Locus 2266

Sequence ID 3L_DroMel_CAF1
Location 6,321,312 – 6,321,428
Length 116
Max. P 0.520096
window3502

overview

Window 2

Location 6,321,312 – 6,321,428
Length 116
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 87.93
Mean single sequence MFE -22.91
Consensus MFE -15.92
Energy contribution -17.32
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.70
SVM decision value -0.03
SVM RNA-class probability 0.520096
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6321312 116 + 23771897
GAGUUUAAAGCUACAUCAUAUAACCCUUUUCGAUACCUCCUGGAACAUCUUUGAAAAUUCCGCCACUGCCUUGGCAUCGCACAACUUGCUAUUAUCGCAAGAUAAAUGCCAGUUCC
.(((.....))).............................(((((...............((....))..((((((.(((.....)))..(((((....)))))))))))))))) ( -21.30)
>DroSec_CAF1 86359 116 + 1
GAGUUUAAAGAUACAUCAUAUAACCCCUUAAGAUACCUCCUGGAACAUCCUUGAAAAUUCCGCUACUUCCUUGGCAUCGCACAACUUGCUAUUAUCGCAAGAUAAAUGCCAGUUCC
((((((.(((....(((.((........)).))).((....))......)))..))))))..........(((((((.(((.....)))..(((((....)))))))))))).... ( -20.90)
>DroSim_CAF1 91525 113 + 1
GAGUUUAAAGAUACAUCAUAUAACCCCUUAAGAUACCUCCUU---CAUCCUUGAAAAUUCCGCUACUUCCUUGGCAUCGCACAACUUGCUAUUAUCGCAAGAUAAAUGCCAGUUCC
((((((........(((.((........)).))).......(---((....)))))))))..........(((((((.(((.....)))..(((((....)))))))))))).... ( -18.70)
>DroEre_CAF1 87881 116 + 1
UAUUUAAAAUGUGAAUCACAAAACCCCUUGAGACACCUCCUGGCACAUCCAUGAAAAUUCCGCCAGGGCCUUGGCAUCGCACAACUUGCUAUUAUCGCAAGAUAAAUGCCAGUUCC
..........(((..(((..........)))..))).(((((((.................)))))))..(((((((.(((.....)))..(((((....)))))))))))).... ( -28.23)
>DroYak_CAF1 95310 116 + 1
UAUUUAGAAUGUAUAUCCCAAAACCCCUUGAGAUACGUCCUGGAACAUCCAUGAGAAUUCCGCCACUGCCUUGGCAUCGCACAACUUGCUAUUAUCGCAAGAUAAAUGCCAGUUCC
.....((.((((((....(((......)))..)))))).))(((((...............((....))..((((((.(((.....)))..(((((....)))))))))))))))) ( -25.40)
>consensus
GAGUUUAAAGAUACAUCAUAUAACCCCUUAAGAUACCUCCUGGAACAUCCUUGAAAAUUCCGCCACUGCCUUGGCAUCGCACAACUUGCUAUUAUCGCAAGAUAAAUGCCAGUUCC
.........................................(((((...............((....))..((((((.(((.....)))..(((((....)))))))))))))))) (-15.92 = -17.32 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:12 2006