACUUAGCUGUAAAAAACAUGCGAAAAGUAUUUUAUGACUAAGUGCCUGUUUGUUUGUAAUGUUUUAUUUAUAAACGUAAUUUUGAGGACUAGCAGUUGUCUGUGUUUCAAGACU
.(((((((..(((((....((((.....)))))))))..)))))))...((((((..((((....))))..))))))....((((((((....((((....)))).)))))))).. ( -25.50)
>DroEre_CAF1 35772 101 + 1
UUACUUAGC---------------AAAAGUAUUUCAUGGCUAAGUGGUUUUUUAUUUGUGAAAUUGUACUUAUAAAUGUAAUUUUGAAGACUAGCAGUUGUCUGUGUUUCAAGACU
(((((((((---------------..............))))))))).....(((((((((........)))))))))...((((((((....((((....)))).)))))))).. ( -21.14)
>consensus
UUACUUAGCUGUAAAAAACAUGCGAAAAGUAUUUUAUGACUAAGUGCCUGUUUGUUUGUAAUGUUUUACUUAUAAACGUAAUUUUGAGGACUAGCAGUUGUCUGUGUUUCAAGACU
.(((((((.(((((((.((.........)).))))))).)))))))......(((((((((........)))))))))...((((((((....((((....)))).)))))))).. (-18.04 = -19.60 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:04 2006