Locus 6384

Sequence ID X_DroMel_CAF1
Location 16,028,214 – 16,028,360
Length 146
Max. P 0.799120
window10419 window10420 window10421

overview

Window 9

Location 16,028,214 – 16,028,320
Length 106
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.22
Mean single sequence MFE -33.10
Consensus MFE -20.19
Energy contribution -19.97
Covariance contribution -0.22
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.61
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16028214 106 + 22224390
AUCGGCAUCCC------CAUCUGCAACUCGUUUAU---GU----ACAUACAUAUAUUUAACGUAUAUUUUUGAGCUUGCGAA-AAAGGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUU
...((((.(((------(...(((((((((...((---((----((...............))))))...)))).)))))..-...))))(((((..(((......)))..))))))))) ( -37.06)
>DroEre_CAF1 96427 113 + 1
AUCGGCAUCGCCAUUCCCAUCUGCAACUCCUUUUU-ACAUAUACACA----UAGAUUCAACGUAUAUUUUGGAGCUUCUGCCG--AAGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUU
...(((...)))...(((.((.(((.((((.....-..((((((...----..........))))))...))))....))).)--).)))(((((..(((......)))..))))).... ( -35.82)
>DroYak_CAF1 78984 120 + 1
AUCGCCAUCGCCAUCCCCAUCUGCAACUCCUUUAUCUCAUAUACACAUACAUAUAUUUAACGUAUAUUUUUGAGCUUCUGGUAAAAAGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUU
...((((..((...........))...........(((((((((.................)))))....))))....))))....((.((((((..(((......)))..)))))).)) ( -26.43)
>consensus
AUCGGCAUCGCCAU_CCCAUCUGCAACUCCUUUAU__CAUAUACACAUACAUAUAUUUAACGUAUAUUUUUGAGCUUCUGAA_AAAAGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUU
......................................................................................((.((((((..(((......)))..)))))).)) (-20.19 = -19.97 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,028,245 – 16,028,360
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.94
Mean single sequence MFE -33.87
Consensus MFE -27.61
Energy contribution -27.39
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.78
Structure conservation index 0.82
SVM decision value 0.07
SVM RNA-class probability 0.566593
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16028245 115 + 22224390
----ACAUACAUAUAUUUAACGUAUAUUUUUGAGCUUGCGAA-AAAGGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUUGUUGUGGUCACUUUUUCCACAUUGUUUUCCUUUUGCCAAU
----.((...((((((.....))))))...))...(((.(.(-((((((((((((..(((......)))..)))))).....(((((.........)))))......))))))).)))). ( -33.70)
>DroEre_CAF1 96466 114 + 1
AUACACA----UAGAUUCAACGUAUAUUUUGGAGCUUCUGCCG--AAGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUUGUUGUGGUCACUUUUUCCACAUUGUUUUCCCACUGCCAAU
.......----.................((((..((((....)--)))((((((..(((((((((...((((((((......)).))))))....)))).)))))...)))))).)))). ( -33.50)
>DroYak_CAF1 79024 120 + 1
AUACACAUACAUAUAUUUAACGUAUAUUUUUGAGCUUCUGGUAAAAAGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUUGUUGUGGUCACUUUUUCCACAUUGUUUUCCUACUGCCAAU
.....((...((((((.....))))))...))......(((((...(((((((((..(((......)))..)))))).....(((((.........))))).......)))..))))).. ( -34.40)
>consensus
AUACACAUACAUAUAUUUAACGUAUAUUUUUGAGCUUCUGAA_AAAAGGGUGGGCUGCGGUUGGACCCGUGGCCCAUGUUGUUGUGGUCACUUUUUCCACAUUGUUUUCCUACUGCCAAU
.....................(((.......((((...........((.((((((..(((......)))..)))))).))..(((((.........)))))..))))......))).... (-27.61 = -27.39 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,028,245 – 16,028,360
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.94
Mean single sequence MFE -31.80
Consensus MFE -22.87
Energy contribution -24.20
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.72
SVM decision value 0.61
SVM RNA-class probability 0.799120
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16028245 115 - 22224390
AUUGGCAAAAGGAAAACAAUGUGGAAAAAGUGACCACAACAACAUGGGCCACGGGUCCAACCGCAGCCCACCCCUUU-UUCGCAAGCUCAAAAAUAUACGUUAAAUAUAUGUAUGU----
.((((.((((((.......(((((.........)))))......(((((..(((......)))..)))))..)))))-).).)))........((((((((.......))))))))---- ( -30.50)
>DroEre_CAF1 96466 114 - 1
AUUGGCAGUGGGAAAACAAUGUGGAAAAAGUGACCACAACAACAUGGGCCACGGGUCCAACCGCAGCCCACCCUU--CGGCAGAAGCUCCAAAAUAUACGUUGAAUCUA----UGUGUAU
.((((.((((((.......(((((.........)))))......(((((..(((......)))..))))))))((--(....)))))))))).((((((((.......)----))))))) ( -34.70)
>DroYak_CAF1 79024 120 - 1
AUUGGCAGUAGGAAAACAAUGUGGAAAAAGUGACCACAACAACAUGGGCCACGGGUCCAACCGCAGCCCACCCUUUUUACCAGAAGCUCAAAAAUAUACGUUAAAUAUAUGUAUGUGUAU
.((((....(((.......(((((.........)))))......(((((..(((......)))..))))).))).....))))..........((((((((.......)))))))).... ( -30.20)
>consensus
AUUGGCAGUAGGAAAACAAUGUGGAAAAAGUGACCACAACAACAUGGGCCACGGGUCCAACCGCAGCCCACCCUUUU_ACCAGAAGCUCAAAAAUAUACGUUAAAUAUAUGUAUGUGUAU
...(((.............(((((.........)))))......(((((..(((......)))..)))))...............))).....((((((((.......)))))))).... (-22.87 = -24.20 +   1.33)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:21 2006