Locus 6246

Sequence ID X_DroMel_CAF1
Location 15,911,119 – 15,911,279
Length 160
Max. P 0.984204
window10176 window10177 window10178 window10179

overview

Window 6

Location 15,911,119 – 15,911,239
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.85
Mean single sequence MFE -30.57
Consensus MFE -27.93
Energy contribution -29.27
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.91
SVM decision value 0.62
SVM RNA-class probability 0.802225
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15911119 120 + 22224390
CACUUAUGCGCUACCAUGAUCAGAAUACAAAAGCUAUAGACCCAAUGCAAUCUAUAAUUCGCACCUCUUACUUUGAAGUGCGAGUGAUAUAGCAUUUAGUGGGGUAUUUUUGUUUGGCUU
.........((((....(((.(((((((.....(....).((((....((((((((((((((((.((.......)).))))))))..))))).)))...))))))))))).))))))).. ( -28.30)
>DroSim_CAF1 6686 118 + 1
--CUUAUGCGCUACUAUGAUCAGAAUACAAAAGCUAUAGACCCAAUGCAAUCUAUAAUUCGCACCUCUUAGUUUGAAGUGCGAGUGAUAUAGCAUUUAGUGGGGUAUUUUGGUUUGGCUU
--.......((((....(((((((((((.....(....).((((....((((((((((((((((.((.......)).))))))))..))))).)))...))))))))))))))))))).. ( -33.60)
>DroYak_CAF1 6877 118 + 1
--CUUAUGCGCUACUAUGAUCAGAAUACAAAAGCUAUAGACCCAAUGCAAUCUAUAAUUCGCACCUAUUACUUUGAGGUGCGAUUAAUAUAGCAUUUAAUGGGGUUUUUUGGUUUGGCUU
--.......((((....((((((((.((.....(....).((((.((.((((((((..((((((((.........))))))))....))))).))))).)))))).)))))))))))).. ( -29.80)
>consensus
__CUUAUGCGCUACUAUGAUCAGAAUACAAAAGCUAUAGACCCAAUGCAAUCUAUAAUUCGCACCUCUUACUUUGAAGUGCGAGUGAUAUAGCAUUUAGUGGGGUAUUUUGGUUUGGCUU
.........((((....(((((((((((.....(....).((((.((.((((((((((((((((.((.......)).))))))))..))))).))))).))))))))))))))))))).. (-27.93 = -29.27 +   1.33)

