Locus 7875

Sequence ID X_DroMel_CAF1
Location 19,611,958 – 19,612,278
Length 320
Max. P 0.966454
window12918 window12919 window12920 window12921

overview

Window 8

Location 19,611,958 – 19,612,078
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.83
Mean single sequence MFE -48.74
Consensus MFE -39.38
Energy contribution -39.62
Covariance contribution 0.24
Combinations/Pair 1.15
Mean z-score -2.13
Structure conservation index 0.81
SVM decision value 1.60
SVM RNA-class probability 0.966454
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19611958 120 - 22224390
GCCGCAUAAGUGCGAGCUGUGCCCCAAGCAGUUCCAUCACAAGACGGAUCUGCGCCGACACGUGGAGGCCAUCCAUACGGGGCUGAAGCAGCACAUGUGCGACAUCUGUGAGAAGGGCUU
((((((((.((((..(((..(((((..((((.(((.((....)).))).))))(((..(....)..))).........)))))...))).)))).))))).....((......))))).. ( -52.10)
>DroPse_CAF1 20546 120 - 1
GCCGCACAAGUGCGAGCUCUGUCCGAAGCAGUUCCAUCACAAGACCGAUCUGCGGCGCCACGUGGAGGCCAUCCACACGGGGCUCAAGCAGCAUAUGUGCGACAUUUGCGAGAAGGGCUU
((((((((.(((((((((((((.((..((((.((..((....))..)).))))..))....(((((.....)))))))))))))).....)))).)))))........(.....)))).. ( -45.00)
>DroSec_CAF1 17711 120 - 1
GCCGCACAAGUGCGAGCUGUGCCCCAAGCAGUUCCACCACAAGACGGAUCUGCGCCGACACGUGGAGGCCAUCCACACGGGGCUGAAGCAGCACAUGUGCGACAUCUGCGAGAAGGGCUU
((((((((.((((..(((..(((((..((((.(((..........))).))))........(((((.....)))))..)))))...))).)))).))))).....((......))))).. ( -53.60)
>DroAna_CAF1 18983 120 - 1
GCCGCACAAGUGCGACCAGUGCCCCAAGCAGUUCCACCACAAAACCGACCUGCGCCGGCACGUCGAGGCCAUCCACACGGGCCUCAAGCAGCACAUGUGCGACAUCUGCGAGAAGGGCUU
((((((((.(((((((..(((((....((((.((............)).))))...))))))))((((((.........)))))).....)))).))))).....((......))))).. ( -48.00)
>DroPer_CAF1 21453 120 - 1
GCCGCACAAGUGCGAGCUCUGUCCGAAGCAGUUCCAUCACAAGACCGAUCUGCGGCGCCACGUGGAGGCCAUCCACACGGGGCUCAAGCAGCAUAUGUGCGACAUUUGCGAGAAGGGCUU
((((((((.(((((((((((((.((..((((.((..((....))..)).))))..))....(((((.....)))))))))))))).....)))).)))))........(.....)))).. ( -45.00)
>consensus
GCCGCACAAGUGCGAGCUGUGCCCCAAGCAGUUCCAUCACAAGACCGAUCUGCGCCGACACGUGGAGGCCAUCCACACGGGGCUCAAGCAGCACAUGUGCGACAUCUGCGAGAAGGGCUU
((((((((.((((..(((..(((((..((((.((............)).))))........(((((.....)))))..)))))...))).)))).))))).....((......))))).. (-39.38 = -39.62 +   0.24)

