Locus 5993

Sequence ID 3R_DroMel_CAF1
Location 15,783,772 – 15,783,877
Length 105
Max. P 0.604747
window9786

overview

Window 6

Location 15,783,772 – 15,783,877
Length 105
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 87.65
Mean single sequence MFE -33.14
Consensus MFE -23.28
Energy contribution -22.88
Covariance contribution -0.40
Combinations/Pair 1.09
Mean z-score -1.85
Structure conservation index 0.70
SVM decision value 0.14
SVM RNA-class probability 0.604747
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15783772 105 + 27905053
GCGCCACCGACGCAGAACAGAUAUGUGUACUGUACUAUAUAGCAUAGUUUCGGAUAAAAUCCAU----------GCAUAUGCGAUUGCGGACAAGGACCGCCAAAAGGGGUGAAG
.((((.((...((((.(((......))).))))........(((((((...((((...))))..----------)).)))))....((((.......)))).....))))))... ( -27.40)
>DroSec_CAF1 5074 105 + 1
GCGCCACCGACGCAGAACAGAUAUGUGUACUGUACUAUAUCGCAUAGUUUCGGAUAAAAUCCAU----------GCAUAUGCGAUUGCGGACAGGGACCGCCAAAAGGGGUGAAG
.((((.((.(((((.........))))).((((.....((((((((((...((((...))))..----------)).)))))))).....)))))).((.......))))))... ( -31.50)
>DroSim_CAF1 9669 105 + 1
GCGCCACCGACGCAGAACAGAUCUGUGUGCUGUACUAUAUCGCAUAGUUUCGGAUAAAAUCCAU----------GCAUAUGCGAUUGCGGACAGGGACCGCCAAAAGGGGUGCAG
(((((.((.(((((((.....))))))).((((.....((((((((((...((((...))))..----------)).)))))))).....)))))).((.......))))))).. ( -39.50)
>DroEre_CAF1 8902 94 + 1
GCACCACCGACGCAGAACAGAU-----------ACUGUAUCGCAUAGUUUCGGAUAAAAUCCAU----------GCAUAUGCGAUUGCGGACAGGGACCGCCGAGAGGGGUGGAG
...(((((..(((((.((((..-----------.)))).(((((((((...((((...))))..----------)).))))))))))))...........((....))))))).. ( -32.70)
>DroYak_CAF1 26281 110 + 1
GCACCACCGACGCAGAACAGAUAUGUGU-----ACUAUAUCGCAUAGUUUCGGAUAAAAUCCAUGCAUAUCCAUGCAUAUGCGAUUGCGGACAGGGACCGCCAAAAGGGGUGUAG
(((((.((.(((((.........)))))-----.....((((((((.....((((...)))).(((((....))))))))))))).((((.......)))).....))))))).. ( -34.60)
>consensus
GCGCCACCGACGCAGAACAGAUAUGUGU_CUGUACUAUAUCGCAUAGUUUCGGAUAAAAUCCAU__________GCAUAUGCGAUUGCGGACAGGGACCGCCAAAAGGGGUGAAG
.((((.((..((((...................(((((.....)))))...((((...)))).................))))...((((.......)))).....))))))... (-23.28 = -22.88 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:01 2006