Locus 5391

Sequence ID 2L_DroMel_CAF1
Location 15,374,335 – 15,374,431
Length 96
Max. P 0.826939
window8559 window8560

overview

Window 9

Location 15,374,335 – 15,374,431
Length 96
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 79.83
Mean single sequence MFE -14.04
Consensus MFE -9.45
Energy contribution -9.62
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 0.67
SVM decision value 0.32
SVM RNA-class probability 0.686206
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15374335 96 + 22407834
GAUAACUAAUAAAAUCAUAUAUGCAACAAAUAGCGGCAGACAAGCUGCAGACCCCAAUGAGUCAUUCUCGAAACUACAGAAAAUCUGAAGGAAAAA-----
................................(((((......))))).....((..((((.....))))......(((.....)))..)).....----- ( -15.00)
>DroPse_CAF1 120610 85 + 1
UGCAACUAAUAAAAUCAUAUAUGCAACAAAUAGCGGCAGACAAGCUGCAGACCCCAAUGAGUCACAGCC-----CGCCGUAAA----AAA--AUGA-----
((((.................)))).......(((((.(....((((..(((........))).)))))-----.)))))...----...--....----- ( -14.73)
>DroEre_CAF1 126388 94 + 1
GAUAACUAAUAAAAUCAUAUAUGCAACAAAUAGCGGCAGACAAGCUGCAGACCCCAAUGAGUCAUUCUCGAAACUACAGAAAAUCUGAAG--AAAA-----
..............((................(((((......)))))..........(((.....)))))..((.(((.....))).))--....----- ( -14.10)
>DroYak_CAF1 126357 98 + 1
GAUAACUAAUAAAAUCAUAUAUGCAACAAAUAGC-GCAGACAAGCUGCAGACCCCAAUGAGUCAUUCUCGAAACUACAGAAAAUCUGAAG--AAAAAACAA
......................((........))-((((.....)))).........((((.....))))...((.(((.....))).))--......... ( -12.00)
>DroAna_CAF1 128059 74 + 1
GAUAACUAAUAAAAUCAUAUAUGCAACAAAUAGCGGCAGACAAGCUGCAGACCCCAAUGAGUCAUACGC-----CGCAG----------------------
.....................(((........(((((......))))).(((........)))......-----.))).---------------------- ( -13.70)
>DroPer_CAF1 120640 85 + 1
UGCAACUAAUAAAAUCAUAUAUGCAACAAAUAGCGGCAGACAAGCUGCAGACCCCAAUGAGUCACAGCC-----CGCCGUAAA----AAA--AUGA-----
((((.................)))).......(((((.(....((((..(((........))).)))))-----.)))))...----...--....----- ( -14.73)
>consensus
GAUAACUAAUAAAAUCAUAUAUGCAACAAAUAGCGGCAGACAAGCUGCAGACCCCAAUGAGUCAUACUC_____CACAGAAAA____AAG__AAAA_____
................................(((((......))))).(((........)))...................................... ( -9.45 =  -9.62 +   0.17)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,374,335 – 15,374,431
Length 96
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 79.83
Mean single sequence MFE -21.05
Consensus MFE -13.88
Energy contribution -13.22
Covariance contribution -0.67
Combinations/Pair 1.10
Mean z-score -1.83
Structure conservation index 0.66
SVM decision value 0.70
SVM RNA-class probability 0.826939
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15374335 96 - 22407834
-----UUUUUCCUUCAGAUUUUCUGUAGUUUCGAGAAUGACUCAUUGGGGUCUGCAGCUUGUCUGCCGCUAUUUGUUGCAUAUAUGAUUUUAUUAGUUAUC
-----.........(((((...(((((((..(((((.....)).)))..).))))))...)))))..((........))....((((((.....)))))). ( -19.00)
>DroPse_CAF1 120610 85 - 1
-----UCAU--UUU----UUUACGGCG-----GGCUGUGACUCAUUGGGGUCUGCAGCUUGUCUGCCGCUAUUUGUUGCAUAUAUGAUUUUAUUAGUUGCA
-----....--...----.....((((-----(((((((((((....))))).)))))))))).((.((((.......((....)).......)))).)). ( -26.14)
>DroEre_CAF1 126388 94 - 1
-----UUUU--CUUCAGAUUUUCUGUAGUUUCGAGAAUGACUCAUUGGGGUCUGCAGCUUGUCUGCCGCUAUUUGUUGCAUAUAUGAUUUUAUUAGUUAUC
-----....--...(((((...(((((((..(((((.....)).)))..).))))))...)))))..((........))....((((((.....)))))). ( -19.00)
>DroYak_CAF1 126357 98 - 1
UUGUUUUUU--CUUCAGAUUUUCUGUAGUUUCGAGAAUGACUCAUUGGGGUCUGCAGCUUGUCUGC-GCUAUUUGUUGCAUAUAUGAUUUUAUUAGUUAUC
.........--...(((((...(((((((..(((((.....)).)))..).))))))...))))).-((........))....((((((.....)))))). ( -19.00)
>DroAna_CAF1 128059 74 - 1
----------------------CUGCG-----GCGUAUGACUCAUUGGGGUCUGCAGCUUGUCUGCCGCUAUUUGUUGCAUAUAUGAUUUUAUUAGUUAUC
----------------------.((((-----(((...(((((....))))).((.((......)).))....)))))))...((((((.....)))))). ( -17.00)
>DroPer_CAF1 120640 85 - 1
-----UCAU--UUU----UUUACGGCG-----GGCUGUGACUCAUUGGGGUCUGCAGCUUGUCUGCCGCUAUUUGUUGCAUAUAUGAUUUUAUUAGUUGCA
-----....--...----.....((((-----(((((((((((....))))).)))))))))).((.((((.......((....)).......)))).)). ( -26.14)
>consensus
_____UUUU__CUU____UUUUCUGCA_____GAGAAUGACUCAUUGGGGUCUGCAGCUUGUCUGCCGCUAUUUGUUGCAUAUAUGAUUUUAUUAGUUAUC
....................................((((((...(((((((((((((..((........))..)))))).....)))))))..)))))). (-13.88 = -13.22 +  -0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:01 2006