Locus 7247

Sequence ID X_DroMel_CAF1
Location 18,087,053 – 18,087,162
Length 109
Max. P 0.875676
window11863

overview

Window 3

Location 18,087,053 – 18,087,162
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.66
Mean single sequence MFE -25.22
Consensus MFE -11.13
Energy contribution -11.40
Covariance contribution 0.27
Combinations/Pair 1.13
Mean z-score -2.25
Structure conservation index 0.44
SVM decision value 0.89
SVM RNA-class probability 0.875676
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18087053 109 + 22224390
AAAA---AAAACGGGUAGUACGACCAGAUAUUUGAG-GGCUAAAAAUAAAAACCAGUA--UUGGCUGGAAAAUAAUCAAUA--GCCCCUAAUGAACGCGGAAAAUCAUAGCUCGU---CA
....---...((((((...................(-(((((..........(((((.--...)))))...........))--))))...((((..........)))).))))))---.. ( -21.30)
>DroSec_CAF1 9435 112 + 1
AAAAAAACAAACGGGUAGUACGACCAGAUAUUUGAG-GGCUAAAAAUAGAAACCAGUC--UUGGCUGGAAAACAAUCAAUA--GCACCUAAUGAACGUGGAAAAUCGUAGCUCGU---CA
..........((((((..((((((((........((-(((((..........(((((.--...)))))...........))--)).)))........)))....)))))))))))---.. ( -26.39)
>DroSim_CAF1 9405 115 + 1
AAAAAAACAAACGGGUAGUACGACCAGAUAUUUGAG-GGCUAAAAAUAGAAACCAGUC--UUGGCUGGAAAACAAGCAAUA--GACCCUAAUGAACGUGGAAAAUCAUAACUCGUUUUCA
........((((((((.((....(((........((-(((((..........(((((.--...)))))...........))--).))))........)))......)).))))))))... ( -22.99)
>DroEre_CAF1 7082 108 + 1
----AAGCAAACGGGUAGCCACGCCAGAUAAUCGUG-GGCUAAAAAUAGAAACCAGUC--UUGGCUGGAAAACAAUCAAUG--GCCCCUAAUGAGCAUGGAAAACCGUGGCUCGC---AA
----..((....(((..((((.(((.(.....)...-)))............(((((.--...)))))...........))--)))))....((((((((....)))).))))))---.. ( -33.90)
>DroYak_CAF1 8192 100 + 1
----AAACGAAC-------------AGAUAUUCGAGGGGCUUAAACUAAAAACCAGUCUCUCGGCUGGAAAACAAUCAAUAGAGCUCCUAAUGAACAUGGAAAAUCAUAGCUCGU---CA
----........-------------........((.(((((...........((((((....)))))).............((..(((..........)))...))..))))).)---). ( -21.50)
>consensus
AAAAAAACAAACGGGUAGUACGACCAGAUAUUUGAG_GGCUAAAAAUAGAAACCAGUC__UUGGCUGGAAAACAAUCAAUA__GCCCCUAAUGAACGUGGAAAAUCAUAGCUCGU___CA
.............(((......)))............(((((..........(((((......)))))..................((..........)).......)))))........ (-11.13 = -11.40 +   0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:05 2006