Locus 307

Sequence ID 3R_DroMel_CAF1
Location 1,188,504 – 1,188,596
Length 92
Max. P 0.992205
window518 window519

overview

Window 8

Location 1,188,504 – 1,188,596
Length 92
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.30
Mean single sequence MFE -22.80
Consensus MFE -6.98
Energy contribution -8.46
Covariance contribution 1.48
Combinations/Pair 1.30
Mean z-score -1.88
Structure conservation index 0.31
SVM decision value 0.66
SVM RNA-class probability 0.813622
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1188504 92 + 27905053
---------------AUAAUUGGACAUGUUCAGAAA----U-UAUUGCUAUACAUUU---UAUACGUAUGUACAUUGCGCGAUUCGUGUUCAUAGCUCGCUGAACUGAGCAACCA-----
---------------.....(((...(((((((...----.-....(((((((((..---....((((.......))))......))))..)))))........))))))).)))----- ( -18.69)
>DroSec_CAF1 4487 92 + 1
---------------AUAAUUGCACAUGUUCAGAAA----U-UAUAGCUAUACAUUU---UAUACGUAUGUACAUUGCGCGAUUCGUGUUCAUAGCUCGCUGAACUGAGCAACCA-----
---------------....((((.((.((((((...----.-...((((((((((..---....((((.......))))......))))..))))))..)))))))).))))...----- ( -21.50)
>DroSim_CAF1 3428 92 + 1
---------------AUAAUUGCACAUGUUCAGAAA----U-UAUAGCUAUACAUUU---UAUACGUAUGAACAUUGCGCGAUUCGUGUUCAUAGCUCGCUGAACUGAGCAACCA-----
---------------....((((.((.((((((...----.-...((((((((((..---....((((.......))))......))))..))))))..)))))))).))))...----- ( -21.50)
>DroEre_CAF1 3300 96 + 1
---------------AUAAUUGCACAUGUUCAAAAA----UGUAUCGCUAUAUUUAUAGCUAUAUGCACGAACAUUGCGCGAUUCUUGUUCACAGCUCGCUGAACUGAGCAAUCA-----
---------------..((((((.(((((((....(----((((..(((((....))))))))))....))))).)).)))))).((((((((((....)))...)))))))...----- ( -25.80)
>DroPer_CAF1 4507 114 + 1
AGCAUGAUUGUGCACACGAUUGUACCCAUACAUACAUAUAUAUAUGGCUAUA-AGUA---CAUGGGAAUGUGCUACACUUAUUUCGUGCUCAUAGCGCACUGAACUCG--AACCAACGUG
.((((....)))).((((..((((.(((((.(((....))).))))).))))-((((---(((....)))))))...........((((.....))))..........--......)))) ( -26.50)
>consensus
_______________AUAAUUGCACAUGUUCAGAAA____U_UAUAGCUAUACAUUU___UAUACGUAUGUACAUUGCGCGAUUCGUGUUCAUAGCUCGCUGAACUGAGCAACCA_____
.................((((((.((((((((....................................)))))).)).))))))..(((((((((....)))...))))))......... ( -6.98 =  -8.46 +   1.48)

alignment

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secondary structure

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dotplot

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Window 9

Location 1,188,504 – 1,188,596
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.30
Mean single sequence MFE -25.81
Consensus MFE -11.10
Energy contribution -12.50
Covariance contribution 1.40
Combinations/Pair 1.33
Mean z-score -2.36
Structure conservation index 0.43
SVM decision value 2.31
SVM RNA-class probability 0.992205
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1188504 92 - 27905053
-----UGGUUGCUCAGUUCAGCGAGCUAUGAACACGAAUCGCGCAAUGUACAUACGUAUA---AAAUGUAUAGCAAUA-A----UUUCUGAACAUGUCCAAUUAU---------------
-----((((((..(((((((((((..............))))((..(((((((.......---..)))))))))....-.----....))))).))..)))))).--------------- ( -19.24)
>DroSec_CAF1 4487 92 - 1
-----UGGUUGCUCAGUUCAGCGAGCUAUGAACACGAAUCGCGCAAUGUACAUACGUAUA---AAAUGUAUAGCUAUA-A----UUUCUGAACAUGUGCAAUUAU---------------
-----(((((((.((((((((..(((((((....((.....))...(((((....)))))---.....)))))))...-.----...)))))).)).))))))).--------------- ( -23.60)
>DroSim_CAF1 3428 92 - 1
-----UGGUUGCUCAGUUCAGCGAGCUAUGAACACGAAUCGCGCAAUGUUCAUACGUAUA---AAAUGUAUAGCUAUA-A----UUUCUGAACAUGUGCAAUUAU---------------
-----(((((((.((((((((..(((((((((((((.....))...))))))(((((...---..))))))))))...-.----...)))))).)).))))))).--------------- ( -26.10)
>DroEre_CAF1 3300 96 - 1
-----UGAUUGCUCAGUUCAGCGAGCUGUGAACAAGAAUCGCGCAAUGUUCGUGCAUAUAGCUAUAAAUAUAGCGAUACA----UUUUUGAACAUGUGCAAUUAU---------------
-----(((((((.(((((((((((..((....))....))))..(((((((((..((((........)))).)))).)))----))..))))).)).))))))).--------------- ( -27.70)
>DroPer_CAF1 4507 114 - 1
CACGUUGGUU--CGAGUUCAGUGCGCUAUGAGCACGAAAUAAGUGUAGCACAUUCCCAUG---UACU-UAUAGCCAUAUAUAUAUGUAUGUAUGGGUACAAUCGUGUGCACAAUCAUGCU
(((.....((--((.(((((........))))).))))....)))..((((((.....((---((((-((((..((((((....))))))))))))))))...))))))........... ( -32.40)
>consensus
_____UGGUUGCUCAGUUCAGCGAGCUAUGAACACGAAUCGCGCAAUGUACAUACGUAUA___AAAUGUAUAGCUAUA_A____UUUCUGAACAUGUGCAAUUAU_______________
.....(((((((.(((((((((((..............)))).........((((((........)))))).................))))).)).)))))))................ (-11.10 = -12.50 +   1.40)

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 09:40:00 2006