Locus 5499

Sequence ID 3R_DroMel_CAF1
Location 14,468,543 – 14,468,659
Length 116
Max. P 0.706668
window8978

overview

Window 8

Location 14,468,543 – 14,468,659
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.51
Mean single sequence MFE -42.35
Consensus MFE -30.09
Energy contribution -30.87
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.22
Structure conservation index 0.71
SVM decision value 0.37
SVM RNA-class probability 0.706668
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14468543 116 + 27905053
GAGUCGCGACUGG----GCAUUACGCAGCCGAUCUGAGCCAAGUUGAAAAUCGAAUAGCUGGCCUGGCUAACGAGGCGGCGCAAAAUGCUACCAAAUUGCGUGUGUCCGUCCGUCCGAUU
.(((((.((((((----((((.(((((((((.((..(((((.(((...............))).)))))...))..))))((.....))........))))))))))))...)))))))) ( -40.46)
>DroSim_CAF1 26447 104 + 1
GAGUCGCGACUGG----GCAUUACGCAGCCGAUCUGAGCCAAGUUGAAAA------------CUUGGCUAACGAGGCGGCGCAAAAUGCUACCAAAUUGCGUGUGUCCGUCCGUCCGAUU
.(((((.((((((----((((.(((((((((.((..((((((((.....)------------)))))))...))..))))((.....))........))))))))))))...)))))))) ( -44.70)
>DroYak_CAF1 28788 113 + 1
GAGUCGCGACCGAUCGCGAGUUACGCAGCCGAUCUGAGCCAAGUUGAAAAUCGAAAAG-----CUGGCUCACGAGGCGGCGCAAAAUGCUACCAAAUUGCGU--GUCCGUCCGUCCGAUU
.(((((.(((.((.((.((..((((((((((.(((((((((.(((...........))-----)))))))).))..))))((.....))........)))))--))))))).)))))))) ( -41.90)
>consensus
GAGUCGCGACUGG____GCAUUACGCAGCCGAUCUGAGCCAAGUUGAAAAUCGAA_AG____CCUGGCUAACGAGGCGGCGCAAAAUGCUACCAAAUUGCGUGUGUCCGUCCGUCCGAUU
.(((((.(((.((....((((.(((((((((.((..(((((.......................)))))...))..))))((.....))........)))))))))...)).)))))))) (-30.09 = -30.87 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:43 2006