Locus 1614

Sequence ID X_DroMel_CAF1
Location 4,612,388 – 4,612,503
Length 115
Max. P 0.574753
window2640

overview

Window 0

Location 4,612,388 – 4,612,503
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.80
Mean single sequence MFE -36.30
Consensus MFE -24.28
Energy contribution -24.78
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.62
Structure conservation index 0.67
SVM decision value 0.08
SVM RNA-class probability 0.574753
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4612388 115 + 22224390
GAGGGCUG----UA-GGAGAGAGGGAGACAGAGGGAAGACAGAACUGUUGCAAUUACUAUCUAUCUGGUAUUUUAUAACUUUUGUGCUCUUCCUGCUGCCUUACCUCCACACCUCCGCGC
((((..((----(.-((((..((((...(((.(((((((((.((..((((.((.(((((......)))))..)).))))..)).)).))))))).)))))))..)))))))))))..... ( -37.00)
>DroSec_CAF1 36459 116 + 1
GAGGGCGG----UGUGGGGAGAGGGAGAGAGAGGGAAGACAGAACUGUUGCAAUUACUAUCUAUCUGGUAUUUUAUAACUUUUGUGCUCUUCCUGCUGCCUUACCUCCGCACCUCCGCGC
...((.((----(((((((.((((.((.....(((((((((.((..((((.((.(((((......)))))..)).))))..)).)).))))))).)).)))).)).))))))).)).... ( -45.00)
>DroEre_CAF1 39356 111 + 1
GAGGGAGAGAGCUGUGG--GGAGGGAGAGAGAGGGAAGACAGAACUGUUGCAAUUACUAUCUAUCUGGUAUUUUAUAACUUUUGUGCUCUUCCUGCUGCCUUACCUCAACUCC-------
((((..(((.((.(..(--((((((...(((((....((((....)))).....(((((......)))))........)))))...)))))))..).))))).))))......------- ( -35.30)
>DroYak_CAF1 38571 105 + 1
GAGGGAGAGAC--------ACAGAGAGCGAGAGGGAAGACAGAACUGUUGCAAUUACUAUCUAUCUGGUAUUUUAUAACUUUUGUGCUCUUCCUGCUGCCUUACCUCCGCACC-------
.((((((((.(--------((((((.((((.((...........)).))))...(((((......))))).........)))))))))))))))..(((.........)))..------- ( -27.90)
>consensus
GAGGGAGA____UG_GG__AGAGGGAGAGAGAGGGAAGACAGAACUGUUGCAAUUACUAUCUAUCUGGUAUUUUAUAACUUUUGUGCUCUUCCUGCUGCCUUACCUCCACACC_______
((((................((((.((.....(((((((((.((..((((.((.(((((......)))))..)).))))..)).)).))))))).)).)))).))))............. (-24.28 = -24.78 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:41 2006