Locus 54

Sequence ID sy_sa.0
Location 1,571,538 – 1,571,653
Length 115
Max. P 0.999938
window239 window240 window241

overview

Window 9

Location 1,571,538 – 1,571,653
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 76.62
Mean single sequence MFE -29.80
Consensus MFE -21.42
Energy contribution -20.77
Covariance contribution -0.65
Combinations/Pair 1.32
Mean z-score -3.07
Structure conservation index 0.72
SVM decision value 4.20
SVM RNA-class probability 0.999835
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1571538 115 + 2516575/0-120
UUGACGGCUAU-GAAGCCAAUACACACACAGAAAGUUAAA--GUAUAAAGGGUGCGAU--AUUUAAUUGUCGUGUUUAUAUGAGCUUUUUGUGGAGGUAAUAAACCAAUAGGAGGAAUUU
.....((((..-..))))..(((...(((((((((((...--((((((...(..((((--(......)))))..))))))).)))))))))))...))).....((....))........ ( -32.40)
>sy_ha.0 1712300 115 + 2685015/0-120
UUUUCGGCUAUAAAAGCCAAUACACACAUGAUAAACGUAC--AUUUAAAGGGUGCAAUUAAAUUAAUUGUC---UUUAUAUGAGUUUAUUAUGGAGGUAAAUAACCACUAGGAGGAAUUU
(((((((((.....))))..(((...((((((((((...(--((.(((((...(((((((...))))))))---)))).))).))))))))))...)))............))))).... ( -28.30)
>sy_au.0 1524840 117 - 2809422/0-120
UUUUCGGCUAU-AAAGCCAAUACACACAUAUCAAACGUGAUUGUGUAAAGGGUGCAAU--AUUUAUAUAUUGUCUUUACAAUAGUUUGCUAUGGAGGUAAUUAACCAAUAGGAGGAAUUU
(((((((((..-..))))..(((...((((.(((((.......(((((((...(((((--((....))))))))))))))...))))).))))...)))............))))).... ( -28.70)
>consensus
UUUUCGGCUAU_AAAGCCAAUACACACAUAAAAAACGUAA__GUAUAAAGGGUGCAAU__AUUUAAUUGUCGU_UUUAUAUGAGUUUAUUAUGGAGGUAAUUAACCAAUAGGAGGAAUUU
.....((((.....))))..(((...((((((((((......(((((((....(((((.......)))))....)))))))..))))))))))...))).....((....))........ (-21.42 = -20.77 +  -0.65) 
# Strand winner: reverse (1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,571,538 – 1,571,653
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.39
Mean single sequence MFE -19.16
Consensus MFE -9.87
Energy contribution -9.10
Covariance contribution -0.77
Combinations/Pair 1.28
Mean z-score -2.11
Structure conservation index 0.52
SVM decision value 0.68
SVM RNA-class probability 0.822164
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1571538 115 + 2516575/22-142
ACCUCCACAAAAAGCUCAUAUAAACACGACAAUUAAAU--AUCGCACCCUUUAUAC--UUUAACUUUCUGUGUGUGUAUUGGCUUC-AUAGCCGUCAAUAAAUAUAUCAUAUUUACCUAU
...........................(((.....(((--(.(((((.(.......--...........).)))))))))((((..-..)))))))..(((((((...)))))))..... ( -15.17)
>sy_ha.0 1712300 115 + 2685015/22-142
ACCUCCAUAAUAAACUCAUAUAAA---GACAAUUAAUUUAAUUGCACCCUUUAAAU--GUACGUUUAUCAUGUGUGUAUUGGCUUUUAUAGCCGAAAACAAUAAUAUCAUAUUUCUAUAU
.....(((.((((((.(((.((((---(.((((((...))))))....))))).))--)...)))))).)))(((...((((((.....))))))..))).................... ( -19.20)
>sy_au.0 1524840 117 - 2809422/22-142
ACCUCCAUAGCAAACUAUUGUAAAGACAAUAUAUAAAU--AUUGCACCCUUUACACAAUCACGUUUGAUAUGUGUGUAUUGGCUUU-AUAGCCGAAAAUAAAUAUAACAUAAUGCCGUGU
.....((..(((...((((((....)))))).....((--(((........((((((((((....)))).))))))..((((((..-..)))))).....))))).......)))..)). ( -23.10)
>consensus
ACCUCCAUAAAAAACUCAUAUAAA_ACGACAAUUAAAU__AUUGCACCCUUUAAAC__UUACGUUUAAUAUGUGUGUAUUGGCUUU_AUAGCCGAAAAUAAAUAUAUCAUAUUUCCAUAU
.....((((.(((((...............................................))))).))))(((...((((((.....))))))..))).................... ( -9.87 =  -9.10 +  -0.77)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,571,538 – 1,571,653
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 72.39
Mean single sequence MFE -27.87
Consensus MFE -18.42
Energy contribution -17.77
Covariance contribution -0.65
Combinations/Pair 1.36
Mean z-score -2.63
Structure conservation index 0.66
SVM decision value 4.68
SVM RNA-class probability 0.999938
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 1571538 115 + 2516575/22-142
AUAGGUAAAUAUGAUAUAUUUAUUGACGGCUAU-GAAGCCAAUACACACACAGAAAGUUAAA--GUAUAAAGGGUGCGAU--AUUUAAUUGUCGUGUUUAUAUGAGCUUUUUGUGGAGGU
...(((((((((...)))))))))...((((..-..))))...((...(((((((((((...--((((((...(..((((--(......)))))..))))))).)))))))))))...)) ( -32.20)
>sy_ha.0 1712300 115 + 2685015/22-142
AUAUAGAAAUAUGAUAUUAUUGUUUUCGGCUAUAAAAGCCAAUACACACAUGAUAAACGUAC--AUUUAAAGGGUGCAAUUAAAUUAAUUGUC---UUUAUAUGAGUUUAUUAUGGAGGU
.((((....))))..........((((((((.....))))........((((((((((...(--((.(((((...(((((((...))))))))---)))).))).)))))))))))))). ( -26.00)
>sy_au.0 1524840 117 - 2809422/22-142
ACACGGCAUUAUGUUAUAUUUAUUUUCGGCUAU-AAAGCCAAUACACACAUAUCAAACGUGAUUGUGUAAAGGGUGCAAU--AUUUAUAUAUUGUCUUUACAAUAGUUUGCUAUGGAGGU
.((..(((...((((............((((..-..))))..((((((...((((....)))))))))).((((.(((((--((....)))))))))))..))))...)))..))..... ( -25.40)
>consensus
AUACGGAAAUAUGAUAUAUUUAUUUUCGGCUAU_AAAGCCAAUACACACAUAAAAAACGUAA__GUAUAAAGGGUGCAAU__AUUUAAUUGUCGU_UUUAUAUGAGUUUAUUAUGGAGGU
...........................((((.....))))...((...((((((((((......(((((((....(((((.......)))))....)))))))..))))))))))...)) (-18.42 = -17.77 +  -0.65) 
# Strand winner: reverse (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 18:53:56 2006