Locus 2633

Sequence ID X_DroMel_CAF1
Location 7,032,121 – 7,032,212
Length 91
Max. P 0.583619
window4315 window4316

overview

Window 5

Location 7,032,121 – 7,032,212
Length 91
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 81.17
Mean single sequence MFE -32.03
Consensus MFE -20.88
Energy contribution -22.22
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.65
SVM decision value 0.03
SVM RNA-class probability 0.549969
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7032121 91 + 22224390
GUUUUUUCUUGGGC---UUGUGCCAUUGA---UGACCAGGAAAG----CUGGGCGUGGCCGGCAUGCCCCGUCAAU-UGCCCAACUUGGGCAGGGUUUUUUC
(((...((...(((---....)))...))---.)))..((((((----(((((((((.....)))))))......(-(((((.....)))))))))))))). ( -32.60)
>DroVir_CAF1 104695 87 + 1
GCCUGGGCCUGUGCCUGUGGUGCCAUUGA---UGACCACAAAAA----CUGGGCGUGGCUGGCAUGCCCC-UCAAUUCACCCAACUUGGGCAUGG-------
(((..((...(((..((((((........---..))))))....----..(((((((.....))))))).-......)))....))..)))....------- ( -29.50)
>DroSec_CAF1 23623 90 + 1
UUUUUUUCUUGGGC---UUGUGCCAUUGA---UGACCAGGAAAG----CUGGGCGUG-CCGGCAUGCCCCGUCAAU-UGCCCAACUUGGGCAGGGUUUUUUC
......((...(((---....)))...))---.((((......(----(.(((((((-....))))))).))...(-(((((.....))))))))))..... ( -32.50)
>DroEre_CAF1 23674 91 + 1
GUUUUUUCUUGGGC---UUGUGCCAUUGA---UGACCAGGAAAG----CUGGGCGUGGCCGGCAUGCCCCGUCAAU-UGCCCAACUUGGGCAGGGUUUUUUU
(((...((...(((---....)))...))---.))).(((((((----(((((((((.....)))))))......(-(((((.....))))))))))))))) ( -33.10)
>DroYak_CAF1 21735 90 + 1
-UUUUUUCUUGGGC---UUGUGCCAUUGA---UGACCAGGAAAG----CUGGGCGUGGCCGGCAUGCCCCGUCAAU-UGCCCAACUUGGGCAGGGUUUUUUC
-.....((...(((---....)))...))---.((((......(----(.(((((((.....))))))).))...(-(((((.....))))))))))..... ( -31.50)
>DroAna_CAF1 68109 81 + 1
-----------GCG---UUGUGCCAUUGAUGAUGACCAGGAAAGAGUCAUGGGCGUGGCCGGCAUGCCCCGUCAAU-UGCCCAACUUGGGCAGGGU------
-----------...---....(((.((((((((((((......).)))))(((((((.....)))))))))))))(-(((((.....)))))))))------ ( -33.00)
>consensus
GUUUUUUCUUGGGC___UUGUGCCAUUGA___UGACCAGGAAAG____CUGGGCGUGGCCGGCAUGCCCCGUCAAU_UGCCCAACUUGGGCAGGGUUUUUUC
...........(((.......))).........((((.............(((((((.....)))))))........(((((.....))))).))))..... (-20.88 = -22.22 +   1.33)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,032,121 – 7,032,212
Length 91
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 81.17
Mean single sequence MFE -27.09
Consensus MFE -17.54
Energy contribution -17.27
Covariance contribution -0.28
Combinations/Pair 1.13
Mean z-score -1.56
Structure conservation index 0.65
SVM decision value 0.10
SVM RNA-class probability 0.583619
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7032121 91 - 22224390
GAAAAAACCCUGCCCAAGUUGGGCA-AUUGACGGGGCAUGCCGGCCACGCCCAG----CUUUCCUGGUCA---UCAAUGGCACAA---GCCCAAGAAAAAAC
..........(((((.....)))))-.......((((.(((((.......((((----.....))))...---....)))))...---)))).......... ( -27.34)
>DroVir_CAF1 104695 87 - 1
-------CCAUGCCCAAGUUGGGUGAAUUGA-GGGGCAUGCCAGCCACGCCCAG----UUUUUGUGGUCA---UCAAUGGCACCACAGGCACAGGCCCAGGC
-------.(((((((.((((.....))))..-.)))))))...(((..(((..(----(.(((((((((.---......).)))))))).)).)))...))) ( -29.60)
>DroSec_CAF1 23623 90 - 1
GAAAAAACCCUGCCCAAGUUGGGCA-AUUGACGGGGCAUGCCGG-CACGCCCAG----CUUUCCUGGUCA---UCAAUGGCACAA---GCCCAAGAAAAAAA
..........(((((.....)))))-.......((((.(((((.-.....((((----.....))))...---....)))))...---)))).......... ( -26.92)
>DroEre_CAF1 23674 91 - 1
AAAAAAACCCUGCCCAAGUUGGGCA-AUUGACGGGGCAUGCCGGCCACGCCCAG----CUUUCCUGGUCA---UCAAUGGCACAA---GCCCAAGAAAAAAC
..........(((((.....)))))-.......((((.(((((.......((((----.....))))...---....)))))...---)))).......... ( -27.34)
>DroYak_CAF1 21735 90 - 1
GAAAAAACCCUGCCCAAGUUGGGCA-AUUGACGGGGCAUGCCGGCCACGCCCAG----CUUUCCUGGUCA---UCAAUGGCACAA---GCCCAAGAAAAAA-
..........(((((.....)))))-.......((((.(((((.......((((----.....))))...---....)))))...---)))).........- ( -27.34)
>DroAna_CAF1 68109 81 - 1
------ACCCUGCCCAAGUUGGGCA-AUUGACGGGGCAUGCCGGCCACGCCCAUGACUCUUUCCUGGUCAUCAUCAAUGGCACAA---CGC-----------
------.((((((((.....)))))-......)))...(((((((...))).((((((.......)))))).......))))...---...----------- ( -24.00)
>consensus
GAAAAAACCCUGCCCAAGUUGGGCA_AUUGACGGGGCAUGCCGGCCACGCCCAG____CUUUCCUGGUCA___UCAAUGGCACAA___GCCCAAGAAAAAAC
..........(((((.....)))))........((((.((.....)).))))..............((((.......))))..................... (-17.54 = -17.27 +  -0.28)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:43 2006