alignment

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secondary structure

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Window 9

Location 19,612,038 – 19,612,158
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.83
Mean single sequence MFE -47.72
Consensus MFE -37.70
Energy contribution -38.10
Covariance contribution 0.40
Combinations/Pair 1.07
Mean z-score -2.05
Structure conservation index 0.79
SVM decision value 1.19
SVM RNA-class probability 0.927869
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19612038 120 - 22224390
CGCUGCCAGAAGUGCGGCAAGCGCUUUCAGAGCGAGGAUGUCUACACCACGCACCUGGGUCGCCACCGCACCCAGGACAAGCCGCAUAAGUGCGAGCUGUGCCCCAAGCAGUUCCAUCAC
.(((((..(..(..((((..((((((...(.(((.((.((....)))).))).(((((((.((....)))))))))......)....))))))..))))..)..)..)))))........ ( -47.10)
>DroPse_CAF1 20626 120 - 1
CGCUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAGGACGUUUACACGACACACCUGGGCCGGCACCGUACCCAGGACAAGCCGCACAAGUGCGAGCUCUGUCCGAAGCAGUUCCAUCAC
.(((((..(((((((.....)))))))((((((..((.(((....))).....((((((.((....))..)))))).....))(((....)))..))))))......)))))........ ( -45.90)
>DroSec_CAF1 17791 120 - 1
CGCUGCCAGAAGUGCGGCAAGCGCUUUCAGAGCGAGGAUGUCUACACCACGCACCUGGGUCGCCACCGCACCCAGGAUAAGCCGCACAAGUGCGAGCUGUGCCCCAAGCAGUUCCACCAC
...........(((((((.............(((.((.((....)))).))).(((((((.((....)))))))))....)))))))..(((.(((((((.......))))))))))... ( -50.20)
>DroAna_CAF1 19063 120 - 1
CGGUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAAGACGUCUACACGACGCACCUGGGGCGCCACCGCACCCAGGACAAGCCGCACAAGUGCGACCAGUGCCCCAAGCAGUUCCACCAC
.((((......(((((((...(((((...)))))..(.((((.....))))).(((((((((....))).))))))....)))))))..(..(.....)..)............)))).. ( -48.50)
>DroPer_CAF1 21533 120 - 1
CGCUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAGGAUGUUUACACGACACACCUGGGCCGGCACCGUACCCAGGACAAGCCGCACAAGUGCGAGCUCUGUCCGAAGCAGUUCCAUCAC
((((.(..(((((((.....)))))))..))))).((((((((....((((..((((((.((....))..))))))...(((((((....)))).))).))))..)))))..)))..... ( -46.90)
>consensus
CGCUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAGGAUGUCUACACGACGCACCUGGGCCGCCACCGCACCCAGGACAAGCCGCACAAGUGCGAGCUGUGCCCCAAGCAGUUCCAUCAC
...........(((((((...(((((...)))))...................((((((...........))))))....)))))))..(((.(((((((.......))))))))))... (-37.70 = -38.10 +   0.40)

