Locus 4190

Sequence ID X_DroMel_CAF1
Location 10,998,241 – 10,998,401
Length 160
Max. P 0.999552
window6886 window6887 window6888

overview

Window 6

Location 10,998,241 – 10,998,361
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.33
Mean single sequence MFE -44.36
Consensus MFE -42.84
Energy contribution -42.44
Covariance contribution -0.40
Combinations/Pair 1.06
Mean z-score -1.56
Structure conservation index 0.97
SVM decision value 2.06
SVM RNA-class probability 0.986802
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10998241 120 - 22224390
GGACGACAACAUGGAUCGCUGUGCGGACACCAUCUACAACUAUAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGUGCAACGGCGCGAGGAGCUGGUCCAGUGCACCCCAGAUGAU
((....((...(((((((((.(.((.(((((.(((.........))).))))).)..(((((..(((((((....)))).)))..)))))).).))).)))))).))....))....... ( -41.90)
>DroSec_CAF1 10561 120 - 1
GGACGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGUGCAACGGCGCGAGGAGCUGGUCCAGUGCACCUGCGAUGAU
........((.(((((((((.(.((.(((((.(((.........))).))))).)..(((((..(((((((....)))).)))..)))))).).))).))))))))((....))...... ( -43.90)
>DroSim_CAF1 12597 120 - 1
GGACGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGUGCAACGGCGCGAGUAGCUGGUCCAGUGCACCUGUGAUGAU
((..(.((...((((((((((..((.(((((.(((.........))).))))).)..(((((..(((((((....)))).)))..))))))..)))).)))))).))).))......... ( -45.30)
>DroEre_CAF1 9862 120 - 1
UGAUGACAACAUGGACCGCUGUGCGGACACCAUCUACAAUUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGUGCAACGGCACGAGGAGCUGGUCCAGUGCACCUCCGAUGAU
...((.((...(((((((((.(.((.(((((.(((.........))).))))).)..(((((..(((((((....)))).)))..)))))).).))).)))))).))))........... ( -44.20)
>DroYak_CAF1 10681 120 - 1
GGAUGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGUGCAACGGCACGAGGAGCUGGUCCAUUGCACCACCGAUGAU
((.((.((..((((((((((.(.((.(((((.(((.........))).))))).)..(((((..(((((((....)))).)))..)))))).).))).)))))))))))))......... ( -46.50)
>consensus
GGACGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGUGCAACGGCGCGAGGAGCUGGUCCAGUGCACCUCCGAUGAU
....(.((...((((((((((((...(((((.(((.........))).))))).)))(((((..(((((((....)))).)))..)))))....))).)))))).)))............ (-42.84 = -42.44 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,998,281 – 10,998,401
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.50
Mean single sequence MFE -47.30
Consensus MFE -47.28
Energy contribution -46.92
Covariance contribution -0.36
Combinations/Pair 1.08
Mean z-score -1.32
Structure conservation index 1.00
SVM decision value 1.04
SVM RNA-class probability 0.905812
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10998281 120 + 22224390
ACAGGUCGCCCUGGCAGAAGCACAUGUACACCUUCUUAUAGUUGUAGAUGGUGUCCGCACAGCGAUCCAUGUUGUCGUCCGGACCGCGCUGCACGCACAUCCGCUGGAUGGCCAGGUCGU
......((.((((((.(.(((.(((.((((.((......)).)))).)))(((((((.((.(((((....))))).)).)))).)))))).).....(((((...))))))))))).)). ( -43.20)
>DroSec_CAF1 10601 120 + 1
ACAGGUCGCCCUGGCAGAAGCACAUGUACACCUUCUUGUAGUUGUAGAUGGUGUCCGCACAGCGGUCCAUGUUGUCGUCCGGACCGCGCUGCACGCACAUCCGCUGGAUGGCCAGGUCGU
......((.((((((....((....(.(((((.(((.........))).))))).)(((..((((((((((....)))..)))))))..)))..)).(((((...))))))))))).)). ( -48.10)
>DroSim_CAF1 12637 120 + 1
