Locus 6084

Sequence ID X_DroMel_CAF1
Location 15,614,781 – 15,615,021
Length 240
Max. P 0.999712
window9880 window9881 window9882 window9883 window9884

overview

Window 0

Location 15,614,781 – 15,614,901
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.83
Mean single sequence MFE -48.78
Consensus MFE -40.94
Energy contribution -41.74
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.84
SVM decision value 2.23
SVM RNA-class probability 0.990781
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15614781 120 + 22224390
AAGGAGAAUGGCAGGCGACAUCCCCGCAGUGCCGAUCUCACCUUAACUUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCAC
...((((.(((((.(((.......)))..))))).)))).(((...(....)..)))......(((.((.((((..((((.(((((((.....))))))).))))..)))).))..))). ( -49.50)
>DroSec_CAF1 3182 120 + 1
AGGGAGAAUGGCAGGCGACAGCCCCGCAGUGCCGAUCUCACCUUAACCUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCAC
(((((((.(((((.(((.......)))..))))).)))).))).......((.((....)).))((.((.((((..((((.(((((((.....))))))).))))..)))).))..)).. ( -49.80)
>DroSim_CAF1 3166 120 + 1
AGGGAGAAUGGCAAGCGACAGCCCCGCAGUGCCGAUCUCACCUUAACCUCGGGAAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCAC
(((((((.(((((.(((.......)))..))))).)))).)))....(((((((.....(((((....)))))...((((.(((((((.....))))))).)))))))))))........ ( -49.30)
>DroEre_CAF1 3281 120 + 1
AGGGAGAAUGGGAGACGACAGCCCCGCAGUGCCGACCUCACCUUGGAUUCGGGCAGGAAUGGCUGGUUGGUCGGGUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCAC
..((((....(....)..(((((...(..((((((((.......))..)).)))).)...)))))..((.(((((.((((.(((((((.....))))))).)))).))))).)))))).. ( -49.30)
>DroYak_CAF1 3202 120 + 1
AGCGAGAAUGGCAGACGACAGCCCCGCAGUGCCGAUCUCACCUUGGACUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCAC
...((((.(((((..((.......))...))))).))))....((((.((((.((....)).)))).((.((((..((((.(((((((.....))))))).))))..)))).)).)))). ( -46.00)
>consensus
AGGGAGAAUGGCAGGCGACAGCCCCGCAGUGCCGAUCUCACCUUAACCUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCAC
...((((.(((((.(((.......)))..))))).)))).((........))...((((((.((....))((((..((((.(((((((.....))))))).))))..)))).)))))).. (-40.94 = -41.74 +   0.80)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,614,781 – 15,614,901
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.83
Mean single sequence MFE -43.42
Consensus MFE -40.41
Energy contribution -40.09
Covariance contribution -0.32
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.93
SVM decision value 2.18
SVM RNA-class probability 0.989715
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15614781 120 - 22224390
GUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAAGUUAAGGUGAGAUCGGCACUGCGGGGAUGUCGCCUGCCAUUCUCCUU
((((...(((((((.((((.((((((((...)))))))).)))).))))).......(.(((((((((((((..((.....))..))))....))))))))).)))...))))....... ( -41.80)
>DroSec_CAF1 3182 120 - 1
GUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAGGUUAAGGUGAGAUCGGCACUGCGGGGCUGUCGCCUGCCAUUCUCCCU
..((((((((((((.((((.((((((((...)))))))).)))).))))).......).))))))............(((.((((..((((..((((.....)))).))))..))))))) ( -43.21)
>DroSim_CAF1 3166 120 - 1
GUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUUCCCGAGGUUAAGGUGAGAUCGGCACUGCGGGGCUGUCGCUUGCCAUUCUCCCU
..((((((((((((.((((.((((((((...)))))))).)))).))))).......).))))))............(((.((((..((((..((((.....)))).))))..))))))) ( -44.11)
>DroEre_CAF1 3281 120 - 1
GUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAACCCGACCAACCAGCCAUUCCUGCCCGAAUCCAAGGUGAGGUCGGCACUGCGGGGCUGUCGUCUCCCAUUCUCCCU
((((...(((((((.((((.((((((((...)))))))).)))).))))).......(((...(((..((........))..)))..)))...))(((((....)))))))))....... ( -43.00)
>DroYak_CAF1 3202 120 - 1
GUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAGUCCAAGGUGAGAUCGGCACUGCGGGGCUGUCGUCUGCCAUUCUCGCU
.(((...(((((((.((((.((((((((...)))))))).))))...........(((......))))))))))))).(((((((..((((..((((.....)))).))))..))))))) ( -45.00)
>consensus
GUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAGGUUAAGGUGAGAUCGGCACUGCGGGGCUGUCGCCUGCCAUUCUCCCU
..((((((((((((.((((.((((((((...)))))))).)))).))))).......).))))))............(((.((((..((((..((((.....)))).))))..))))))) (-40.41 = -40.09 +  -0.32)

