Locus 5299

Sequence ID 3R_DroMel_CAF1
Location 13,829,683 – 13,829,781
Length 98
Max. P 0.738251
window8643

overview

Window 3

Location 13,829,683 – 13,829,781
Length 98
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 88.94
Mean single sequence MFE -28.34
Consensus MFE -20.69
Energy contribution -22.05
Covariance contribution 1.36
Combinations/Pair 1.10
Mean z-score -1.97
Structure conservation index 0.73
SVM decision value 0.44
SVM RNA-class probability 0.738251
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13829683 98 + 27905053
AUUAAGUCGCGCCACAUGGGAAUACAGUGUAUGCAAAAUUGUUGGUACUAAAU------AGUUUUAGCGUCGACUGCAACACGUUCAAGUAAUUGGUUGCUACU
....(((.((((((.((..((((...((((.((((.....(((((..(((((.------...)))))..)))))))))))))))))..))...))).))).))) ( -24.50)
>DroSec_CAF1 101393 98 + 1
AUUAAGCCGCGUCACUUGGGAAUACUGUGUAUGCAAAAUUGUUGAGGCUAAAU------AGUUUUAGCGUCGACUGCAACACGUUCAAGUAAUUGGUGGCUACU
....((((((((.(((((((.....(((((.((((.....(((((.((((((.------...)))))).))))))))))))))))))))).))..))))))... ( -34.40)
>DroSim_CAF1 104071 98 + 1
AUUAAGCCGCGUCACAUGGGAAUACUGUGUAUGCAAAAUUGUUGAGGCUAAAU------AGUUUUAGCGUCGACUGCAACAUGUUCAAGUAAUUGGUGGCUACU
....((((((...((((((.....)))))).((((.....(((((.((((((.------...)))))).))))))))).......(((....)))))))))... ( -32.20)
>DroEre_CAF1 101769 96 + 1
AUUAAUCCGCACCACAUGGGAAUAC--UAUAUGCAAAAUUGUUGGGGCUAAAU------AGUUUUAGCGGCGACUGCAACACGUUCGAGUAAUUGGAGGCUACU
........(((.((.((((.....)--))).)).......((((..((((((.------...))))))..)))))))....(.(((((....))))).)..... ( -18.90)
>DroYak_CAF1 108894 104 + 1
AUUAAGCCGCAGCACAUGGGAAUAUCGUGUAUGCAAAAUUGUUGGGGCUAAAUACUCGUAGUUUUAGCGUCGACUGCACCACGUUCAAGUAAUUGGAGGCUACU
....(((((((((((((((.....))))))..))......(((((.((((((.((.....)))))))).))))))))......(((((....)))))))))... ( -31.70)
>consensus
AUUAAGCCGCGCCACAUGGGAAUACUGUGUAUGCAAAAUUGUUGGGGCUAAAU______AGUUUUAGCGUCGACUGCAACACGUUCAAGUAAUUGGUGGCUACU
....((((((.........((((...((((.((((.....(((((.((((((..........)))))).))))))))))))))))).........))))))... (-20.69 = -22.05 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:23 2006