alignment

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secondary structure

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Window 7

Location 15,911,119 – 15,911,239
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 93.85
Mean single sequence MFE -27.90
Consensus MFE -26.59
Energy contribution -26.70
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.11
Structure conservation index 0.95
SVM decision value 1.11
SVM RNA-class probability 0.917028
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15911119 120 - 22224390
AAGCCAAACAAAAAUACCCCACUAAAUGCUAUAUCACUCGCACUUCAAAGUAAGAGGUGCGAAUUAUAGAUUGCAUUGGGUCUAUAGCUUUUGUAUUCUGAUCAUGGUAGCGCAUAAGUG
...................((((..((((..(((((.(((((((((.......)))))))))....((((.((((..((........))..)))).))))....)))))..)))).)))) ( -30.80)
>DroSim_CAF1 6686 118 - 1
AAGCCAAACCAAAAUACCCCACUAAAUGCUAUAUCACUCGCACUUCAAACUAAGAGGUGCGAAUUAUAGAUUGCAUUGGGUCUAUAGCUUUUGUAUUCUGAUCAUAGUAGCGCAUAAG--
...........................(((((.....(((((((((.......)))))))))....((((.((((..((........))..)))).))))......))))).......-- ( -27.00)
>DroYak_CAF1 6877 118 - 1
AAGCCAAACCAAAAAACCCCAUUAAAUGCUAUAUUAAUCGCACCUCAAAGUAAUAGGUGCGAAUUAUAGAUUGCAUUGGGUCUAUAGCUUUUGUAUUCUGAUCAUAGUAGCGCAUAAG--
..((.............((((...(((.(((((....((((((((.........))))))))..))))))))....))))......(((.((((.........)))).))))).....-- ( -25.90)
>consensus
AAGCCAAACCAAAAUACCCCACUAAAUGCUAUAUCACUCGCACUUCAAAGUAAGAGGUGCGAAUUAUAGAUUGCAUUGGGUCUAUAGCUUUUGUAUUCUGAUCAUAGUAGCGCAUAAG__
...........................(((((.....(((((((((.......)))))))))....((((.((((..((........))..)))).))))......)))))......... (-26.59 = -26.70 +   0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,911,159 – 15,911,279
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -32.43
Consensus MFE -29.40
Energy contribution -30.07
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.91
SVM decision value 0.18
SVM RNA-class probability 0.623109
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15911159 120 + 22224390
CCCAAUGCAAUCUAUAAUUCGCACCUCUUACUUUGAAGUGCGAGUGAUAUAGCAUUUAGUGGGGUAUUUUUGUUUGGCUUGGCUUUGAUUUGACUCUUGUUCGUGGUCACAGUAGCUAUA
((((....((((((((((((((((.((.......)).))))))))..))))).)))...))))...........(((((..(((.(((((.(((....)))...))))).)))))))).. ( -32.40)
>DroSim_CAF1 6724 120 + 1
CCCAAUGCAAUCUAUAAUUCGCACCUCUUAGUUUGAAGUGCGAGUGAUAUAGCAUUUAGUGGGGUAUUUUGGUUUGGCUUGGCUUUGAUUUGACUCUUGUUCGUGGUCACAGUAGCUAUA
((((....((((((((((((((((.((.......)).))))))))..))))).)))...))))...........(((((..(((.(((((.(((....)))...))))).)))))))).. ( -32.40)
>DroYak_CAF1 6915 120 + 1
CCCAAUGCAAUCUAUAAUUCGCACCUAUUACUUUGAGGUGCGAUUAAUAUAGCAUUUAAUGGGGUUUUUUGGUUUGGCUUGGCUUUGAUUUGACUCUUGUUCGUGGUCACAGUAGCUAUA
((((.((.((((((((..((((((((.........))))))))....))))).))))).))))...........(((((..(((.(((((.(((....)))...))))).)))))))).. ( -32.50)
>consensus
CCCAAUGCAAUCUAUAAUUCGCACCUCUUACUUUGAAGUGCGAGUGAUAUAGCAUUUAGUGGGGUAUUUUGGUUUGGCUUGGCUUUGAUUUGACUCUUGUUCGUGGUCACAGUAGCUAUA
((((.((.((((((((((((((((.((.......)).))))))))..))))).))))).))))...........(((((..(((.(((((.(((....)))...))))).)))))))).. (-29.40 = -30.07 +   0.67)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,911,159 – 15,911,279
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -26.37
Consensus MFE -26.42
Energy contribution -26.53
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.46
Structure conservation index 1.00
SVM decision value 1.97
SVM RNA-class probability 0.984204
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15911159 120 - 22224390
UAUAGCUACUGUGACCACGAACAAGAGUCAAAUCAAAGCCAAGCCAAACAAAAAUACCCCACUAAAUGCUAUAUCACUCGCACUUCAAAGUAAGAGGUGCGAAUUAUAGAUUGCAUUGGG
....(((....(((((........).))))......)))..................((((...(((.(((((....(((((((((.......)))))))))..))))))))....)))) ( -26.70)
>DroSim_CAF1 6724 120 - 1
UAUAGCUACUGUGACCACGAACAAGAGUCAAAUCAAAGCCAAGCCAAACCAAAAUACCCCACUAAAUGCUAUAUCACUCGCACUUCAAACUAAGAGGUGCGAAUUAUAGAUUGCAUUGGG
....(((....(((((........).))))......)))..................((((...(((.(((((....(((((((((.......)))))))))..))))))))....)))) ( -26.70)
>DroYak_CAF1 6915 120 - 1
UAUAGCUACUGUGACCACGAACAAGAGUCAAAUCAAAGCCAAGCCAAACCAAAAAACCCCAUUAAAUGCUAUAUUAAUCGCACCUCAAAGUAAUAGGUGCGAAUUAUAGAUUGCAUUGGG
....(((....(((((........).))))......)))..................((((...(((.(((((....((((((((.........))))))))..))))))))....)))) ( -25.70)
>consensus
UAUAGCUACUGUGACCACGAACAAGAGUCAAAUCAAAGCCAAGCCAAACCAAAAUACCCCACUAAAUGCUAUAUCACUCGCACUUCAAAGUAAGAGGUGCGAAUUAUAGAUUGCAUUGGG
....(((....(((((........).))))......)))..................((((...(((.(((((....(((((((((.......)))))))))..))))))))....)))) (-26.42 = -26.53 +   0.11)

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 12:08:19 2006