Locus 4734

Sequence ID 3L_DroMel_CAF1
Location 13,321,747 – 13,321,955
Length 208
Max. P 0.827911
window7454 window7455

overview

Window 4

Location 13,321,747 – 13,321,848
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 96.04
Mean single sequence MFE -24.87
Consensus MFE -22.77
Energy contribution -23.43
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.92
SVM decision value 0.70
SVM RNA-class probability 0.827911
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13321747 101 + 23771897
GCUUGGCUCUCCAAACGUUUUAAGCUAAUUUGUUAGAGUGCGGAAAGUUUAACAAAUUUAAAUAGUAAACCCCGGCAAAUUAGUUUUAAUACGACCAGCAA
((((((....)))).(((...((((((((((((..(.((....(..((((((.....))))))..)..)).)..))))))))))))....)))....)).. ( -21.90)
>DroEre_CAF1 6617 101 + 1
GCUCGGCUCUCCAAACGUUUUAAGCUAAUUUGUUAGAGUGCGAAAAGUUUAACAAAUUUAAAUAGUAAGCCCCGGCAAAUUAGUUUUAAUACGGCCAGCAA
(((.(((........(((...((((((((((((..(.(.((.....((((((.....)))))).....))))..))))))))))))....))))))))).. ( -26.40)
>DroYak_CAF1 6522 101 + 1
GCUUGGCUCUGCAAACGUUUCAAGCUAAUUUGUUAGAGUGCGGAAAGUUUAACAAAUUUAAAUAGUAAGCCCCGGCAAAUUAGUUUUAAUACGGCCAGCAA
(((.(((........(((...((((((((((((..(.(.((..(..((((((.....))))))..)..))))..))))))))))))....))))))))).. ( -26.30)
>consensus
GCUUGGCUCUCCAAACGUUUUAAGCUAAUUUGUUAGAGUGCGGAAAGUUUAACAAAUUUAAAUAGUAAGCCCCGGCAAAUUAGUUUUAAUACGGCCAGCAA
(((.(((........(((...((((((((((((..(.(.((.....((((((.....)))))).....))))..))))))))))))....))))))))).. (-22.77 = -23.43 +   0.67)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 13,321,848 – 13,321,955
Length 107
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 97.51
Mean single sequence MFE -28.76
Consensus MFE -27.62
Energy contribution -27.62
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.96
SVM decision value 0.43
SVM RNA-class probability 0.733294
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13321848 107 - 23771897
CCAAAAGCCCGGCUCAACGCCGAAAACUAAUGGCUAACAACAAAUAGAAUACAUGUUAAAUUGGGCCAACAACGGAAAUGGUCUUUAGGCCGUUGGGCCAGAUUUGU
......(((((((((((.((((........))))(((((..............)))))..))))))).........(((((((....)))))))))))......... ( -30.84)
>DroEre_CAF1 6718 107 - 1
CCUAAAGCCCGGCUCAACACCGAGAACUAAUGGCUAACAACAAAUAGAAUGCAUGUUAAAUUGGGCCAACAACGGAAAUGGUCUUUAGGCCGUUGGGCCAGAUUUGU
..........((((((((.(((........(((((.......((((.......))))......)))))....)))....((((....))))))))))))........ ( -27.72)
>DroYak_CAF1 6623 107 - 1
CCUAAAGCCCGGCUCAACACCGAAAACUAAUGGCUAACAACAAAUAGAAUGCAUGUUAAAUUGGGCCAACAACGGAAAUGGUCUUUAGGCCGUUGGGCCAGAUUUGU
..........((((((((.(((........(((((.......((((.......))))......)))))....)))....((((....))))))))))))........ ( -27.72)
>consensus
CCUAAAGCCCGGCUCAACACCGAAAACUAAUGGCUAACAACAAAUAGAAUGCAUGUUAAAUUGGGCCAACAACGGAAAUGGUCUUUAGGCCGUUGGGCCAGAUUUGU
..........((((((((.(((........(((((.......((((.......))))......)))))....)))....((((....))))))))))))........ (-27.62 = -27.62 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:53 2006