Locus 4730

Sequence ID X_DroMel_CAF1
Location 12,297,002 – 12,297,100
Length 98
Max. P 0.838270
window7755

overview

Window 5

Location 12,297,002 – 12,297,100
Length 98
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 86.80
Mean single sequence MFE -29.48
Consensus MFE -20.84
Energy contribution -20.90
Covariance contribution 0.06
Combinations/Pair 1.23
Mean z-score -2.15
Structure conservation index 0.71
SVM decision value 0.74
SVM RNA-class probability 0.838270
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12297002 98 + 22224390
AGAAAAUUGCAAUUUCGCUCAUCUCUAUAGGGAUGGAAGAACUGCUAGUUUGCGCAUAUCGAUAAGCCAUCGAUAGUCGACGGAUGGGCUA-AGCAGUG
.....(((((...(((..(((((((....)))))))..)))..(((.(((((((..(((((((.....)))))))..)).))))).)))..-.))))). ( -30.00)
>DroSec_CAF1 6501 98 + 1
AGAAAAUUGCAAUUUCGCUCAUCUCUAUAGGGAUGGAAGAACUGCUAGGUUGCGCUUAUCGAUAGGCUAUCGAUAGGCGACGAGUCGGCUA-AGCAGUG
.....(((((...(((..(((((((....)))))))..)))..((..(.(((((((((((((((...)))))))))))).))).)..))..-.))))). ( -37.40)
>DroEre_CAF1 7017 99 + 1
AGAAAAUUGCAAUUUUGCUCAUCUCUAUAGGGAUGGAAUAACUGCUAAGUUGCGCCUAUCGAUUAGCUAUCGAUGACUGACAAAUCGGCCAAAACAGUG
........(((((((.(((((((((....))))))).......)).)))))))((((((((((.....)))))))...((....))))).......... ( -24.31)
>DroYak_CAF1 5881 98 + 1
AGAAAAUUGCAAUUUUGCUCAUCUCUAUAGGGAUGGAAGAACUGCUAGGCUGCGCCUAUCGAUUAGCUAUCGAUUUCCGACUGAUCGGCCA-UACAGUG
........(((.((((..(((((((....))))))).)))).)))(((((...)))))((((((((...(((.....)))))))))))...-....... ( -26.20)
>consensus
AGAAAAUUGCAAUUUCGCUCAUCUCUAUAGGGAUGGAAGAACUGCUAGGUUGCGCCUAUCGAUAAGCUAUCGAUAGCCGACGAAUCGGCCA_AACAGUG
.....(((((...(((..(((((((....)))))))..)))..((..(.(((((..(((((((.....)))))))..)).))).)..))....))))). (-20.84 = -20.90 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:57 2006