Locus 8075

Sequence ID X_DroMel_CAF1
Location 20,103,700 – 20,103,851
Length 151
Max. P 0.974575
window13254 window13255 window13256 window13257

overview

Window 4

Location 20,103,700 – 20,103,815
Length 115
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 89.21
Mean single sequence MFE -44.87
Consensus MFE -39.25
Energy contribution -38.37
Covariance contribution -0.88
Combinations/Pair 1.12
Mean z-score -2.62
Structure conservation index 0.87
SVM decision value 1.28
SVM RNA-class probability 0.939294
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20103700 115 + 22224390
GUUGUCCACCUGUAACCUGUUGAUAUGUACAGCCUGCAGUGCGGGCAAAGUGGGCGGAACGGAUGACCAUGGCUGCAUGCACCAGUAUAGGCCACCUGUAACGCCCACUUCCCAG
.((((((.((((((..((((........))))..))))).).))))))((((((((..((((....)).(((((..((((....)))).)))))...))..))))))))...... ( -46.60)
>DroSec_CAF1 13758 113 + 1
GUUGUCCACCUGUAACCUGUUGAUAUGUACAGCCUGCAGUGCGGGAAAAGUGGGCGGGACGGAUGACCAUGGCU--AUGCACCUGUCUAGGCCACCUGUAACGCCCACUUCCCAG
......(((.((((..((((........))))..))))))).((((..((((((((..((((.((.((..(((.--........)))..)).)).))))..)))))))))))).. ( -43.50)
>DroEre_CAF1 10723 108 + 1
GUUAUCCACCUGUAACCUGUUGAUAUGUACAGCCUGCAGUGCGGGAAAAGUGGGCGGGACGGAUGACUAUAGCU--AUGUAUAU-----GGCCGCCCGUAACGCCCACUUCCCAG
......(((.((((..((((........))))..))))))).((((..((((((((..((((.((.(((((...--.....)))-----)).)).))))..)))))))))))).. ( -44.50)
>consensus
GUUGUCCACCUGUAACCUGUUGAUAUGUACAGCCUGCAGUGCGGGAAAAGUGGGCGGGACGGAUGACCAUGGCU__AUGCACCUGU_UAGGCCACCUGUAACGCCCACUUCCCAG
......(((.((((..((((........))))..))))))).(((..(((((((((..((((.((.((...((.....)).........)).)).))))..)))))))))))).. (-39.25 = -38.37 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,103,700 – 20,103,815
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 89.21
Mean single sequence MFE -48.27
Consensus MFE -41.73
Energy contribution -42.40
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.57
Structure conservation index 0.86
SVM decision value 1.73
SVM RNA-class probability 0.974575
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20103700 115 - 22224390
CUGGGAAGUGGGCGUUACAGGUGGCCUAUACUGGUGCAUGCAGCCAUGGUCAUCCGUUCCGCCCACUUUGCCCGCACUGCAGGCUGUACAUAUCAACAGGUUACAGGUGGACAAC
..(.((((((((((..((.(((((((.....((((.......)))).))))))).))..)))))))))).)((((.(((.((.((((........)))).)).)))))))..... ( -49.80)
>DroSec_CAF1 13758 113 - 1
CUGGGAAGUGGGCGUUACAGGUGGCCUAGACAGGUGCAU--AGCCAUGGUCAUCCGUCCCGCCCACUUUUCCCGCACUGCAGGCUGUACAUAUCAACAGGUUACAGGUGGACAAC
..(..(((((((((..((.(((((((......(((....--.)))..))))))).))..)))))))))..)((((.(((.((.((((........)))).)).)))))))..... ( -49.00)
>DroEre_CAF1 10723 108 - 1
CUGGGAAGUGGGCGUUACGGGCGGCC-----AUAUACAU--AGCUAUAGUCAUCCGUCCCGCCCACUUUUCCCGCACUGCAGGCUGUACAUAUCAACAGGUUACAGGUGGAUAAC
..(..(((((((((..((((..(((.-----(((.....--...))).)))..))))..)))))))))..)((((.(((.((.((((........)))).)).)))))))..... ( -46.00)
>consensus
CUGGGAAGUGGGCGUUACAGGUGGCCUA_ACAGGUGCAU__AGCCAUGGUCAUCCGUCCCGCCCACUUUUCCCGCACUGCAGGCUGUACAUAUCAACAGGUUACAGGUGGACAAC