alignment

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secondary structure

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Window 2

Location 15,614,821 – 15,614,941
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -51.14
Consensus MFE -46.62
Energy contribution -46.78
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -2.45
Structure conservation index 0.91
SVM decision value 3.93
SVM RNA-class probability 0.999712
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15614821 120 + 22224390
CCUUAACUUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCACAGGGUUCUCUUAAGCUCGAGAUGAGCCGCCGCCCGCACCG
.........(((((.((...((((((.((.((((..((((.(((((((.....))))))).))))..)))).))..)))...(((((((((......)))).)))))))).)).)).))) ( -51.40)
>DroSec_CAF1 3222 120 + 1
CCUUAACCUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCACAGGGUUCUCUUCAGCUCGAGAUGAGCCGCCGCCCGCACCG
.........(((((.((...((((((.((.((((..((((.(((((((.....))))))).))))..)))).))..)))...(((((((((......)))).)))))))).)).)).))) ( -51.20)
>DroSim_CAF1 3206 120 + 1
CCUUAACCUCGGGAAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCACAGGGUUCUCUUCAGCUCGAGAUGAGCCGCCGCCCGCACCG
.........(((...((..(((((((.((.((((..((((.(((((((.....))))))).))))..)))).))..)))...(((((((((......)))).))))))))).))...))) ( -48.80)
>DroEre_CAF1 3321 120 + 1
CCUUGGAUUCGGGCAGGAAUGGCUGGUUGGUCGGGUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCACAGGGCUUUCUUUAGCUCCAGAUGCGCCGCCGCCCGCACGG
((.((....(((((.((...((((((.((.(((((.((((.(((((((.....))))))).)))).))))).))..)))..(((((......))).))......))).))))))))).)) ( -53.90)
>DroYak_CAF1 3242 120 + 1
CCUUGGACUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCACAGGGCUCUCUUCAGCUCCAGAUGUGCAGCCGCCCGCACCG
....((...(((((......(((((..((.((((..((((.(((((((.....))))))).))))..)))).))...(((((((((......)))))....))))))))))))))..)). ( -50.40)
>consensus
CCUUAACCUCGGGCAGGAAUGGCUGGUUGGUCGGAUUGAUGUGAUGGAAGUGCUCCAUCAGAUCAUCCCGAGCAUUCCACAGGGUUCUCUUCAGCUCGAGAUGAGCCGCCGCCCGCACCG
.........(((((.((...((((((.((.((((..((((.(((((((.....))))))).))))..)))).))..)))..(((((......))))).......))).)))))))..... (-46.62 = -46.78 +   0.16)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,614,821 – 15,614,941
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.17
Mean single sequence MFE -46.88
Consensus MFE -42.36
Energy contribution -43.20
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.99
Structure conservation index 0.90
SVM decision value 2.76
SVM RNA-class probability 0.996888
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15614821 120 - 22224390
CGGUGCGGGCGGCGGCUCAUCUCGAGCUUAAGAGAACCCUGUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAAGUUAAGG
(((.(((((.((((((((.....))))).............(((..((.(((((.((((.((((((((...)))))))).)))).))))).)).))))))...))))))))......... ( -46.90)
>DroSec_CAF1 3222 120 - 1
CGGUGCGGGCGGCGGCUCAUCUCGAGCUGAAGAGAACCCUGUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAGGUUAAGG
(((.(((((.((((((((.....))))).............(((..((.(((((.((((.((((((((...)))))))).)))).))))).)).))))))...))))))))......... ( -47.50)
>DroSim_CAF1 3206 120 - 1
CGGUGCGGGCGGCGGCUCAUCUCGAGCUGAAGAGAACCCUGUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUUCCCGAGGUUAAGG
