Locus 5303

Sequence ID 3R_DroMel_CAF1
Location 13,850,856 – 13,850,976
Length 120
Max. P 0.609659
window8652

overview

Window 2

Location 13,850,856 – 13,850,976
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.89
Mean single sequence MFE -48.90
Consensus MFE -34.37
Energy contribution -33.68
Covariance contribution -0.69
Combinations/Pair 1.36
Mean z-score -1.76
Structure conservation index 0.70
SVM decision value 0.15
SVM RNA-class probability 0.609659
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13850856 120 + 27905053
CGGCGAGCCUUCGUCUAUCACUAUGUGGGCGAAGGACUCGAGGAGGGCAACUUCAACGAGGCCUCCGAGAACAUUUGCCAGCUGGUGCACGACUAUCUGGAGGUGGAUGCAUCGGCUCCC
.(((((((((((((((((......))))))))))).((((..((((....))))..)))).............))))))((((((((((...(((((....))))).))))))))))... ( -54.40)
>DroPse_CAF1 180557 120 + 1
AGGCGCGCCUUUGUCUACCAUUAUGUGGGCGAGGGCCUCGAGGAGGGGAAUUUCGCCGAGGCCUCCGAGAAUAUCUGCCAGCUAGUCCACGAUUAUCUCGAGGUGGAUGCCACGGCACCG
.((.((((((((((((((......))))))))))))(((((((.((.(.....).))....))).))))..((((..((((.(((((...))))).))...))..)))).....)).)). ( -46.10)
>DroGri_CAF1 152452 120 + 1
CGGCGCGCCUUCGUCUAUCACUAUGUGGGCGAGGGUCUCGAGGAGGGCAACUUCAAUGAGGCAUCCGAGAAUAUAUGUCAGCUGGUCCACGAUUAUAUUGAGGUGGAUGCCUCGGCGCCA
.(((((((((((((((((......))))))))))))......((((....))))..(((((((((((..((((((.(((...........)))))))))....)))))))))))))))). ( -55.00)
>DroWil_CAF1 119959 120 + 1
CGGCGCGCCUUCGUUUACCACUAUGUGGGUGAGGGACUGGAGGAGGGCAACUUUAGUGAGGCAUCGGAGAACAUUUGCCAACUGGUCCAUGAUUAUCUCGAGGUGGACGCCUCAGGGACA
..((.(.(((((((((..((((.....))))..)))).))))).).)).....((((..((((...(....)...)))).))))((((..((.....))(((((....)))))..)))). ( -39.10)
>DroMoj_CAF1 181463 120 + 1
CGACGAGCCUUCGUCUACCACUACGUGGGCGAGGGCCUCGAGGAGGGCAACUUCAACGAGGCCUCCGAGAACAUAUGCCAGCUUGUGCACGACUACCUCGAGGUGGACGCCUCGGCGCCC
.((((......))))...........(((((.((((((((..((((....))))..))))))))(((((...........((....)).((.(((((....))))).)).)))))))))) ( -54.00)
>DroAna_CAF1 125494 120 + 1
AAGCGGGCCUUCGUUUAUCACUAUGUGGGUGAGGGGCUCGAGGAGGGAAACUUUUCCGAGGCCUCGGAGAAUAUCUGUCAGCUGGUCCACGACUAUCUGGAAGUGGAUGCCUCUGCUCCA
...((((((((......(((((.....))))))))))))).((((((((....))))(((((..((((.....)))).......((((((..((....))..)))))))))))..)))). ( -44.80)
>consensus
CGGCGCGCCUUCGUCUACCACUAUGUGGGCGAGGGACUCGAGGAGGGCAACUUCAACGAGGCCUCCGAGAACAUAUGCCAGCUGGUCCACGACUAUCUCGAGGUGGAUGCCUCGGCGCCA
.((((..(((((((((((......))))))))))).((((..((((....))))..))))...............)))).((((((((((............))))))....)))).... (-34.37 = -33.68 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:32 2006