Locus 6616

Sequence ID 2R_DroMel_CAF1
Location 20,706,401 – 20,706,516
Length 115
Max. P 0.572114
window10530

overview

Window 0

Location 20,706,401 – 20,706,516
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.97
Mean single sequence MFE -39.04
Consensus MFE -30.30
Energy contribution -30.94
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.53
Structure conservation index 0.78
SVM decision value 0.08
SVM RNA-class probability 0.572114
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20706401 115 + 20766785
AAGGAGACGGG-----GUGAAUUUGGAAGCCACAUCCUCCACAGAGGAUUAAUGUGCUGCACACUUCGUUUGACAGUGGAGCGGUUUUGUCUGCAAGCGGAUCCCCAAUUGUCUCACAAG
...((((((((-----(........((((((..((((((....))))))......(((.(((...((....))..))).)))))))))(((((....)))))))))....)))))..... ( -37.70)
>DroSec_CAF1 139964 109 + 1
AAGGAGACGGG-----GU------GGAGGCCACAUCCUCCACAGAGGAUUAAUGUGCUGCACACUUCGUUUGACAGUGGAGCGGUUUUGUCUGCAAGCGGAUCCCCAAUUGUCUCACAAG
....(((((((-----((------(..(((((.((((((....))))))...)).)))...))))))))))....(((..((((((..(((((....)))))....))))))..)))... ( -38.10)
>DroSim_CAF1 144188 109 + 1
AAGGAGACGGG-----GU------GGAGGCCACAUCCUCCACAGAGGAUUAAUGUGCUGCACACUUCGUUUGACAGUGGAGCGGUUUUGUCUGCAAGCGGAUCCCCAAUUGUCUCACAAG
....(((((((-----((------(..(((((.((((((....))))))...)).)))...))))))))))....(((..((((((..(((((....)))))....))))))..)))... ( -38.10)
>DroEre_CAF1 180818 120 + 1
AAGGAGAUGGGGCGGGGUGAAUUUGGAGGCCACAUCCUCCACAGAGGAUUAAUGUGCUGCACACUUCGUUUGACAGUCAAGCGGUUUUGUCUGCAAGCGGAUCCCCAAUUCUCUCACAAA
..((((((((((.((((((....((..(((((.((((((....))))))...)).))).))))))))(((((.(((.((((....)))).))))))))....)))))..)))))...... ( -40.30)
>DroYak_CAF1 145975 116 + 1
AAGGAGACGGG---GGGUGAAUUUGGAGGCCACAUCCUCCACAGAGGAUUAAUGUGCUGCACACUUCGUUUGACAGUCGAGCGGUUUUGUCUGCAAGCGGAUCCCCAA-UCUCUCACAAA
..(((((..((---((((.....((..(((((.((((((....))))))...)).)))...))..(((((((.(((.((((....)))).))))))))))))))))..-)))))...... ( -41.00)
>consensus
AAGGAGACGGG_____GUGAAUUUGGAGGCCACAUCCUCCACAGAGGAUUAAUGUGCUGCACACUUCGUUUGACAGUGGAGCGGUUUUGUCUGCAAGCGGAUCCCCAAUUGUCUCACAAG
...((((((((..............((((((..((((((....))))))......(((.(((...((....))..))).)))))))))(((((....))))).)))....)))))..... (-30.30 = -30.94 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:12 2006