Locus 3947

Sequence ID 2L_DroMel_CAF1
Location 11,504,887 – 11,504,993
Length 106
Max. P 0.661411
window6227

overview

Window 7

Location 11,504,887 – 11,504,993
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.37
Mean single sequence MFE -29.88
Consensus MFE -21.08
Energy contribution -21.57
Covariance contribution 0.50
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.71
SVM decision value 0.27
SVM RNA-class probability 0.661411
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11504887 106 + 22407834
GAUAUGUGCUCGCCAUAUAUGAG----AUAUAUGUACAUAUAAACGGGGUGCAUAUGAUUUUUGGCCAACCGGUUUGGUUGUC----------AAAGAAAGAGCCAAGAUUGCGAGUCCA
....((..(((((..........----.(((((((((...........)))))))))..((((((((((((.....)))))((----------.......)))))))))..)))))..)) ( -29.70)
>DroSec_CAF1 70739 110 + 1
GAUAUGUGCUCGCCAUAUAUGAUAAAUAUAUAUGUAUAUAUAAACGGAGUGCAUAUGAUUUUUGGCCAACCGGUUCGGUUGUC----------AAAGAAAGAGCCAAGAUUCCGAGUCCG
.(((((..(((...((((((.....)))))).(((........))))))..)))))((.(((((((((((((...))))))((----------.......))))))))).))........ ( -28.60)
>DroSim_CAF1 75102 106 + 1
GAUAUGUGCUCGCCAUAUAUGAG----AUAUAUGUGUAUAUAAACGGAGUGCAUAUGAUUUUUGGCCAACCGGUUCGGUUGUC----------AAAGAAAGAGCCAAGAUUCCGAGUCCG
.(((((..(((..(((((((...----)))))))(((......))))))..)))))((.(((((((((((((...))))))((----------.......))))))))).))........ ( -29.20)
>DroYak_CAF1 74664 108 + 1
GAUAUGUGCUCGCCAUAUAUACG----AU--------AUAUAAACCGAGUGCAUAUGAUUUUUGGCCAACCGGUUCGGUUCGCUUCGGUCUGUAAAGAAAGAGCGAAGAUUCAGAGUCCG
.(((((..((((...((((((..----.)--------)))))...))))..))))).......((((....))))((((((.(((((.(((........))).))))).....))).))) ( -32.00)
>consensus
GAUAUGUGCUCGCCAUAUAUGAG____AUAUAUGUAUAUAUAAACGGAGUGCAUAUGAUUUUUGGCCAACCGGUUCGGUUGUC__________AAAGAAAGAGCCAAGAUUCCGAGUCCG
.(((((..(((....((((((...............))))))....)))..)))))((.(((((((((((((...)))))).....................))))))).))........ (-21.08 = -21.57 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:31 2006