Locus 3190

Sequence ID X_DroMel_CAF1
Location 8,460,332 – 8,460,483
Length 151
Max. P 0.574698
window5231 window5232

overview

Window 1

Location 8,460,332 – 8,460,444
Length 112
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 83.84
Mean single sequence MFE -37.42
Consensus MFE -25.85
Energy contribution -26.38
Covariance contribution 0.53
Combinations/Pair 1.05
Mean z-score -1.91
Structure conservation index 0.69
SVM decision value -0.01
SVM RNA-class probability 0.527738
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8460332 112 + 22224390
GCUAGUUUCUUCAGACG-CGCACAAAGCUCGUCGCUCGGCACUCGUCACUCGGCACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUC
((((((.......((((-.((.....)).))))....(((....)))))).)))....(.((((((((((.....)))))))))).).((((.(....).....))))..... ( -39.70)
>DroSec_CAF1 3403 98 + 1
GCUAGUUUCUUCAGACG-CGCACAAAGCUCGUCGCUCGGCACU--------------CGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUC
(((.((((.....((((-.((.....)).))))((.(((..((--------------.(.((((((((((.....)))))))))).)))..)))))....)))).)))..... ( -37.00)
>DroSim_CAF1 12150 105 + 1
GCUAGUUUCUUCAGACG-CGCACAAAGCUCGUCGCUCGGCACU-------CGGGACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUC
.............((((-.((.....)).))))(((((....(-------(((..((.(.((((((((((.....)))))))))).)))..))))........)))))..... ( -38.50)
>DroEre_CAF1 9717 106 + 1
GCUGGUUUCUUCAGACGGCGCACAAAGCUCAUCGCUCGGCACUU-------GGCACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUC
((((...........)))).......((((((......((.(..-------(((....(.((((((((((.....)))))))))).).)))..)))......))))))..... ( -36.40)
>DroYak_CAF1 8736 106 + 1
GCUGGUUUCUUCAGA-------CAAAGCUCGUCGCACGGCACUCGGUACUCGGUACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAGCUAAAUGAGCAAUUC
.((((.....)))).-------....((((((.((...((..(((((((...)))).)))((((((((((.....)))))))))))).((....)).))...))))))..... ( -36.10)
>DroAna_CAF1 17079 96 + 1
GCUUGGUUCUUUGGA------ACAAAGCUCGUUGCUCGUCGCUC-------GUUGUUUGGCACUCGAGCGUCCU----UCGAGUGGCAGCUCUGGAAUCUAAAUGAGCAAUUC
.....((((((((((------.((.((((.((..((((.(((((-------(.((.....))..))))))....----.))))..)))))).))...)))))).))))..... ( -36.80)
>consensus
GCUAGUUUCUUCAGACG_CGCACAAAGCUCGUCGCUCGGCACUC_______GGCACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUC
..........................((((((..........................(.((((((((((.....)))))))))).).((....))......))))))..... (-25.85 = -26.38 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 8,460,364 – 8,460,483
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.51
Mean single sequence MFE -43.27
Consensus MFE -35.01
Energy contribution -35.77
Covariance contribution 0.75
Combinations/Pair 1.07
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.08
SVM RNA-class probability 0.574698
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8460364 119 + 22224390
GCUCGGCACUCGUCACUCGGCACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUCAUGAGUUUGUUGGCAACCCUACUUGAGGAUGGUCGCAGU-
(((((((....((((..(((.(((((.((((((((((.....)))))))))).).((((.(....).....)))).......))))))).))))...(((.....)))...)))).)))- ( -42.80)
>DroSec_CAF1 3435 105 + 1
GCUCGGCACU--------------CGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUCAUGAGUUUGUUGGCAACCCUACUUGAGGGUGGUCGCAGU-
.....(((((--------------((.((((((((((.....)))))))))).).((((.(....).....)))).......)))).....(((.(((((.....))))).)))))...- ( -42.30)
>DroSim_CAF1 12182 112 + 1
GCUCGGCACU-------CGGGACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUCAUGAGUUUGUUGGCAACCCUACUUGAGGGUGGUCGCAGU-
.....((...-------..(((((((.((((((((((.....)))))))))).).((((.(....).....)))).......))))))...(((.(((((.....))))).)))))...- ( -44.80)
>DroEre_CAF1 9750 112 + 1
GCUCGGCACUU-------GGCACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUCAUGAGUUUGUUGGCAACCCUACUUGAGGGUGGUCGCGGC-
(((((((..(.-------.(((((((.((((((((((.....)))))))))).).((((.(....).....)))).......))))..))..)..(((((.....))))).)))).)))- ( -44.70)
>DroYak_CAF1 8762 119 + 1
GCACGGCACUCGGUACUCGGUACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAGCUAAAUGAGCAAUUCAUGAGUUUGUUGGCAACCCUACUUGAGGGUGGUCGCAGC-
((((((.(((((((((...))))).(.((((((((((.....)))))))))).).((((............)))).......)))))))).(((.(((((.....))))).)))))...- ( -44.10)
>DroAna_CAF1 17106 109 + 1
GCUCGUCGCUC-------GUUGUUUGGCACUCGAGCGUCCU----UCGAGUGGCAGCUCUGGAAUCUAAAUGAGCAAUUCAUGGGUUUGUUGGCAACCCUACUUGAGGGCUGCCCCUCUC
(((((.(((((-------(.((.....))..))))))....----.)))))(((((((((.((......(((((...)))))(((((.(....))))))...)).)))))))))...... ( -40.90)
>consensus
GCUCGGCACUC_______GGCACUCGGCACUCGAGCGUUCUUCGUUCGAGUGGCAGCUCUGGCAACUAAAUGAGCAAUUCAUGAGUUUGUUGGCAACCCUACUUGAGGGUGGUCGCAGU_
(((((....................(.((((((((((.....)))))))))).).((((.(....).....))))......))))).....(((.(((((.....))))).)))...... (-35.01 = -35.77 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:21 2006