Locus 3444

Sequence ID 3L_DroMel_CAF1
Location 10,105,986 – 10,106,078
Length 92
Max. P 0.500000
window5376

overview

Window 6

Location 10,105,986 – 10,106,078
Length 92
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 84.38
Mean single sequence MFE -22.88
Consensus MFE -15.18
Energy contribution -15.42
Covariance contribution 0.24
Combinations/Pair 1.16
Mean z-score -1.67
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10105986 92 + 23771897
AAGGGAAAGUUUACCGUUUUCCUGGCGGCAGCCAAGUACAAUUUGUGCUCGGUUUCGAAGAACAGAAGCAUUAGAAAG-------------AAAAACAAACAUCU
..(((((((.......)))))))(((....))).(((((.....)))))..(((((........))))).........-------------.............. ( -18.80)
>DroSec_CAF1 44948 92 + 1
AAGGGAAAGUUUCCCGUUUUCCUGGCGGCAGCCAAGUACAAUUUGUGCUCGGUUUCGAGGAACAGAUGCACUAGAAGG-------------AAAAACAAACAUCU
..((((.....)))).((((((((((....))).(((...((((((.((((....))))..))))))..)))...)))-------------)))).......... ( -27.90)
>DroSim_CAF1 45889 92 + 1
AAGGGAAAGUUUCCCGUUUUCCUGGCGGCAGCCAAGUACAAUUUGUGCUCGGUUUCGAAGAACAGAAGCAUUAGAAGG-------------AAAAACAAACAUCU
..((((.....)))).((((((((((....))).(((((.....)))))..(((((........)))))......)))-------------)))).......... ( -25.70)
>DroEre_CAF1 49672 105 + 1
AAGGGAAAGUUGCCCGUUUUCCUGGCGGCAGCCGAGUACAAUUUGUGCUCGCUUUCGAGGAACAGAAGCAUCAGAAAACCAAAAACCAAAAAAACACAAACAUCU
..(((.......)))((((((..(((....)))((((((.....))))))((((..(.....)..))))....)))))).......................... ( -26.00)
>DroYak_CAF1 47695 102 + 1
AAGAGAAAGUUGC-CGUUUUCCUGGCUGCAGCCAAGUACAAUUUGUGCUCACUUUCGAAAAACAGAAGCAUAAGAAAA--AAAAAAGAAAAACAAACAAACAUCU
........(((..-..(((((.((((....)))).......((((((((.....((........))))))))))....--......)))))...)))........ ( -16.00)
>consensus
AAGGGAAAGUUUCCCGUUUUCCUGGCGGCAGCCAAGUACAAUUUGUGCUCGGUUUCGAAGAACAGAAGCAUUAGAAAG_____________AAAAACAAACAUCU
........(((((...(((((.((((....))))(((((.....))))).......)))))...))))).................................... (-15.18 = -15.42 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:13 2006