Locus 4261

Sequence ID 3L_DroMel_CAF1
Location 12,474,774 – 12,474,870
Length 96
Max. P 0.967851
window6587 window6588

overview

Window 7

Location 12,474,774 – 12,474,870
Length 96
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 70.47
Mean single sequence MFE -19.32
Consensus MFE -9.92
Energy contribution -11.67
Covariance contribution 1.75
Combinations/Pair 1.17
Mean z-score -2.04
Structure conservation index 0.51
SVM decision value 1.62
SVM RNA-class probability 0.967851
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12474774 96 + 23771897
UUACAUGUGCUGGUAACUAUAUAUA----------ACCCAUCUGUACUAUAUCCUACCUUUGUGACCAGAAACACCUGUUCGCGUUUCAGUUUCUGGUCGCCAAUA
.((((.(((..(((...........----------)))))).))))...............((((((((((((................))))))))))))..... ( -21.89)
>DroVir_CAF1 11868 95 + 1
UGAUAG--------AUGUGUGGAAAAUGUCUCCAAUUCCAUUU---CAACAUCUUACUUUUGUCACUAGGAAAAUAUCUUCACGCUUGACCACACCCUCAGCAAUC
(((.((--------((((.((((.......)))).((((....---..(((.........))).....)))).))))))))).(((.((........))))).... ( -13.60)
>DroSec_CAF1 198 96 + 1
AUACAUGGGCUGGUAACUAUAUAUA----------CACCAUCUAUACUAUAUCCUACCUUUGUGACCAGAAACACCUGUUCGCGUUUUAGUUUCUGGUCGCCAAUA
.......(((.((((..((((((((----------.......)))).))))...)))).....((((((((((................))))))))))))).... ( -23.29)
>DroSim_CAF1 196 96 + 1
AUACAUGGGCUGGUAACUAUAUAUA----------CACCAUCUACACUAUAUCCUACCUUUGUGACCAGAAACACCUGUUCGCGUUUCAGUUUCUGGUCGCCAAUA
.......(((.((((...(((((..----------............)))))..)))).....((((((((((................))))))))))))).... ( -22.53)
>DroEre_CAF1 196 85 + 1
AUACAUGUUCUGGUAACAA---------------------UAUAUACUAUAUCCUACCUUUGUGACCAGAAACACCUGUUCGCGUCUUAGUUUCUGGUCGCCUAUA
...........((((...(---------------------((((...)))))..))))...((((((((((((................))))))))))))..... ( -20.59)
>DroYak_CAF1 196 96 + 1
AUACAUGUUCUGGUAACUAGAUAUC----------CACUUUAUAUACUAUAUCCUACCUUGGUGACCAGAAACACCUGUUCGCGUUUUAUAAUCUUGUCGCCUAUA
...........((..((.((((...----------..................(......)((((.(((......))).))))........)))).))..)).... ( -14.00)
>consensus
AUACAUGUGCUGGUAACUAUAUAUA__________CACCAUCUAUACUAUAUCCUACCUUUGUGACCAGAAACACCUGUUCGCGUUUUAGUUUCUGGUCGCCAAUA
.............................................................((((((((((((................))))))))))))..... ( -9.92 = -11.67 +   1.75)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,474,774 – 12,474,870
Length 96
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 70.47
Mean single sequence MFE -23.93
Consensus MFE -9.62
Energy contribution -9.65
Covariance contribution 0.03
Combinations/Pair 1.42
Mean z-score -1.92
Structure conservation index 0.40
SVM decision value 0.61
SVM RNA-class probability 0.799157
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12474774 96 - 23771897
UAUUGGCGACCAGAAACUGAAACGCGAACAGGUGUUUCUGGUCACAAAGGUAGGAUAUAGUACAGAUGGGU----------UAUAUAUAGUUACCAGCACAUGUAA
...((((((((((((((................)))))))))).....(((((.((((((..(....)..)----------)))))....))))).)).))..... ( -25.89)
>DroVir_CAF1 11868 95 - 1
GAUUGCUGAGGGUGUGGUCAAGCGUGAAGAUAUUUUCCUAGUGACAAAAGUAAGAUGUUG---AAAUGGAAUUGGAGACAUUUUCCACACAU--------CUAUCA
.......(((((((((((((...(.((((....)))))...))))...............---...(((((.((....))..))))))))))--------)).)). ( -22.60)
>DroSec_CAF1 198 96 - 1
UAUUGGCGACCAGAAACUAAAACGCGAACAGGUGUUUCUGGUCACAAAGGUAGGAUAUAGUAUAGAUGGUG----------UAUAUAUAGUUACCAGCCCAUGUAU
(((.(((((((((((((................)))))))))).....(((((.(((((.((((.....))----------)))))))..))))).))).)))... ( -27.99)
>DroSim_CAF1 196 96 - 1
UAUUGGCGACCAGAAACUGAAACGCGAACAGGUGUUUCUGGUCACAAAGGUAGGAUAUAGUGUAGAUGGUG----------UAUAUAUAGUUACCAGCCCAUGUAU
(((.(((((((((((((................)))))))))).....(((((.(((((............----------..)))))..))))).))).)))... ( -26.63)
>DroEre_CAF1 196 85 - 1
UAUAGGCGACCAGAAACUAAGACGCGAACAGGUGUUUCUGGUCACAAAGGUAGGAUAUAGUAUAUA---------------------UUGUUACCAGAACAUGUAU
.....((((((((((((................)))))))))).....(((((((((((...))))---------------------)).))))).......)).. ( -21.59)
>DroYak_CAF1 196 96 - 1
UAUAGGCGACAAGAUUAUAAAACGCGAACAGGUGUUUCUGGUCACCAAGGUAGGAUAUAGUAUAUAAAGUG----------GAUAUCUAGUUACCAGAACAUGUAU
....((.(((.(((......(((((......)))))))).))).))..((((((((((..(((.....)))----------.))))))...))))........... ( -18.90)
>consensus
UAUUGGCGACCAGAAACUAAAACGCGAACAGGUGUUUCUGGUCACAAAGGUAGGAUAUAGUAUAGAUGGUG__________UAUAUAUAGUUACCAGCACAUGUAU
.......(((((((......(((((......))))))))))))............................................................... ( -9.62 =  -9.65 +   0.03)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:57 2006