Locus 3865

Sequence ID 2R_DroMel_CAF1
Location 12,784,908 – 12,785,013
Length 105
Max. P 0.528607
window6245

overview

Window 5

Location 12,784,908 – 12,785,013
Length 105
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 81.65
Mean single sequence MFE -17.84
Consensus MFE -10.04
Energy contribution -10.48
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.89
Structure conservation index 0.56
SVM decision value -0.01
SVM RNA-class probability 0.528607
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12784908 105 - 20766785
AGACACAGAUAC------AGAUACAAAUACAAACAAAUGUGUAAAAUCUGGCGAUGAAGAAGAAGAGGAAGAAAAGUCCGAGCAACAAAUGCUCAACUAAUUUUCAUAGAU
...........(------((((....(((((......)))))...)))))...(((((((......(((.......)))(((((.....)))))......))))))).... ( -20.70)
>DroSec_CAF1 129536 99 - 1
AGAUACAGAUAC------AGAUACAAAUACAAGCAAAUGUGUAAAAUCUGGCGAUGAAGAG------GAAGAAAAGUCCGAGCAACAAAUGCUCAACUAAUUUUCAUAGAU
...........(------((((....(((((......)))))...)))))...((((((((------((.......)))(((((.....)))))......))))))).... ( -20.70)
>DroSim_CAF1 134714 105 - 1
AGAUACAGUUAC------AGAUACAAAUACAAGCAAAUGUGUAAAAUCUGGCGAUGAAGAAGAAGAAGAAGAAAAGUCCGAGCAACAAAUGCUCAACUAAUUUUCAUAGAU
.....((....(------((((....(((((......)))))...)))))....))...........(((((..(((..(((((.....))))).)))..)))))...... ( -18.90)
>DroEre_CAF1 130203 96 - 1
AGAUG------------CAAUUACACAUACAAACGCAACCUGAGAAUCUGGCGGUGAAGAC---GAGGAAGAAAAAUCCGAGCAACAAAUGCUCAACUAAUUUUCAUAGAU
.....------------................(((.....(.....)..)))(((((((.---..(((.......)))(((((.....)))))......))))))).... ( -15.90)
>DroYak_CAF1 135326 108 - 1
AGAUACAGAUACCAAUACAAGUACAAAUACAAACACAACCUGAAAAUCUGGCGAUGAAGAG---AAGGAAGAAAAGUGCGAGCAACAAAUGCUCAAAAAAUUUUCAUAGAU
......................................(((.....(((........))).---.)))..(((((....(((((.....)))))......)))))...... ( -13.00)
>consensus
AGAUACAGAUAC______AGAUACAAAUACAAACAAAUGUGUAAAAUCUGGCGAUGAAGAA___GAGGAAGAAAAGUCCGAGCAACAAAUGCUCAACUAAUUUUCAUAGAU
.............................................((((....(((((((......(((.......)))(((((.....)))))......))))))))))) (-10.04 = -10.48 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:58 2006