(((.((((((..((((((.....))))))..).....)))))((((((((((((.((((.((((((((...)))))))).)))).))))).......).))))))...)))......... ( -41.71)
>DroEre_CAF1 3321 120 - 1
CCGUGCGGGCGGCGGCGCAUCUGGAGCUAAAGAAAGCCCUGUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAACCCGACCAACCAGCCAUUCCUGCCCGAAUCCAAGG
.....(((((((.(((((((((((.(((......)))))...)).))))(((((.((((.((((((((...)))))))).)))).))))).......)))....)))))))......... ( -48.50)
>DroYak_CAF1 3242 120 - 1
CGGUGCGGGCGGCUGCACAUCUGGAGCUGAAGAGAGCCCUGUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAGUCCAAGG
(((.(((((.(((((((((...((.(((......)))))))))...((.(((((.((((.((((((((...)))))))).)))).))))).))..)))))...))))))))......... ( -49.80)
>consensus
CGGUGCGGGCGGCGGCUCAUCUCGAGCUGAAGAGAACCCUGUGGAAUGCUCGGGAUGAUCUGAUGGAGCACUUCCAUCACAUCAAUCCGACCAACCAGCCAUUCCUGCCCGAGGUUAAGG
(((.(((((.((((((((.....))))).............(((..((.(((((.((((.((((((((...)))))))).)))).))))).)).))))))...))))))))......... (-42.36 = -43.20 +   0.84)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,614,901 – 15,615,021
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.67
Mean single sequence MFE -48.32
Consensus MFE -38.80
Energy contribution -38.92
Covariance contribution 0.12
Combinations/Pair 1.15
Mean z-score -2.11
Structure conservation index 0.80
SVM decision value 1.44
SVM RNA-class probability 0.954272
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15614901 120 - 22224390
GAUCAGCGAUCACGAGAUCAUCAGCCUCUGCCGGCACUUUUCGGCGGAGAAGAGUCAACCAAAUGCCUGCGAUCGGUCCACGGUGCGGGCGGCGGCUCAUCUCGAGCUUAAGAGAACCCU
((((...)))).((((((.......(((((((((......)))))))))..(((((..((....((((((.((((.....)))))))))))).)))))))))))................ ( -45.80)
>DroSec_CAF1 3302 120 - 1
GAUCAGCGAUCACGAGAUCAUUAGCCUCUGCCGGCACUUUUCGGCGGAGAAGAGUCAACCAAAUGCCUGCGAUCGAUCCACGGUGCGGGCGGCGGCUCAUCUCGAGCUGAAGAGAACCCU
..(((((.....((((((.......(((((((((......)))))))))..(((((..((....((((((.((((.....)))))))))))).))))))))))).))))).......... ( -48.70)
>DroSim_CAF1 3286 120 - 1
GAUCAGUGAUCACGAGAUCAUCAGCCUCUGCCGGCACUUUUCGGCGGAGAAGAGUCAGCCAAAUGCCUGCGAUCGAUCCACGGUGCGGGCGGCGGCUCAUCUCGAGCUGAAGAGAACCCU
.....((((((....))))))..(((......))).(((((((((.((((.(((((.(((....((((((.((((.....)))))))))))))))))).))))..)))))))))...... ( -53.50)
>DroEre_CAF1 3401 120 - 1
GAUCAGUGAUCAUGAGAUCAUCAGUCUCUGCCGCCACUUUUCGGCGGAGAAGAGUCAACCAAAUGCCUGCGACCGAUCCACCGUGCGGGCGGCGGCGCAUCUGGAGCUAAAGAAAGCCCU
(((..((((((....))))))..)))...(((((((((((((......))))))).........(((((((..((......)))))))))))))))......((.(((......))))). ( -46.00)
>DroYak_CAF1 3322 120 - 1
GAUCAGCGAUCACGAGAUCAUCAGCCUCUGUCGGCACUUCUCUGCGGAGAAGAGUCAACCGAAUGCCUGCGAUCGAUCCACGGUGCGGGCGGCUGCACAUCUGGAGCUGAAGAGAGCCCU
..(((((((((....))))..(((((((.((.(((.((((((....)))))).))).)).))..((((((.((((.....)))))))))))))))..........))))).......... ( -47.60)
>consensus
GAUCAGCGAUCACGAGAUCAUCAGCCUCUGCCGGCACUUUUCGGCGGAGAAGAGUCAACCAAAUGCCUGCGAUCGAUCCACGGUGCGGGCGGCGGCUCAUCUCGAGCUGAAGAGAACCCU
..(((((((((....))))....(((...((((((.((((((....)))))).)))........((((((.((((.....)))))))))))))))).........))))).......... (-38.80 = -38.92 +   0.12)

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 12:03:45 2006