Locus 4378

Sequence ID 2L_DroMel_CAF1
Location 12,610,877 – 12,610,997
Length 120
Max. P 0.808725
window6895

overview

Window 5

Location 12,610,877 – 12,610,997
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.08
Mean single sequence MFE -36.84
Consensus MFE -18.06
Energy contribution -20.46
Covariance contribution 2.40
Combinations/Pair 1.22
Mean z-score -1.92
Structure conservation index 0.49
SVM decision value 0.64
SVM RNA-class probability 0.808725
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12610877 120 + 22407834
CAUCCGCAAGGAAAGAUCAUCGACAUCAGUGCGUUUAAAAUUUCUUGUGUUUUGUACGAGAUGUAAUUUCAAUCGGCGUCCAUCCAAACGGACUCCGUGGAACUGCUCGAUGAUCUGGAA
..(((....))).((((((((((...((((............(((((((.....))))))).......((...(((.((((........)))).)))..)))))).)))))))))).... ( -41.10)
>DroSec_CAF1 177605 120 + 1
AAUCUGCGAGGAAAGAUCCUCGAUCUCAGGACGUCGGAAAUUGCGUGUAUUUCGUACGAGAUGUAAUUUCAAUCGGCGUCCGUCCAAACGGACUCCGUGGAACUGCCUGAUGAUCUGGAA
..(((..(((((....)))))(((((((((...((.((((((((((((((...))))...))))))))))...(((.((((((....)))))).)))..))....))))).)))).))). ( -44.40)
>DroSim_CAF1 181594 120 + 1
AGUCUGCGAGGAAAGAUCCUCGAUCUCAGGACGUCGGAAAUUGCGUGUAUUUCGUACGAGAUGUAAUUUCAAUCGGCGUCCGUCCAAACGGACUCCGUGGAACUGCCUGAUGAUCUGGAA
..(((..(((((....)))))(((((((((...((.((((((((((((((...))))...))))))))))...(((.((((((....)))))).)))..))....))))).)))).))). ( -44.30)
>DroEre_CAF1 175930 94 + 1
--------------------------CAGGACGCUUGCAGUUGCGUGUCUUUUGAAUGAGAUGUAUUUUCAAUCGGCGUCCGUCAACAUGAACGCCGUGGAACUGCCUGAUGAUCAUCAU
--------------------------((((((((........))))(((((......))))).....(((...((((((.(((....))).))))))..)))...))))........... ( -25.80)
>DroYak_CAF1 182159 120 + 1
ACUCUGCAAUGAACGAGAUUCACCAUCAGGGCGUUUGAAAUCGCGUGUUUUUUGUAUGAGAUGUAGCUUCAAUCGGCGUCCGUCCAAAAAGACUCCGUGGAACUGCUUGAUGAUCUUCAU
.((((((((.(((((.......((....))(((........))).))))).))))).)))..((((.(((...(((.(((..........))).)))..))))))).(((......))). ( -28.60)
>consensus
AAUCUGCAAGGAAAGAUCCUCGACAUCAGGACGUUUGAAAUUGCGUGUAUUUUGUACGAGAUGUAAUUUCAAUCGGCGUCCGUCCAAACGGACUCCGUGGAACUGCCUGAUGAUCUGGAA
..(((((.....................(((((((.((((((((((.(..........).))))))))))....)))))))((((....))))...)))))................... (-18.06 = -20.46 +   2.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:22 2006