Locus 1609

Sequence ID 3L_DroMel_CAF1
Location 4,731,949 – 4,732,039
Length 90
Max. P 0.528417
window2489

overview

Window 9

Location 4,731,949 – 4,732,039
Length 90
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 78.86
Mean single sequence MFE -28.40
Consensus MFE -19.09
Energy contribution -19.87
Covariance contribution 0.78
Combinations/Pair 1.06
Mean z-score -1.16
Structure conservation index 0.67
SVM decision value -0.01
SVM RNA-class probability 0.528417
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4731949 90 - 23771897
-----------AAGGGAAAAGGGAG--GGCGGUGUAGGGUGUUGGCA--GGGGGCGUGGCUGCAGGUGGCCAACUGUCAGCUUAACGCCUCAACGAGCAAAGUGA
-----------..............--............((((.(..--.(((((((((((((((........))).)))))..)))))))..).))))...... ( -26.90)
>DroSec_CAF1 105768 89 - 1
-----------AAGGGAAAAGGG-G--GCCGGUGUUGGGUGUUGGCA--AGGGGCGUGGCUGCAGGUGGCCAACUGUCAGCUUAACGCCUCAACGAGCAAAGUGA
-----------............-.--(((((..(...)..))))).--.(((((((((((((((........))).)))))..))))))).............. ( -29.50)
>DroSim_CAF1 107672 89 - 1
-----------AAGGGAAAAGGG-G--GCCGGUGUUGGGUGUUGGCA--AGGGGCGUGGCUGCAGGUGGCCAACUGUCAGCUUAACGCCUCAACGAGCAAAGUGA
-----------............-.--(((((..(...)..))))).--.(((((((((((((((........))).)))))..))))))).............. ( -29.50)
>DroEre_CAF1 108033 92 - 1
-----------AAGGGAAAAGGGUGGUGGCGGAGUGGGGCGCAGGUA--AGGGGCGUGGCUGCAGGUGGCCAACUGUCAGCUUAACGCCUCAACGAGCAAAGUGA
-----------..........(.(.((.(((........))).....--.(((((((((((((((........))).)))))..))))))).)).).)....... ( -28.40)
>DroYak_CAF1 111824 80 - 1
-----------AAGGAAAAAGGGUG------------GGCGAAGGUA--GGGGGCGUGGCUGCAGGUGGCCAACUGUCAGCUUAACGCCUCAACGAGCAAAGUGA
-----------..............------------.((...(...--.(((((((((((((((........))).)))))..)))))))..)..))....... ( -25.60)
>DroAna_CAF1 105425 92 - 1
GCCACAUUUUGAGGGAGAAAGGGU---GCUGG----------UGGCAGAGGCGACCCGGGAGCAGGCGGGUAACUGUCAGCUUAACGCCUCAACGAGCAAAGUGA
(((...((((......)))).)))---(((.(----------(....((((((......((((.(((((....))))).))))..)))))).)).)))....... ( -30.50)
>consensus
___________AAGGGAAAAGGGUG__GCCGGUGU_GGGUGUUGGCA__AGGGGCGUGGCUGCAGGUGGCCAACUGUCAGCUUAACGCCUCAACGAGCAAAGUGA
............................................((....(((((((((((((((........))).)))))..))))))).....))....... (-19.09 = -19.87 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:48 2006