Locus 2222

Sequence ID 2R_DroMel_CAF1
Location 8,203,985 – 8,204,093
Length 108
Max. P 0.960874
window3661

overview

Window 1

Location 8,203,985 – 8,204,093
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -26.47
Consensus MFE -20.71
Energy contribution -21.55
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -2.35
Structure conservation index 0.78
SVM decision value 1.52
SVM RNA-class probability 0.960874
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8203985 108 + 20766785
GCCACAAGCUCCACAUUCGGCUAAUGGGCAAAACCCGAAUCCGGGUAUUCCCCAGCAACCUUUACAGCUUCAACCUACUCCGGUGAGCCUAAAGCCGGGAACACCCCA
..................((((..((((.((.(((((....))))).)).))))............((((..(((......)))))))....))))(((.....))). ( -31.20)
>DroSec_CAF1 28765 108 + 1
GCCACAAGUUCCACAUUCUGCAAAUGGGCAAAACACGAACCCGGGAAUUACCCAGCAACCUUUACAGCUUCAACCUACUCCGGUGAGCCUAAAGCCUGGAACACCCCA
.......((((((.....(((....(((...........)))(((.....))).)))..(((((..((((..(((......))))))).)))))..))))))...... ( -25.80)
>DroSim_CAF1 28556 108 + 1
GCCACAAGCUCCACAUUCUGCAAAUGGGCAAAACCCGAACCCGGGAAUUCCCCAGCAACCUUUACAGCUUCAACCUACUCCGGUGAGCCUAAAGCCUGGAACACCCCA
.....(((((........(((...((((.((..((((....))))..)).)))))))........)))))...........((((..((........))..))))... ( -25.39)
>DroEre_CAF1 27745 108 + 1
CACACAAGCUCCACCCUCUGCUAAUGGACAAAACCCGACCCCGGGAGUUCCACAGCAACCUUUACAGCUUCAACCUACUCCGGUGAGCCUUAAGCCUGGAACACCCCA
.....(((((........((((..((((.....((((....))))...)))).))))........)))))...........((((..((........))..))))... ( -24.79)
>DroYak_CAF1 28331 108 + 1
CCCACAAGCUCCACCUUCUGCGAAUGGGCAAAACCCUACCCCGGGAGUUCCCCAGCAACCUUUACAGCUUCAACCUACUCCGGUGAGCCUUAAGCCUGGAACACCACA
.....(((((........(((...((((.((..(((......)))..)).)))))))........)))))...........((((..((........))..))))... ( -25.19)
>consensus
GCCACAAGCUCCACAUUCUGCAAAUGGGCAAAACCCGAACCCGGGAAUUCCCCAGCAACCUUUACAGCUUCAACCUACUCCGGUGAGCCUAAAGCCUGGAACACCCCA
.....(((((........(((...((((.((..((((....))))..)).)))))))........)))))...........((((..((........))..))))... (-20.71 = -21.55 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:13 2006