Locus 1809

Sequence ID X_DroMel_CAF1
Location 5,016,099 – 5,016,201
Length 102
Max. P 0.976465
window2947 window2948

overview

Window 7

Location 5,016,099 – 5,016,201
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 81.15
Mean single sequence MFE -29.82
Consensus MFE -16.84
Energy contribution -17.84
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.07
Structure conservation index 0.56
SVM decision value 1.77
SVM RNA-class probability 0.976465
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5016099 102 + 22224390
GUUUGUUUUGUUGUAUGUAAUUGUUUUAAAAUUGUCACACAAUUGCUGCCCCUUUUGGUGGGGGGGGGGUGGUGGGCGGCGGUCGCUUUCGAGGGCGUGGCA
..........((((.(((((((.......))))).)).))))(..(..((((((((.....))))))))..)..)((.(((.((........)).))).)). ( -31.20)
>DroSec_CAF1 82174 86 + 1
GUUUGUUUUGUUGUAUGUAAUUGUUUUAAAAUUGUCACACAAUUGCUGCCCCUUUGG----------------GGGCGGCGGUCGCUUUCGAGGGCGUGGCA
................................((((((...(((((((((((....)----------------)))))))))).((((....)))))))))) ( -30.10)
>DroEre_CAF1 86481 79 + 1
GUUU-----GUUGUGUGUAAUUGUUUUAAAAUUGUCA--CAAUUGCUGGCCCUUUGG----------------GGGCGGUGGUCGCUUUGGAGGGCGUGGCA
....-----....(((((((((.......))))).))--))..(((((((((((..(----------------((.((.....)))))..)))))).))))) ( -26.80)
>DroYak_CAF1 83703 78 + 1
GUUU-----GUUGUUUGUAAUUGUUUUAAAAUUGUCA--CAAUUGCUGGCCCUUUGG-----------------GGCGGUGUACGCUUUGGAGGGCGUGGCA
...(-----((..(..((((((((..((....))..)--)))))))..((((((..(-----------------((((.....)))))..)))))))..))) ( -31.20)
>consensus
GUUU_____GUUGUAUGUAAUUGUUUUAAAAUUGUCA__CAAUUGCUGCCCCUUUGG________________GGGCGGCGGUCGCUUUCGAGGGCGUGGCA
.........(((((.(((((((.......))))).)).)))))(((((((((((..(.................((((.....)))))..))))).)))))) (-16.84 = -17.84 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,016,099 – 5,016,201
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 81.15
Mean single sequence MFE -17.01
Consensus MFE -8.06
Energy contribution -9.55
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.99
Structure conservation index 0.47
SVM decision value 0.45
SVM RNA-class probability 0.742255
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5016099 102 - 22224390
UGCCACGCCCUCGAAAGCGACCGCCGCCCACCACCCCCCCCCCACCAAAAGGGGCAGCAAUUGUGUGACAAUUUUAAAACAAUUACAUACAACAAAACAAAC
((.(((((.(.(....).)...((.((((......................)))).))....))))).))................................ ( -16.45)
>DroSec_CAF1 82174 86 - 1
UGCCACGCCCUCGAAAGCGACCGCCGCCC----------------CCAAAGGGGCAGCAAUUGUGUGACAAUUUUAAAACAAUUACAUACAACAAAACAAAC
((.(((((.(.(....).)...((.((((----------------(....))))).))....))))).))................................ ( -21.10)
>DroEre_CAF1 86481 79 - 1
UGCCACGCCCUCCAAAGCGACCACCGCCC----------------CCAAAGGGCCAGCAAUUG--UGACAAUUUUAAAACAAUUACACACAAC-----AAAC
.((...(((((.....(((.....)))..----------------....)))))..))(((((--(............)))))).........-----.... ( -15.20)
>DroYak_CAF1 83703 78 - 1
UGCCACGCCCUCCAAAGCGUACACCGCC-----------------CCAAAGGGCCAGCAAUUG--UGACAAUUUUAAAACAAUUACAAACAAC-----AAAC
.((...(((((.....(((.....))).-----------------....)))))..))(((((--(............)))))).........-----.... ( -15.30)
>consensus
UGCCACGCCCUCCAAAGCGACCACCGCCC________________CCAAAGGGCCAGCAAUUG__UGACAAUUUUAAAACAAUUACAUACAAC_____AAAC
(((...(((((.....(((.....)))......................)))))..))).(((((((..((((.......)))).))))))).......... ( -8.06 =  -9.55 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:18 2006