alignment

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secondary structure

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Window 0

Location 19,612,078 – 19,612,198
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.00
Mean single sequence MFE -43.08
Consensus MFE -36.00
Energy contribution -35.60
Covariance contribution -0.40
Combinations/Pair 1.12
Mean z-score -1.34
Structure conservation index 0.84
SVM decision value 0.13
SVM RNA-class probability 0.599104
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19612078 120 - 22224390
GCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCAUUUCGCUGCCAGAAGUGCGGCAAGCGCUUUCAGAGCGAGGAUGUCUACACCACGCACCUGGGUCGCCACCGCACCCAGGACAA
...((.......(((......))).((((((.((...(((((((.(..(((((((.....)))))))..))))))))..)))).))))..)).(((((((.((....))))))))).... ( -43.60)
>DroPse_CAF1 20666 120 - 1
GCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUCCGCUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAGGACGUUUACACGACACACCUGGGCCGGCACCGUACCCAGGACAA
....(((.....(((......)))..))).(((..(((((((((.(..(((((((.....)))))))..))))).)))))..)))........((((((.((....))..)))))).... ( -42.50)
>DroSec_CAF1 17831 120 - 1
GCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUUCGCUGCCAGAAGUGCGGCAAGCGCUUUCAGAGCGAGGAUGUCUACACCACGCACCUGGGUCGCCACCGCACCCAGGAUAA
...((.......(((......))).((((((.((...(((((((.(..(((((((.....)))))))..))))))))..)))).))))..)).(((((((.((....))))))))).... ( -44.70)
>DroAna_CAF1 19103 120 - 1
GCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUCCGGUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAAGACGUCUACACGACGCACCUGGGGCGCCACCGCACCCAGGACAA
...((.........(((((..(((.(.((.(((((......)))))))(((((((.....)))))))).))).)))).)(((.....))))).(((((((((....))).)))))).... ( -43.90)
>DroPer_CAF1 21573 120 - 1
GCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUCCGCUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAGGAUGUUUACACGACACACCUGGGCCGGCACCGUACCCAGGACAA
....(((.....(((......)))..))).(((..(((((((((.(..(((((((.....)))))))..))))).)))))..)))........((((((.((....))..)))))).... ( -40.70)
>consensus
GCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUCCGCUGCCAGAAGUGCGGCAAGCGCUUCCAGAGCGAGGAUGUCUACACGACGCACCUGGGCCGCCACCGCACCCAGGACAA
....(((.....(((......)))..))).(((..(((((((((.(..(((((((.....)))))))..))))).)))))..)))........((((((...........)))))).... (-36.00 = -35.60 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,612,158 – 19,612,278
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.25
Mean single sequence MFE -39.72
Consensus MFE -34.30
Energy contribution -34.50
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.86
SVM decision value 0.12
SVM RNA-class probability 0.592074
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19612158 120 - 22224390
CCGCACUCGACCACCCUGCCAUCGGGACGGAUCAAGUGUCUGGAGUGCGACAAGGAGUUCACCAAGAACUGCUACCUCACGCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCAUUU
.(((((((.....(((.......))).(((((.....))))))))))))....((..((((((.....((((........))))........(((......))).))))))..))..... ( -37.40)
>DroPse_CAF1 20746 120 - 1
CCGCACUCGACAACGCUGCCCUCGGGGCGGAUCAAGUGUCUGGAGUGCGACAAGGAGUUCACCAAGAACUGCUACCUCACGCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUC
.(((((((((((...((((((...))))))......))))..)))))))....((..((((((.....((((........))))........(((......))).))))))..))..... ( -42.40)
>DroSec_CAF1 17911 120 - 1
CCGCACUCGACCACCCUGCCCUCGGGACGGAUCAAGUGUCUGGAGUGCGACAAGGAGUUCACCAAGAACUGCUACCUCACGCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUU
.(((((((.....(((.......))).(((((.....))))))))))))....((..((((((.....((((........))))........(((......))).))))))..))..... ( -37.40)
>DroAna_CAF1 19183 120 - 1
CCGCACUCGACCACGCUGCCGUCGGGCAGGAUCAAGUGUCUGGAGUGCGACAAGGAGUUCACCAAGAACUGCUACCUCACGCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUC
.(((((((.(.(((.(((((....)))))......)))..).)))))))....((..((((((.....((((........))))........(((......))).))))))..))..... ( -39.00)
>DroPer_CAF1 21653 120 - 1
CCGCACUCGACAACGCUGCCCUCCGGGCGGAUCAAGUGUCUGGAGUGCGACAAGGAGUUCACCAAGAACUGCUACCUCACGCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUC
.(((((((((((...((((((...))))))......))))..)))))))....((..((((((.....((((........))))........(((......))).))))))..))..... ( -42.40)
>consensus
CCGCACUCGACCACGCUGCCCUCGGGACGGAUCAAGUGUCUGGAGUGCGACAAGGAGUUCACCAAGAACUGCUACCUCACGCAGCACAACAAGAGCUUCCACUCCGGUGAGUACCCGUUC
.((((((((((.((.(((((....)).))).....)))))..)))))))....((..((((((.....((((........))))........(((......))).))))))..))..... (-34.30 = -34.50 +   0.20)

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 12:49:44 2006