Locus 5365

Sequence ID 3R_DroMel_CAF1
Location 14,091,257 – 14,091,351
Length 94
Max. P 0.860515
window8743 window8744

overview

Window 3

Location 14,091,257 – 14,091,351
Length 94
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 91.26
Mean single sequence MFE -40.82
Consensus MFE -33.43
Energy contribution -33.57
Covariance contribution 0.14
Combinations/Pair 1.17
Mean z-score -2.53
Structure conservation index 0.82
SVM decision value 0.83
SVM RNA-class probability 0.860515
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14091257 94 + 27905053
CUGCGGCCGCCAUUGC----UAAAUGCCGACGCCUGCGUCGACGUCAGCGUCGGCGCCAAGUGGCUGGCCAAUUCUUGUGGGUACAUUAGCACUAAUG
.(((((((((((((..----....(((((((((..(((....)))..)))))))))...)))))).)))).((((....))))......)))...... ( -40.90)
>DroSec_CAF1 13901 94 + 1
CUGCGGCCGCCAUUGC----UAAAUGCCGACGCCUGCGUCGACGUCAGCGUCGGCGCCAAGUGGCUGGCCAAUUCUUGUGGGUACAUUAGCACUAAUG
.(((((((((((((..----....(((((((((..(((....)))..)))))))))...)))))).)))).((((....))))......)))...... ( -40.90)
>DroSim_CAF1 15297 94 + 1
CUGCGGCCGCCAUUGC----UAAAUGCCGACGCCUGCGUCGACGUCAGCGUCGGCGCCAAGUGGCUGGCCAAUUCUUGUGGGUACAUUAGCACUAAUG
.(((((((((((((..----....(((((((((..(((....)))..)))))))))...)))))).)))).((((....))))......)))...... ( -40.90)
>DroEre_CAF1 13945 94 + 1
CUGCGGCCGCCAUUGC----UAAAUGCCGACGCCUGCGUCGACGUCGGCGUCGGCGCCAAGUGGCUGGCCAAUUCUUGUGGGUACAUUAGCACUAAUG
.(((((((((((((..----....((((((((((.(((....))).))))))))))...)))))).)))).((((....))))......)))...... ( -44.70)
>DroYak_CAF1 25052 94 + 1
CUGCGGCCGCCAUUGC----UAAAUGCCGACGCCUGCGUCGACGUCAGCGUCGGCGCCAAGUGGCUGGCCAAUUCUUGUGGGUACAUUAGCACUAAUG
.(((((((((((((..----....(((((((((..(((....)))..)))))))))...)))))).)))).((((....))))......)))...... ( -40.90)
>DroAna_CAF1 13288 98 + 1
AUGCGGCCGCCAUUCCAGGGCCAACGUCGGCGACAGCGUCAGCAUCAGCAUCAGCGUCAAGUGGCGGCCCAAUUCCUGUGGGUACAUUAGUGCUAAUG
.((.((((((((((.....(((......)))(((.((....))....((....))))).)))))))))))).........(((((....))))).... ( -36.60)
>consensus
CUGCGGCCGCCAUUGC____UAAAUGCCGACGCCUGCGUCGACGUCAGCGUCGGCGCCAAGUGGCUGGCCAAUUCUUGUGGGUACAUUAGCACUAAUG
.(((((((((((((..........(((((((((..(((....)))..)))))))))...)))))).)))).((((....))))......)))...... (-33.43 = -33.57 +   0.14)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 14,091,257 – 14,091,351
Length 94
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 91.26
Mean single sequence MFE -38.73
Consensus MFE -32.17
Energy contribution -32.48
Covariance contribution 0.31
Combinations/Pair 1.23
Mean z-score -2.19
Structure conservation index 0.83
SVM decision value 0.64
SVM RNA-class probability 0.808174
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14091257 94 - 27905053
CAUUAGUGCUAAUGUACCCACAAGAAUUGGCCAGCCACUUGGCGCCGACGCUGACGUCGACGCAGGCGUCGGCAUUUA----GCAAUGGCGGCCGCAG
.....((((....))))...........((((.(((....)))((((..(((((.(((((((....)))))))..)))----))..)))))))).... ( -39.70)
>DroSec_CAF1 13901 94 - 1
CAUUAGUGCUAAUGUACCCACAAGAAUUGGCCAGCCACUUGGCGCCGACGCUGACGUCGACGCAGGCGUCGGCAUUUA----GCAAUGGCGGCCGCAG
.....((((....))))...........((((.(((....)))((((..(((((.(((((((....)))))))..)))----))..)))))))).... ( -39.70)
>DroSim_CAF1 15297 94 - 1
CAUUAGUGCUAAUGUACCCACAAGAAUUGGCCAGCCACUUGGCGCCGACGCUGACGUCGACGCAGGCGUCGGCAUUUA----GCAAUGGCGGCCGCAG
.....((((....))))...........((((.(((....)))((((..(((((.(((((((....)))))))..)))----))..)))))))).... ( -39.70)
>DroEre_CAF1 13945 94 - 1
CAUUAGUGCUAAUGUACCCACAAGAAUUGGCCAGCCACUUGGCGCCGACGCCGACGUCGACGCAGGCGUCGGCAUUUA----GCAAUGGCGGCCGCAG
.....((((....))))...........((((.(((....)))(((((((((..((....))..))))))))).....----((....)))))).... ( -41.60)
>DroYak_CAF1 25052 94 - 1
CAUUAGUGCUAAUGUACCCACAAGAAUUGGCCAGCCACUUGGCGCCGACGCUGACGUCGACGCAGGCGUCGGCAUUUA----GCAAUGGCGGCCGCAG
.....((((....))))...........((((.(((....)))((((..(((((.(((((((....)))))))..)))----))..)))))))).... ( -39.70)
>DroAna_CAF1 13288 98 - 1
CAUUAGCACUAAUGUACCCACAGGAAUUGGGCCGCCACUUGACGCUGAUGCUGAUGCUGACGCUGUCGCCGACGUUGGCCCUGGAAUGGCGGCCGCAU
.....((.........((....)).....((((((((...(((((....((....))....)).)))((((....)))).......)))))))))).. ( -32.00)
>consensus
CAUUAGUGCUAAUGUACCCACAAGAAUUGGCCAGCCACUUGGCGCCGACGCUGACGUCGACGCAGGCGUCGGCAUUUA____GCAAUGGCGGCCGCAG
.....((((....))))...........((((.(((....)))(((((((((..((....))..))))))))).................)))).... (-32.17 = -32.48 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:59 2006