Locus 7047

Sequence ID X_DroMel_CAF1
Location 17,649,316 – 17,649,449
Length 133
Max. P 0.999081
window11516 window11517 window11518

overview

Window 6

Location 17,649,316 – 17,649,421
Length 105
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 75.26
Mean single sequence MFE -23.42
Consensus MFE -8.56
Energy contribution -8.60
Covariance contribution 0.04
Combinations/Pair 1.10
Mean z-score -2.48
Structure conservation index 0.37
SVM decision value 2.28
SVM RNA-class probability 0.991582
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17649316 105 - 22224390
GAAUCCCAAG--------AUCCCCAGAUCGCAAGAUCUCCAGAUCUCAAGAUCUUCAGAUCUCCAGAUCCCGAAAGGAAAUGCCACGAAAUUGAAAAUGCAAAACGAAAUUGG
.....((((.--------.((...(((((....)))))...(((((..(((((....)))))..)))))((....))............................))..)))) ( -26.20)
>DroSec_CAF1 42330 96 - 1
G-AUCCCAAG--------AUCCCCAGAU--------CCCCAGAUCGCAAGAUCUCAAGAUCUCCAGAUCCCGAAAGGAAAUGCCACGAAAUUGAAAAUGCAAAACGAAAUUGG
.-...(((((--------(((...((((--------(...(((((....)))))...)))))...))))((....))................................)))) ( -24.00)
>DroSim_CAF1 10359 80 - 1
G-AUCCCAAG--------AUCCCCAGA----------------UCG--------CAAGAUCUCCAGAUCCCGAAAGGAAAUGCCACGAAAUUGAAAAUGCAAAACGAAAUUGG
.-...(((((--------(((...(((----------------((.--------...)))))...))))((....))................................)))) ( -18.70)
>DroEre_CAF1 43018 80 - 1
G-AUCCCAAG--------AUCUCCAGC------------------------UCGCGAGAUGCCCAGAUCCCGAAAGGAAGUGCCACAAAAUUGAAAAUGCAAAACGAAAUUGG
.-...(((((--------((((...((------------------------((....)).))..)))))((....))................................)))) ( -16.10)
>DroYak_CAF1 44086 112 - 1
G-AGCCCAAGAUCCCAAGAUCUCCAGUUCUGCAGAUCUCCAGUUCUGCAGAUCUCCAGAUCUUCAGAUUCCGAAAGGAAAUGCCACGAAAUUGAAAAUGCAAAACGAAAUUGG
.-...((((..((..(((((((..((.((((((((........)))))))).))..)))))))....((((....))))..........................))..)))) ( -32.10)
>consensus
G_AUCCCAAG________AUCCCCAGAU________C_CCAG_UCG__AGAUCUCAAGAUCUCCAGAUCCCGAAAGGAAAUGCCACGAAAUUGAAAAUGCAAAACGAAAUUGG
.....((((................................................((((....))))((....))................................)))) ( -8.56 =  -8.60 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,649,356 – 17,649,449
Length 93
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 77.89
Mean single sequence MFE -36.53
Consensus MFE -22.90
Energy contribution -24.01
Covariance contribution 1.11
Combinations/Pair 1.04
Mean z-score -3.31
Structure conservation index 0.63
SVM decision value 3.36
SVM RNA-class probability 0.999081
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17649356 93 + 22224390
UCGGGAUCUGGAGAUCUGAAGAUCUUGAGAUCUGGAGAUCUUGCGAUCUGGGGAU--------CUUGGGAUUCGAACCUAAGCCGAAAGCUUUAGCCAGCG
...((((((.(((((((..(((((.(((((((....))))))).)))))..))))--------))).))))))....(((((.(....).)))))...... ( -36.90)
>DroSec_CAF1 42370 84 + 1
UCGGGAUCUGGAGAUCUUGAGAUCUUGCGAUCUGGGG--------AUCUGGGGAU--------CUUGGGAU-CGAACCUAAGCCGAAAGCUUUAGCCAGCG
..(((((((.((((((((.(((((((........)))--------)))).)))))--------))).))))-)....(((((.(....).))))))).... ( -34.00)
>DroYak_CAF1 44126 100 + 1
UCGGAAUCUGAAGAUCUGGAGAUCUGCAGAACUGGAGAUCUGCAGAACUGGAGAUCUUGGGAUCUUGGGCU-CGCACCUAAGCCAAAAGCUUUAGCCAGCG
(((..((((.(((((((..((.((((((((.(....).)))))))).))..))))))).))))..)))(((-.((....((((.....))))..)).))). ( -38.70)
>consensus
UCGGGAUCUGGAGAUCUGGAGAUCUUGAGAUCUGGAGAUCU___GAUCUGGGGAU________CUUGGGAU_CGAACCUAAGCCGAAAGCUUUAGCCAGCG
((.((((((.((((((....)))))).)))))).))...........((((............((((((.......)))))).............)))).. (-22.90 = -24.01 +   1.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,649,356 – 17,649,449
Length 93
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 77.89
Mean single sequence MFE -28.70
Consensus MFE -16.22
Energy contribution -16.67
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.83
Structure conservation index 0.57
SVM decision value 1.77
SVM RNA-class probability 0.976613
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17649356 93 - 22224390
CGCUGGCUAAAGCUUUCGGCUUAGGUUCGAAUCCCAAG--------AUCCCCAGAUCGCAAGAUCUCCAGAUCUCAAGAUCUUCAGAUCUCCAGAUCCCGA
.(((......)))..(((((((.((.......)).)))--------......(((((....)))))...(((((..(((((....)))))..))))))))) ( -26.90)
>DroSec_CAF1 42370 84 - 1
CGCUGGCUAAAGCUUUCGGCUUAGGUUCG-AUCCCAAG--------AUCCCCAGAU--------CCCCAGAUCGCAAGAUCUCAAGAUCUCCAGAUCCCGA
.(((......)))..((((....((....-..))...(--------(((...((((--------(...(((((....)))))...)))))...)))))))) ( -24.40)
>DroYak_CAF1 44126 100 - 1
CGCUGGCUAAAGCUUUUGGCUUAGGUGCG-AGCCCAAGAUCCCAAGAUCUCCAGUUCUGCAGAUCUCCAGUUCUGCAGAUCUCCAGAUCUUCAGAUUCCGA
.(((.((..((((.....))))....)).-)))....((((..(((((((..((.((((((((........)))))))).))..)))))))..)))).... ( -34.80)
>consensus
CGCUGGCUAAAGCUUUCGGCUUAGGUUCG_AUCCCAAG________AUCCCCAGAUC___AGAUCUCCAGAUCUCAAGAUCUCCAGAUCUCCAGAUCCCGA
..((((...((((.....)))).((........))...............))))...............(((((..(((((....)))))..))))).... (-16.22 = -16.67 +   0.45)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:58 2006