..(..(((((((((..((.(((((((.....................))))))).))..)))))))))..)((((.(((.((.((((........)))).)).)))))))..... (-41.73 = -42.40 +   0.67)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,103,740 – 20,103,851
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 89.43
Mean single sequence MFE -41.60
Consensus MFE -37.05
Energy contribution -36.17
Covariance contribution -0.88
Combinations/Pair 1.13
Mean z-score -2.49
Structure conservation index 0.89
SVM decision value 1.27
SVM RNA-class probability 0.938102
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20103740 111 + 22224390
GCGGGCAAAGUGGGCGGAACGGAUGACCAUGGCUGCAUGCACCAGUAUAGGCCACCUGUAACGCCCACUUCCCAGAUCUGUGAGUUUGUGGCAUUGCAAACGUUUUAUCAC
..(((..(((((((((..((((....)).(((((..((((....)))).)))))...))..)))))))))))).(((......((((((......)))))).....))).. ( -41.20)
>DroSec_CAF1 13798 109 + 1
GCGGGAAAAGUGGGCGGGACGGAUGACCAUGGCU--AUGCACCUGUCUAGGCCACCUGUAACGCCCACUUCCCAGAUCUGUGAGUUUGUGGCAUUGCAAACGUUUUAUCAC
..((((..((((((((..((((.((.((..(((.--........)))..)).)).))))..)))))))))))).(((......((((((......)))))).....))).. ( -41.30)
>DroEre_CAF1 10763 104 + 1
GCGGGAAAAGUGGGCGGGACGGAUGACUAUAGCU--AUGUAUAU-----GGCCGCCCGUAACGCCCACUUCCCAGAUCUGUGAGUUUGUGGCAUUGCAAACGUUUUAUCAC
..((((..((((((((..((((.((.(((((...--.....)))-----)).)).))))..)))))))))))).(((......((((((......)))))).....))).. ( -42.30)
>consensus
GCGGGAAAAGUGGGCGGGACGGAUGACCAUGGCU__AUGCACCUGU_UAGGCCACCUGUAACGCCCACUUCCCAGAUCUGUGAGUUUGUGGCAUUGCAAACGUUUUAUCAC
..(((..(((((((((..((((.((.((...((.....)).........)).)).))))..)))))))))))).(((......((((((......)))))).....))).. (-37.05 = -36.17 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,103,740 – 20,103,851
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 89.43
Mean single sequence MFE -41.07
Consensus MFE -34.60
Energy contribution -35.27
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.05
Structure conservation index 0.84
SVM decision value 1.36
SVM RNA-class probability 0.946125
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20103740 111 - 22224390
GUGAUAAAACGUUUGCAAUGCCACAAACUCACAGAUCUGGGAAGUGGGCGUUACAGGUGGCCUAUACUGGUGCAUGCAGCCAUGGUCAUCCGUUCCGCCCACUUUGCCCGC
((((......(((((........)))))))))......(((.((((((((..((.(((((((.....((((.......)))).))))))).))..))))))))...))).. ( -42.80)
>DroSec_CAF1 13798 109 - 1
GUGAUAAAACGUUUGCAAUGCCACAAACUCACAGAUCUGGGAAGUGGGCGUUACAGGUGGCCUAGACAGGUGCAU--AGCCAUGGUCAUCCGUCCCGCCCACUUUUCCCGC
((((......(((((........)))))))))......((((((((((((..((.(((((((......(((....--.)))..))))))).))..))))))))..)))).. ( -41.70)
>DroEre_CAF1 10763 104 - 1
GUGAUAAAACGUUUGCAAUGCCACAAACUCACAGAUCUGGGAAGUGGGCGUUACGGGCGGCC-----AUAUACAU--AGCUAUAGUCAUCCGUCCCGCCCACUUUUCCCGC
((((......(((((........)))))))))......((((((((((((..((((..(((.-----(((.....--...))).)))..))))..))))))))..)))).. ( -38.70)
>consensus
GUGAUAAAACGUUUGCAAUGCCACAAACUCACAGAUCUGGGAAGUGGGCGUUACAGGUGGCCUA_ACAGGUGCAU__AGCCAUGGUCAUCCGUCCCGCCCACUUUUCCCGC
((((......(((((........)))))))))......((((((((((((..((.(((((((.....................))))))).))..)))))))))..))).. (-34.60 = -35.27 +   0.67)

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 12:54:52 2006