Locus 3870

Sequence ID X_DroMel_CAF1
Location 10,318,838 – 10,318,933
Length 95
Max. P 0.634132
window6364

overview

Window 4

Location 10,318,838 – 10,318,933
Length 95
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 61.86
Mean single sequence MFE -28.62
Consensus MFE -13.47
Energy contribution -11.85
Covariance contribution -1.63
Combinations/Pair 1.42
Mean z-score -1.47
Structure conservation index 0.47
SVM decision value 0.21
SVM RNA-class probability 0.634132
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10318838 95 + 22224390
GAGCGCGGCGUUGCCACCUGGUCCGUUGGGAUCCAGCCAGACCGCCGAGUGAAACUAAUUCCGGGGGUGGCAGUC--------------GCCUGGCA-AUUAUUAAACAA
..((..(((((((((((((((((.(((((...)))))..)))).((((((.......))).)))))))))))).)--------------)))..)).-............ ( -40.00)
>DroPse_CAF1 60022 94 + 1
-----CAGCGUUGCCACACCGCCUCAGAAAAUCGAACCAGAUUGACAGCCCCAUAUA-----AUGUGUGGCGUGCA------ACUCUACACCUGGCAAAUUAAUAAAUUA
-----.((.(((((.((.........(..((((......))))..).(((.(((...-----..))).))))))))------)).))....................... ( -17.60)
>DroYak_CAF1 47395 103 + 1
GAUUGCGGCGUUGCCACCUGGUCCGGUGGAAUCCAGCCAGACCGCCAAGUAAAACUAGAG-CAGGGGUGGCAGUC-CCGGCAAA----CACCUGGCA-AUUGUUAAACAA
((((((((..(((((((((((((.(((((...))).)).))))(((.((.....)).).)-)..)))))))))..-))((....----..))..)))-)))......... ( -39.30)
>DroPer_CAF1 61745 94 + 1
-----CAGCGUUGCCACACCGCCUCAGAAAAUCGAACCAGAUUGACAGCCCCAUAUA-----AUGUGUGGCGUGCA------ACUCUACACCUGGCAAAUUAAUAAAUUA
-----.((.(((((.((.........(..((((......))))..).(((.(((...-----..))).))))))))------)).))....................... ( -17.60)
>consensus
_____CAGCGUUGCCACACCGCCCCAGAAAAUCCAACCAGACCGACAACCCAAAAUA_____AGGGGUGGCAGGC_______AC____CACCUGGCA_AUUAAUAAACAA
.....(((.((((((((((..........((((......))))...........((......)))))))))).................)))))................ (-13.47 = -11.85 +  -1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:42 2006