Locus 1395

Sequence ID 3R_DroMel_CAF1
Location 4,076,308 – 4,076,428
Length 120
Max. P 0.899289
window2297

overview

Window 7

Location 4,076,308 – 4,076,428
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 89.04
Mean single sequence MFE -29.17
Consensus MFE -26.22
Energy contribution -27.67
Covariance contribution 1.45
Combinations/Pair 1.10
Mean z-score -2.19
Structure conservation index 0.90
SVM decision value 1.01
SVM RNA-class probability 0.899289
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4076308 120 + 27905053
GCUAGUUUUGCUUUAGCAACACAGUCCAAAUAUUUUGUGUAGCCAAGGCAAUAUUAUCAGACCCGUCUCCAUCUAUUGGGCUGUGGUAAAAAUUACAAAAUUAAAUCAGGAGGCUAAUUC
(.((((.(((((((.((.((((((..........)))))).)).))))))).)))).)......((((((.....((((..((((((....))))))...))))....))))))...... ( -29.00)
>DroEre_CAF1 4730 116 + 1
----GUUUCGCUUUGGCAACUCAGUCGAAAUAUUUUGUGUAGCCAAGGCAAUAUAAUCAGACCCGUCUCAAUCUAUUGGGCUGUGUUAAAAAUUACAAAAUUAAAUCAAGAGGCUAAUUC
----(((((((((((((.((.(((..........))).)).))))))))....(((((((.((((...........))))))).)))).....................)))))...... ( -29.20)
>DroYak_CAF1 1880 116 + 1
----GCUUUGCUUUGGCAACACAGUCUAAAUAUUUUGUAUAGCCAAGGCGAUACUAUCAGACCCGUCUCAAUCUAAUGGGCUGUGGUUGAAAUUACAAAAUUAAAUCAAGAGGCUAAUUC
----(((((((((((((...((((..........))))...))))))))...((((.(((.(((((.........))))))))))))......................)))))...... ( -29.30)
>consensus
____GUUUUGCUUUGGCAACACAGUCCAAAUAUUUUGUGUAGCCAAGGCAAUAUUAUCAGACCCGUCUCAAUCUAUUGGGCUGUGGUAAAAAUUACAAAAUUAAAUCAAGAGGCUAAUUC
....(((((((((((((.((((((..........)))))).))))))))..(((((.(((.((((...........)))))))))))).....................)))))...... (-26.22 = -27.67 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:58 2006