Locus 4852

Sequence ID 3R_DroMel_CAF1
Location 12,722,759 – 12,722,849
Length 90
Max. P 0.658827
window7948

overview

Window 8

Location 12,722,759 – 12,722,849
Length 90
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 84.83
Mean single sequence MFE -28.43
Consensus MFE -20.81
Energy contribution -20.65
Covariance contribution -0.16
Combinations/Pair 1.20
Mean z-score -2.47
Structure conservation index 0.73
SVM decision value 0.26
SVM RNA-class probability 0.658827
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12722759 90 - 27905053
-----UUAACCGGGCCCA---CGGUAGGGAGUCAUAAAAAUGACGACAAUUUCGUUUUAUUUUUUAUGACAAA--------GCGUCGCCUGCGGUCCCAAAUCCUC
-----...((((......---)))).((((((((((((((.(((((.....)))))....))))))))))...--------(((.....)))..))))........ ( -27.80)
>DroGri_CAF1 162573 105 - 1
GAGUCUUAACG-GGAGAACAGCAGCAGCGGGUCAUAAAAAUGAUGACAAUUUCGUUUUAUUUUUUAUGACAUUGCGACGCGGCGUCGCCUGCGGUCUCCACUGUAC
...........-(((((...(((((.((((((((((((((.(((((.....)))))....)))))))))).))))((((...))))).))))..)))))....... ( -35.00)
>DroSec_CAF1 98349 89 - 1
-----UUAACCG-GCCCA---CGGUAGGGAGUCAUAAAAAUGACGACAAUUUCGUUUUAUUUUUUAUGACAAA--------GCGUCGCCUGCGGUCCCAACUCCUC
-----...((((-.....---)))).((((((((((((((.(((((.....)))))....))))))))))...--------(((.....)))..))))........ ( -27.60)
>DroEre_CAF1 103872 90 - 1
-----UUAACCGGGCCCA---CGGUAGGGAGUCAUAAAAAUGACGACAAUUUCGUUUUAUUUUUUAUGACAAA--------GCGUCGCCUGCGGUCCCACCACCUC
-----...((((......---)))).((((((((((((((.(((((.....)))))....))))))))))...--------(((.....)))..))))........ ( -27.80)
>DroYak_CAF1 93655 90 - 1
-----UUAACCGGGCCCA---CGGUAGGGAGUCAUAAAAAUGACGACAAUUUCGUUUUAUUUUUUAUGACAAA--------GCGUCGCCUGCGGUCCCAACUCCUC
-----...((((......---)))).((((((((((((((.(((((.....)))))....))))))))))...--------(((.....)))..))))........ ( -27.80)
>DroAna_CAF1 83904 89 - 1
-----UGAACCGAGCCCA---CGGUAGGGAGUCAUAAAAGUGACGACAAUUUCGUUUUAUUUUUUAUGACA-A--------GCGUCGCCUGCGGUCUCCACUGCUU
-----......(((((((---.((..(.(.((((((((((.(((((.....)))))....)))))))))).-.--------.).)..)))).)).)))........ ( -24.60)
>consensus
_____UUAACCGGGCCCA___CGGUAGGGAGUCAUAAAAAUGACGACAAUUUCGUUUUAUUUUUUAUGACAAA________GCGUCGCCUGCGGUCCCAACUCCUC
.............(((......))).((((((((((((((.(((((.....)))))....))))))))))...........(((.....)))..))))........ (-20.81 = -20.65 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:24 2006