Locus 5851

Sequence ID 2L_DroMel_CAF1
Location 16,573,980 – 16,574,131
Length 151
Max. P 0.897565
window9283 window9284 window9285

overview

Window 3

Location 16,573,980 – 16,574,091
Length 111
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 79.44
Mean single sequence MFE -26.05
Consensus MFE -16.17
Energy contribution -16.17
Covariance contribution -0.00
Combinations/Pair 1.15
Mean z-score -1.69
Structure conservation index 0.62
SVM decision value -0.04
SVM RNA-class probability 0.512531
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16573980 111 - 22407834
GUGAGCAAAGAAAUUACUUUGCUAACUUUAAUAACAGGUGGAAACCUGUU------UGUUAAAAUAUGGUCUGUAUUUAGU---UUUUCAUUUUCAAGAUUGCAACUUGAGUAUAAAUGA
((.(((((((......))))))).))(((((((((((((....))))).)------)))))))..................---...(((((((((((.......)))))....)))))) ( -27.20)
>DroSec_CAF1 29113 116 - 1
GUGAGCAAAGAAAUUACUUGGCUAACUUUAAUAACAGGUGGAAACCUGUUUGUGUUUGUUAAAAUAUGGUCUGUAUUUAGC---UUUUAAUUUUCAAGAUUGGAACUUGAAAA-AAAAGA
..((((....((((.((..((((.........(((((((....))))))).((((((....)))))))))).)))))).))---))....((((((((.......))))))))-...... ( -24.70)
>DroEre_CAF1 28180 116 - 1
GUGAGCAAAGGAAUUACUUUGCUAACUUUAAUAACAGGUGGACAGCUGUUUUUGUUUGUUGAAAGAUGGUCUAGAUUUAGC---UUUUC-AUUUCAAGAUUGGAGUACGAGUAUAUAAUA
...(((((((......))))))).((((((((...(((((((.(((((..((((.(..((....))..)..))))..))))---).)))-))))....)))))))).............. ( -30.10)
>DroYak_CAF1 28176 119 - 1
GUGAGCAAGGAAAUUACUAUGCUGACUUUAAUAACAGGUGGAAAUUUGUGUGUGUUUGUUGAAAGAUGGUCUGGACUUAGCAAAUUGGA-CUUUGUAGAUUGGGAUUCGAGUACAUAAUA
((.((((.((......)).)))).)).......((((((....))))))(((((((((.........(((((.((.((.(((((.....-.))))).)))).)))))))))))))).... ( -22.20)
>consensus
GUGAGCAAAGAAAUUACUUUGCUAACUUUAAUAACAGGUGGAAACCUGUUUGUGUUUGUUAAAAGAUGGUCUGGAUUUAGC___UUUUA_UUUUCAAGAUUGGAACUCGAGUAUAAAAGA
((.(((((((......))))))).))(((((((((((((....)))))).......)))))))....(((((........................)))))................... (-16.17 = -16.17 +  -0.00)