ACAGGUCGCCCUGGCAGAAGCACAUGUACACCUUCUUGUAGUUGUAGAUGGUGUCCGCACAGCGGUCCAUGUUGUCGUCCGGACCGCGCUGCACGCACAUCCGCUGGAUGGCCAGGUCGU
......((.((((((....((....(.(((((.(((.........))).))))).)(((..((((((((((....)))..)))))))..)))..)).(((((...))))))))))).)). ( -48.10)
>DroEre_CAF1 9902 120 + 1
ACAGGUCGCCCUGGCAGAAGCACAUGUACACCUUCUUGUAAUUGUAGAUGGUGUCCGCACAGCGGUCCAUGUUGUCAUCAGGGCCGCGCUGCACGCACAUCCGCUGGGUGGCCAGGUCGU
...((((((((.(((.((.((....(.(((((.(((.........))).))))).)(((..(((((((.((.......)))))))))..)))..))...)).)))))))))))....... ( -48.60)
>DroYak_CAF1 10721 120 + 1
ACAGGUCGCCCUGGCAGAAGCACAUGUACACCUUCUUGUAGUUGUAGAUGGUGUCCGCACAGCGGUCCAUGUUGUCAUCCGGACCGCGCUGCACGCACAUCCGCUGGAUGGCCAGGUCGU
......((.((((((....((....(.(((((.(((.........))).))))).)(((..((((((((((....)))..)))))))..)))..)).(((((...))))))))))).)). ( -48.50)
>consensus
ACAGGUCGCCCUGGCAGAAGCACAUGUACACCUUCUUGUAGUUGUAGAUGGUGUCCGCACAGCGGUCCAUGUUGUCGUCCGGACCGCGCUGCACGCACAUCCGCUGGAUGGCCAGGUCGU
......((.((((((....((....(.(((((.(((.........))).))))).)(((..((((((((((....)))..)))))))..)))..)).(((((...))))))))))).)). (-47.28 = -46.92 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,998,281 – 10,998,401
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.50
Mean single sequence MFE -49.74
Consensus MFE -48.66
Energy contribution -48.90
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -2.25
Structure conservation index 0.98
SVM decision value 3.71
SVM RNA-class probability 0.999552
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10998281 120 - 22224390
ACGACCUGGCCAUCCAGCGGAUGUGCGUGCAGCGCGGUCCGGACGACAACAUGGAUCGCUGUGCGGACACCAUCUACAACUAUAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGU
.((.((((((.....((((.((((.((..(((((..(((((..........))))))))))..)).(((((.(((.........))).))))))))).))))...)))))).))...... ( -48.60)
>DroSec_CAF1 10601 120 - 1
ACGACCUGGCCAUCCAGCGGAUGUGCGUGCAGCGCGGUCCGGACGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGU
.((.((((((.....((((.((((.((..((((..((((((..........))))))))))..)).(((((.(((.........))).))))))))).))))...)))))).))...... ( -50.80)
>DroSim_CAF1 12637 120 - 1
ACGACCUGGCCAUCCAGCGGAUGUGCGUGCAGCGCGGUCCGGACGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGU
.((.((((((.....((((.((((.((..((((..((((((..........))))))))))..)).(((((.(((.........))).))))))))).))))...)))))).))...... ( -50.80)
>DroEre_CAF1 9902 120 - 1
ACGACCUGGCCACCCAGCGGAUGUGCGUGCAGCGCGGCCCUGAUGACAACAUGGACCGCUGUGCGGACACCAUCUACAAUUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGU
.((.((((((.....((((.((((.((..(((((.(.((.((.......)).)).))))))..)).(((((.(((.........))).))))))))).))))...)))))).))...... ( -47.60)
>DroYak_CAF1 10721 120 - 1
ACGACCUGGCCAUCCAGCGGAUGUGCGUGCAGCGCGGUCCGGAUGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGU
.((.((((((.....((((.((((.((..((((..((((((..(....)..))))))))))..)).(((((.(((.........))).))))))))).))))...)))))).))...... ( -50.90)
>consensus
ACGACCUGGCCAUCCAGCGGAUGUGCGUGCAGCGCGGUCCGGACGACAACAUGGACCGCUGUGCGGACACCAUCUACAACUACAAGAAGGUGUACAUGUGCUUCUGCCAGGGCGACCUGU
.((.((((((.....((((.((((.((..((((..((((((..........))))))))))..)).(((((.(((.........))).))))))))).))))...)))))).))...... (-48.66 = -48.90 +   0.24)

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 11:18:45 2006