Locus 7540

Sequence ID 3L_DroMel_CAF1
Location 20,242,667 – 20,242,774
Length 107
Max. P 0.607622
window12254

overview

Window 4

Location 20,242,667 – 20,242,774
Length 107
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 78.01
Mean single sequence MFE -32.97
Consensus MFE -23.34
Energy contribution -25.90
Covariance contribution 2.56
Combinations/Pair 1.07
Mean z-score -1.43
Structure conservation index 0.71
SVM decision value 0.15
SVM RNA-class probability 0.607622
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20242667 107 + 23771897
----------GAAAAGCUGUAUCGAGUCGCCUAUUUCUAGUUCAACUUUGGGAGCUCAGUGCGGAGAGGAGUUCGCGGAGACUGAGUCGGAGAUGGGAUGCGAUGCGAUGGGAUGGG
----------.......(((((((.....(((((((((..((((.(((((.((((((..(.....)..)))))).)))))..))))..)))))))))...))))))).......... ( -38.20)
>DroSim_CAF1 1 107 + 1
----------GAAAAGCUGUAUCGAGUCGCCUAUUUCUAGUUCAACUUUGGGAGCUCAGUGCAGAGAGAAGUUCGCGGAGACGGAGUCGGAGAUGGGAUGCGAUGCGAUGGGAUAGG
----------.......(((((((.....(((((((((..(((..(((((.((((((..........).))))).)))))...)))..)))))))))...))))))).......... ( -33.70)
>DroYak_CAF1 1 101 + 1
GUCUAGCUGAGAAAAGCCGUAUCGAGUCGCCUAUUUCUAGUUCAACUUUGGGAGCUCAGUGCGGAAGGGAUUUUUCGGAGA------CGAAUAUGGGAUGCGAU----------GGG
..((((((......)))(((((((((((.(((..((((((.......))))))((.....))...))))))))((((....------)))).....)))))).)----------)). ( -27.00)
>consensus
__________GAAAAGCUGUAUCGAGUCGCCUAUUUCUAGUUCAACUUUGGGAGCUCAGUGCGGAGAGGAGUUCGCGGAGAC_GAGUCGGAGAUGGGAUGCGAUGCGAUGGGAUGGG
..................((((((.....(((((((((..(((..(((((.((((((..(.....)..)))))).)))))...)))..)))))))))...))))))........... (-23.34 = -25.90 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:45 2006