alignment

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secondary structure

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Window 4

Location 16,574,017 – 16,574,131
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.47
Mean single sequence MFE -22.39
Consensus MFE -16.14
Energy contribution -18.70
Covariance contribution 2.56
Combinations/Pair 1.06
Mean z-score -2.58
Structure conservation index 0.72
SVM decision value 1.00
SVM RNA-class probability 0.897565
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16574017 114 + 22407834
CUAAAUACAGACCAUAUUUUAACA------AACAGGUUUCCACCUGUUAUUAAAGUUAGCAAAGUAAUUUCUUUGCUCACGAAAGUAUGCAGUCAUUUUCACUUUUAAUUGAAAAUGCAU
............((((((((....------(((((((....)))))))......((.(((((((......))))))).)).))))))))..(.((((((((........))))))))).. ( -29.30)
>DroSec_CAF1 29149 120 + 1
CUAAAUACAGACCAUAUUUUAACAAACACAAACAGGUUUCCACCUGUUAUUAAAGUUAGCCAAGUAAUUUCUUUGCUCACGAAAGUAUGCAGUCAUUUUCACUUUUAAUUGAAAAUGCAU
............((((((((..........(((((((....)))))))......((.(((.(((......))).))).)).))))))))..(.((((((((........))))))))).. ( -25.20)
>DroEre_CAF1 28216 120 + 1
CUAAAUCUAGACCAUCUUUCAACAAACAAAAACAGCUGUCCACCUGUUAUUAAAGUUAGCAAAGUAAUUCCUUUGCUCACGAAAGUAUGCAGCCCUUUUGACUUUUAAUUGAAAAUGCAU
............((((((((..........(((((........)))))......((.(((((((......))))))).))))))).)))..((..(((..(.......)..)))..)).. ( -20.90)
>DroYak_CAF1 28215 120 + 1
CUAAGUCCAGACCAUCUUUCAACAAACACACACAAAUUUCCACCUGUUAUUAAAGUCAGCAUAGUAAUUUCCUUGCUCACGAAAGUAUGCAGCCAUUUUCACUUUUAAUUGGAAAAGCAU
............((((((((((((....................))))......((.((((..(......)..)))).))))))).)))..((..((((((........)))))).)).. ( -14.15)
>consensus
CUAAAUACAGACCAUAUUUCAACAAACACAAACAGGUUUCCACCUGUUAUUAAAGUUAGCAAAGUAAUUUCUUUGCUCACGAAAGUAUGCAGCCAUUUUCACUUUUAAUUGAAAAUGCAU
............((((((((..........(((((((....)))))))......((.(((((((......))))))).))))))).)))..(.((((((((........))))))))).. (-16.14 = -18.70 +   2.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,574,017 – 16,574,131
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.47
Mean single sequence MFE -28.13
Consensus MFE -20.75
Energy contribution -20.31
Covariance contribution -0.44
Combinations/Pair 1.23
Mean z-score -1.89
Structure conservation index 0.74
SVM decision value 0.48
SVM RNA-class probability 0.753405
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16574017 114 - 22407834
AUGCAUUUUCAAUUAAAAGUGAAAAUGACUGCAUACUUUCGUGAGCAAAGAAAUUACUUUGCUAACUUUAAUAACAGGUGGAAACCUGUU------UGUUAAAAUAUGGUCUGUAUUUAG
...((((((((........)))))))).(((.((((..((((((((((((......)))))))...(((((((((((((....))))).)------))))))).)))))...)))).))) ( -33.50)
>DroSec_CAF1 29149 120 - 1
AUGCAUUUUCAAUUAAAAGUGAAAAUGACUGCAUACUUUCGUGAGCAAAGAAAUUACUUGGCUAACUUUAAUAACAGGUGGAAACCUGUUUGUGUUUGUUAAAAUAUGGUCUGUAUUUAG
...((((((((........)))))))).(((.((((..(((((.((.(((......))).))((((......(((((((....))))))).......))))...)))))...)))).))) ( -27.32)
>DroEre_CAF1 28216 120 - 1
AUGCAUUUUCAAUUAAAAGUCAAAAGGGCUGCAUACUUUCGUGAGCAAAGGAAUUACUUUGCUAACUUUAAUAACAGGUGGACAGCUGUUUUUGUUUGUUGAAAGAUGGUCUAGAUUUAG
...((((((((((...(((..((((.(((((..(((((..((.(((((((......))))))).)).........)))))..))))).))))..))))))).))))))............ ( -27.30)
>DroYak_CAF1 28215 120 - 1
AUGCUUUUCCAAUUAAAAGUGAAAAUGGCUGCAUACUUUCGUGAGCAAGGAAAUUACUAUGCUGACUUUAAUAACAGGUGGAAAUUUGUGUGUGUUUGUUGAAAGAUGGUCUGGACUUAG
.......((((.......((....))((((((((((....((.((((.((......)).)))).)).......((((((....))))))))))))..(((....)))))))))))..... ( -24.40)
>consensus
AUGCAUUUUCAAUUAAAAGUGAAAAUGACUGCAUACUUUCGUGAGCAAAGAAAUUACUUUGCUAACUUUAAUAACAGGUGGAAACCUGUUUGUGUUUGUUAAAAGAUGGUCUGGAUUUAG
................(((((.....((((..........((.(((((((......))))))).))(((((((((((((....)))))).......)))))))....))))..))))).. (-20.75 = -20.31 +  -0.44)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:35 2006