Locus 24

Sequence ID sy_ha.0
Location 914,902 – 915,020
Length 118
Max. P 0.983200
window118 window119 window120 window121

overview

Window 8

Location 914,902 – 915,020
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 84.12
Mean single sequence MFE -31.97
Consensus MFE -23.37
Energy contribution -24.70
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -3.19
Structure conservation index 0.73
SVM decision value 1.72
SVM RNA-class probability 0.974096
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 914902 118 + 2685015/0-120
UUUUAAUUGACUUUUACUUAAAAAAUGAUAGAAUUUUAUUCGGGCUCCUUUAAAUAGGAC-ACGUGUAUAAAUCAUAUACGCUCCCCUUACAGA-UAUGUGAGAGGGAGCGAUUUUUUUA
...................(((((((....((.((.(((.((...((((......)))).-.)).))).)).)).....(((((((((((((..-..)))))).)))))))))))))).. ( -30.90)
>sy_au.0 628144 118 - 2809422/0-120
UUUUGUUUGACUUUUAGUUGAAAGAUGAUAAAAUUUUAUUCGGGCUCCUUUAAAUAGGAC-ACGUGUAUAAAAUUUAUACGCUCCCCUUACAGAAUUUGUGAGAGGGAGCG-UUUUUUUA
.....((..((.....))..))........(((((((((.((...((((......)))).-.))...)))))))))..(((((((((((((((...))))))).)))))))-)....... ( -34.30)
>sy_sa.0 787904 120 + 2516575/0-120
AUUUAAUUGACUUUUUUCGUGAACAUGAUAAAAUUUUAUUCGGGCUCCUUUAAUUAGGACGACGUGUAUAAAUAUUAUACGCUCCCCCUUACAACCAUGUGAGAGGGAGCGAUUUUUUUG
...........((((.((((....)))).)))).(((((.((.((((((......)))).).).)).))))).......(((((((.((((((....)))))).)))))))......... ( -30.70)
>consensus
UUUUAAUUGACUUUUACUUAAAAAAUGAUAAAAUUUUAUUCGGGCUCCUUUAAAUAGGAC_ACGUGUAUAAAUAUUAUACGCUCCCCUUACAGA_UAUGUGAGAGGGAGCGAUUUUUUUA
..................................(((((.((...((((......))))...))...))))).......(((((((((((((.....)))))).)))))))......... (-23.37 = -24.70 +   1.33)

