Locus 7173

Sequence ID 3R_DroMel_CAF1
Location 18,910,052 – 18,910,142
Length 90
Max. P 0.944829
window11600

overview

Window 0

Location 18,910,052 – 18,910,142
Length 90
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 80.31
Mean single sequence MFE -29.86
Consensus MFE -19.95
Energy contribution -19.73
Covariance contribution -0.22
Combinations/Pair 1.10
Mean z-score -2.71
Structure conservation index 0.67
SVM decision value 1.35
SVM RNA-class probability 0.944829
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18910052 90 - 27905053
GAA--------------------GGCGCCGCUAGAGAGCACCACCAAUUAAAUGGGCUUUAAUAAGCUCAGCCACUUAAACAGCCAGAAAUCUGGCA-AAGAGGUUAAACG
...--------------------(((...(((....))).............(((((((....))))))))))((((.....(((((....))))).-...))))...... ( -26.00)
>DroPse_CAF1 23778 108 - 1
GAAGACCUGGGGGGCACUCGGAAGGCGCCGCUAGAGA--AC-CCCAAUUAAAUGGGCUUUAAUAAGCUCAGCCACUUAAGCAGUCAGAAAUCUGGCAAAAGAGGUUAAACG
...(((((((((((..(((....(....)....))).--.)-))).......(((((((....))))))).)).........(((((....))))).....)))))..... ( -33.90)
>DroSec_CAF1 20298 90 - 1
GAA--------------------GGCGCCGCUGGAGAGCACCACCAAUUAAAUGGGCUUUAAUAAGCUCAGCCACUUAAACCGCCAGAAAUCUGGCA-AAGAGGUUAAACG
...--------------------(((...(((..(((((.(((.........))))))))....)))...))).....(((((((((....))))).-....))))..... ( -27.30)
>DroWil_CAF1 25756 102 - 1
GAAGUC------GGCACUUGCAAGGCGCCGCUAGAGA---CCACCAAUUAAAUGGGCUUUAAUAAGCUCAGCCACUUAAAUAGUCUGAAAUCUGGCGAAAAAGGUUAAAUG
..((.(------(((.((.....)).))))))...((---((..........(((((((....)))))))((((..................))))......))))..... ( -25.07)
>DroYak_CAF1 21984 88 - 1
GAA--------------------GGCGCCGGUGG--AGCACCACCAAUUAAAUGGGCUUUAAUAAGCCCAGCCACUUAAACAGCCAGAAAUCUGGCA-AAGAGGUUAAACG
...--------------------(((...(((((--....))))).......(((((((....))))))))))((((.....(((((....))))).-...))))...... ( -34.90)
>DroAna_CAF1 20814 103 - 1
GAAGACUU-----GCACUUGCCGGGCGCCGCUGGA--GGAGGCCCAAUUAAAUGGGCUUUAAUAAGCUCAGCCACUUAAACAGUCAGAAAUCUGGCA-AAGAGGUUAAACG
........-----......(((.(((...(((...--.((((((((......))))))))....)))...))).........(((((....))))).-....)))...... ( -32.00)
>consensus
GAA____________________GGCGCCGCUAGAGAGCACCACCAAUUAAAUGGGCUUUAAUAAGCUCAGCCACUUAAACAGCCAGAAAUCUGGCA_AAGAGGUUAAACG
.......................(((..(....)..................(((((((....))))))))))((((.....(((((....))))).....))))...... (-19.95 = -19.73 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:10 2006