Locus 6020

Sequence ID 3L_DroMel_CAF1
Location 16,056,453 – 16,056,566
Length 113
Max. P 0.833591
window9633

overview

Window 3

Location 16,056,453 – 16,056,566
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 80.11
Mean single sequence MFE -27.18
Consensus MFE -15.08
Energy contribution -16.38
Covariance contribution 1.30
Combinations/Pair 1.21
Mean z-score -2.16
Structure conservation index 0.55
SVM decision value 0.72
SVM RNA-class probability 0.833591
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16056453 113 + 23771897
AGCCCAGCACAGAAGUCUCCUUUAUCCAAAUUCUAAGCAAAUGCUUGCCAACUUUCGGUUGGCAUUUAAUUUGAAUAGGCUGCUGAAGCUUCCCGGAUAAGGGCGAAUCCCCU
...............((.(((((((((.....(((..(((((...(((((((.....)))))))....)))))..)))(((.....))).....))))))))).))....... ( -34.80)
>DroSec_CAF1 6478 109 + 1
AGCCCAGCACAGAAUUCUCCUUUAUCCAAAUUCUAAGCGAAUGCUUGCCAACUUUA----AGCAUUUAAUUUGAAUAGACUGCUGAAGCUUCCCGGAUAAGGGCGAAUCUCCU
..........(((.(((.(((((((((..((((.((..(((((((((.......))----)))))))..)).)))).((..((....)).))..))))))))).))))))... ( -28.50)
>DroSim_CAF1 4987 99 + 1
AGCCCAGCACAGAAGUCUCCUUUAUCCAAAUUCUAAGCGAAUGCUU--------------AGCAUUUAAUUUGAAUAGACUGCUGAAGUUUCCCGGAUAAGGGCGAAUCUUCU
..........(((((((.(((((((((((((.((((((....))))--------------)).)))).........(((((.....)))))...))))))))).))..))))) ( -28.20)
>DroEre_CAF1 5516 113 + 1
AGCCCAACACAGGAGUUUCUUCUAUCCAAAGAGUAAUCGAAUAUUUGCAAACUUUCGGUUCACAUUUAAUUUGAAUAGACUGCUCAAACUUCCCGGAUAAGGGCGAAACCUCU
.((((......((((...))))(((((.....(((((((((............))))))).))......(((((.........)))))......))))).))))......... ( -21.90)
>DroYak_CAF1 5438 113 + 1
AGCCCAAUAAAGGAGUCUCUUUUAUCCAAAUUCCGAACAAAUAAUAGCAAACUUUCGGUUGGAAUUUAAUUUAAAUAGACUGCUAAAGCUUUCCGGAUAAGGGCCAAACCCCU
.((((....((((....))))(((((((((((((.(((.......((....))....))))))))))..........((..((....))..)).))))))))))......... ( -22.50)
>consensus
AGCCCAGCACAGAAGUCUCCUUUAUCCAAAUUCUAAGCGAAUGCUUGCAAACUUUCGGUUAGCAUUUAAUUUGAAUAGACUGCUGAAGCUUCCCGGAUAAGGGCGAAUCCCCU
.((((......((....))..((((((..((((.((..(((((((.((.........)).)))))))..)).)))).....((....)).....))))))))))......... (-15.08 = -16.38 +   1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:02 2006