alignment

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secondary structure

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dotplot

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Window 9

Location 914,902 – 915,020
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.12
Mean single sequence MFE -27.80
Consensus MFE -20.22
Energy contribution -21.00
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -3.54
Structure conservation index 0.73
SVM decision value 1.94
SVM RNA-class probability 0.983200
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 914902 118 + 2685015/0-120
UAAAAAAAUCGCUCCCUCUCACAUA-UCUGUAAGGGGAGCGUAUAUGAUUUAUACACGU-GUCCUAUUUAAAGGAGCCCGAAUAAAAUUCUAUCAUUUUUUAAGUAAAAGUCAAUUAAAA
.........(((((((.((.(((..-..))).)))))))))....((((((.(((.((.-(((((......)))).).))..(((((..........))))).))).))))))....... ( -27.60)
>sy_au.0 628144 118 - 2809422/0-120
UAAAAAAA-CGCUCCCUCUCACAAAUUCUGUAAGGGGAGCGUAUAAAUUUUAUACACGU-GUCCUAUUUAAAGGAGCCCGAAUAAAAUUUUAUCAUCUUUCAACUAAAAGUCAAACAAAA
.......(-(((((((.((.(((.....))).))))))))))..(((((((((...((.-(((((......)))).).)).))))))))).............................. ( -26.30)
>sy_sa.0 787904 120 + 2516575/0-120
CAAAAAAAUCGCUCCCUCUCACAUGGUUGUAAGGGGGAGCGUAUAAUAUUUAUACACGUCGUCCUAAUUAAAGGAGCCCGAAUAAAAUUUUAUCAUGUUCACGAAAAAAGUCAAUUAAAU
..........(((((((((.(((....))).)))))))))(((((.....)))))...(((((((......))))....(((((...........))))).)))................ ( -29.50)
>consensus
UAAAAAAAUCGCUCCCUCUCACAUA_UCUGUAAGGGGAGCGUAUAAAAUUUAUACACGU_GUCCUAUUUAAAGGAGCCCGAAUAAAAUUUUAUCAUCUUUAAAAUAAAAGUCAAUUAAAA
..........((((((.((.(((.....))).))))))))(((((.....))))).((...((((......))))...))........................................ (-20.22 = -21.00 +   0.78) 
# Strand winner: forward (1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 914,902 – 915,020
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 84.68
Mean single sequence MFE -32.67
Consensus MFE -25.74
Energy contribution -26.63
Covariance contribution 0.89
Combinations/Pair 1.06
Mean z-score -3.42
Structure conservation index 0.79
SVM decision value 1.91
SVM RNA-class probability 0.982267
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 914902 118 + 2685015/3-123
UAAUUGACUUUUACUUAAAAAAUGAUAGAAUUUUAUUCGGGCUCCUUUAAAUAGGAC-ACGUGUAUAAAUCAUAUACGCUCCCCUUACAGA-UAUGUGAGAGGGAGCGAUUUUUUUAUUU
...................((((((.((((((.......(..((((......)))).-.)((((((.....))))))((((((((((((..-..)))))).)))))))))))).)))))) ( -31.60)
>sy_au.0 628144 118 - 2809422/3-123
UGUUUGACUUUUAGUUGAAAGAUGAUAAAAUUUUAUUCGGGCUCCUUUAAAUAGGAC-ACGUGUAUAAAAUUUAUACGCUCCCCUUACAGAAUUUGUGAGAGGGAGCG-UUUUUUUAUUU
..((..((.....))..))((((((..(((((((((.((...((((......)))).-.))...)))))))))..(((((((((((((((...))))))).)))))))-)....)))))) ( -35.10)
>sy_sa.0 787904 120 + 2516575/3-123
UAAUUGACUUUUUUCGUGAACAUGAUAAAAUUUUAUUCGGGCUCCUUUAAUUAGGACGACGUGUAUAAAUAUUAUACGCUCCCCCUUACAACCAUGUGAGAGGGAGCGAUUUUUUUGUUU
.................(((((..((((.(((((((.((...((((......))))...)).))).)))).)))).(((((((.((((((....)))))).))))))).......))))) ( -31.30)
>consensus
UAAUUGACUUUUACUUAAAAAAUGAUAAAAUUUUAUUCGGGCUCCUUUAAAUAGGAC_ACGUGUAUAAAUAUUAUACGCUCCCCUUACAGA_UAUGUGAGAGGGAGCGAUUUUUUUAUUU
.......................(((((((.(((((.((...((((......))))...))...))))).......(((((((((((((.....)))))).)))))))....))))))). (-25.74 = -26.63 +   0.89)

alignment

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secondary structure

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dotplot

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Window 1

Location 914,902 – 915,020
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.68
Mean single sequence MFE -27.80
Consensus MFE -20.22
Energy contribution -21.00
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -3.59
Structure conservation index 0.73
SVM decision value 1.81
SVM RNA-class probability 0.978451
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 914902 118 + 2685015/3-123
AAAUAAAAAAAUCGCUCCCUCUCACAUA-UCUGUAAGGGGAGCGUAUAUGAUUUAUACACGU-GUCCUAUUUAAAGGAGCCCGAAUAAAAUUCUAUCAUUUUUUAAGUAAAAGUCAAUUA
............(((((((.((.(((..-..))).)))))))))....((((((.(((.((.-(((((......)))).).))..(((((..........))))).))).)))))).... ( -27.60)
>sy_au.0 628144 118 - 2809422/3-123
AAAUAAAAAAA-CGCUCCCUCUCACAAAUUCUGUAAGGGGAGCGUAUAAAUUUUAUACACGU-GUCCUAUUUAAAGGAGCCCGAAUAAAAUUUUAUCAUCUUUCAACUAAAAGUCAAACA
..........(-(((((((.((.(((.....))).))))))))))..(((((((((...((.-(((((......)))).).)).)))))))))........................... ( -26.30)
>sy_sa.0 787904 120 + 2516575/3-123
AAACAAAAAAAUCGCUCCCUCUCACAUGGUUGUAAGGGGGAGCGUAUAAUAUUUAUACACGUCGUCCUAAUUAAAGGAGCCCGAAUAAAAUUUUAUCAUGUUCACGAAAAAAGUCAAUUA
.............(((((((((.(((....))).)))))))))(((((.....)))))...(((((((......))))....(((((...........))))).)))............. ( -29.50)
>consensus
AAAUAAAAAAAUCGCUCCCUCUCACAUA_UCUGUAAGGGGAGCGUAUAAAAUUUAUACACGU_GUCCUAUUUAAAGGAGCCCGAAUAAAAUUUUAUCAUCUUUAAAAUAAAAGUCAAUUA
.............((((((.((.(((.....))).))))))))(((((.....))))).((...((((......))))...))..................................... (-20.22 = -21.00 +   0.78) 
# Strand winner: forward (1.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:52:13 2006