Locus 5821

Sequence ID 3L_DroMel_CAF1
Location 15,749,101 – 15,749,261
Length 160
Max. P 0.991409
window9249 window9250 window9251 window9252

overview

Window 9

Location 15,749,101 – 15,749,221
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -47.67
Consensus MFE -47.07
Energy contribution -47.30
Covariance contribution 0.23
Combinations/Pair 1.05
Mean z-score -3.08
Structure conservation index 0.99
SVM decision value 2.27
SVM RNA-class probability 0.991409
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15749101 120 + 23771897
GUUUUUCUUUGUAUUUUACGAUUCGGUUUUUGGGCGUGUCCUUGCCAGGCUUUUGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGU
(((((..((((((((((.(((..(((...((((((((((...(((..(((.....))))))....((((((......)))))))))))))))).))).)))))))))))))..))))).. ( -48.60)
>DroSec_CAF1 862 120 + 1
GUAUUUCUUUGUAUUUUACGAUUCGGUUUUUGGGCGUGUCCUUGCCAGGCUUUUGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGU
((.(..((((..(((((.(((..(((...((((((((((...(((..(((.....))))))....((((((......)))))))))))))))).))).))))))))...))))..))).. ( -45.90)
>DroEre_CAF1 873 119 + 1
GCUUUUCCUUGUAUUUUACGGUUCGGUUUUUGGGCGUGUCCUUGCCAGGCUU-UGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGU
(((..(((((.((((((.(((..(((...((((((((((...(((..(((..-..))))))....((((((......)))))))))))))))).))).)))))))))...)))))))).. ( -48.50)
>consensus
GUUUUUCUUUGUAUUUUACGAUUCGGUUUUUGGGCGUGUCCUUGCCAGGCUUUUGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGU
(((((..((((((((((.(((..(((...((((((((((...(((..(((.....))))))....((((((......)))))))))))))))).))).)))))))))))))..))))).. (-47.07 = -47.30 +   0.23)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,749,101 – 15,749,221
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -41.16
Consensus MFE -39.54
Energy contribution -39.32
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -3.39
Structure conservation index 0.96
SVM decision value 2.12
SVM RNA-class probability 0.988514
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15749101 120 - 23771897
ACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCAAAAGCCUGGCAAGGACACGCCCAAAAACCGAAUCGUAAAAUACAAAGAAAAAC
.......((((........(((.(((.(((((((((((((((((....)))))))........((((......))))....))))))))))...)))..)))........))))...... ( -41.09)
>DroSec_CAF1 862 120 - 1
ACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCAAAAGCCUGGCAAGGACACGCCCAAAAACCGAAUCGUAAAAUACAAAGAAAUAC
.......((((........(((.(((.(((((((((((((((((....)))))))........((((......))))....))))))))))...)))..)))........))))...... ( -41.09)
>DroEre_CAF1 873 119 - 1
ACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCA-AAGCCUGGCAAGGACACGCCCAAAAACCGAACCGUAAAAUACAAGGAAAAGC
......((((.((......((..(((.(((((((((((((((((....)))))))........((((-.....))))....))))))))))...)))...)).....)).))))...... ( -41.30)
>consensus
ACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCAAAAGCCUGGCAAGGACACGCCCAAAAACCGAAUCGUAAAAUACAAAGAAAAAC
.......((((........((..(((.(((((((((((((((((....)))))))........((((......))))....))))))))))...)))...))........))))...... (-39.54 = -39.32 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,749,141 – 15,749,261
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -54.23
Consensus MFE -52.53
Energy contribution -52.87
Covariance contribution 0.34
Combinations/Pair 1.05
Mean z-score -2.04
Structure conservation index 0.97
SVM decision value 0.94
SVM RNA-class probability 0.885951
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15749141 120 + 23771897
CUUGCCAGGCUUUUGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGUGGCCGGUCGAAGGUGACGCCACGGGGCGCCCGGUAAGCAA
((((((.(((.(((((((((.....((((((......)))))).(((((((.((((.......)).))......)))))))).))))))))(....)(((....)))))).))))))... ( -55.20)
>DroSec_CAF1 902 120 + 1
CUUGCCAGGCUUUUGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGUGGCCGGUCGGAGGUGACGCCACGGGGCGCCCGGUAAGCAA
((((((.(((.(((((((((.....((((((......)))))).(((((((.((((.......)).))......)))))))).))))))))(....)(((....)))))).))))))... ( -54.80)
>DroEre_CAF1 913 119 + 1
CUUGCCAGGCUU-UGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGUGGCCGGUCGGAGGUGACGCCACGGGGCGCCCAGCAAGCAA
(((((..(((((-(((((((.....((((((......)))))).(((((((.((((.......)).))......)))))))).))))))))(....)(((....))))))..)))))... ( -52.70)
>consensus
CUUGCCAGGCUUUUGGCCGCAUUAAGUGCACAGUUGCGUGCACACACGCCCAACCCGUUCGAAGGUGUAAAAGGGGGCGUGGCCGGUCGGAGGUGACGCCACGGGGCGCCCGGUAAGCAA
((((((.(((((((((((((.....((((((......)))))).(((((((.((((.......)).))......)))))))).))))))))).....(((....)))))).))))))... (-52.53 = -52.87 +   0.34)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,749,141 – 15,749,261
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -49.73
Consensus MFE -47.65
Energy contribution -47.43
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.70
Structure conservation index 0.96
SVM decision value 0.32
SVM RNA-class probability 0.688809
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15749141 120 - 23771897
UUGCUUACCGGGCGCCCCGUGGCGUCACCUUCGACCGGCCACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCAAAAGCCUGGCAAG
...(((.(((((((((....)))(((......))).(((((((((((((.((.(......))).)))..))))))..(((((((....))))))).......))))....)))))).))) ( -48.40)
>DroSec_CAF1 902 120 - 1
UUGCUUACCGGGCGCCCCGUGGCGUCACCUCCGACCGGCCACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCAAAAGCCUGGCAAG
...(((.(((((((((....)))(((......))).(((((((((((((.((.(......))).)))..))))))..(((((((....))))))).......))))....)))))).))) ( -48.40)
>DroEre_CAF1 913 119 - 1
UUGCUUGCUGGGCGCCCCGUGGCGUCACCUCCGACCGGCCACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCA-AAGCCUGGCAAG
...(((((..((((((....)))(((......))).(((((((((((((.((.(......))).)))..))))))..(((((((....))))))).......)))).-..)))..))))) ( -52.40)
>consensus
UUGCUUACCGGGCGCCCCGUGGCGUCACCUCCGACCGGCCACGCCCCCUUUUACACCUUCGAACGGGUUGGGCGUGUGUGCACGCAACUGUGCACUUAAUGCGGCCAAAAGCCUGGCAAG
...(((.(((((((((....)))(((......))).(((((((((((((.((.(......))).)))..))))))..(((((((....))))))).......))))....)))))).))) (-47.65 = -47.43 +  -0.22)

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 12:00:49 2006