Locus 5945

Sequence ID 3R_DroMel_CAF1
Location 15,673,279 – 15,673,387
Length 108
Max. P 0.627575
window9702

overview

Window 2

Location 15,673,279 – 15,673,387
Length 108
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 80.79
Mean single sequence MFE -32.43
Consensus MFE -20.99
Energy contribution -21.38
Covariance contribution 0.40
Combinations/Pair 1.42
Mean z-score -1.59
Structure conservation index 0.65
SVM decision value 0.19
SVM RNA-class probability 0.627575
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15673279 108 + 27905053
UUAGCCGCCCUGGCGGCUUUCAUCAAACUACGUUCCGCGGAAAACCCUGUGAAUGCAGUUAGCCUAAAAAGGCGCAUGGUAAAUUAAUAGCGUGAAAAGCGUUAACA----A
..((((((....))))))...((((((((.(((((.((((......))))))))).)))).((((....))))...)))).......((((((.....))))))...----. ( -34.30)
>DroSec_CAF1 201158 108 + 1
AUGGCCGCCCUGGCGGCUUUCAUUAAACUACGGUCCGCGGAAAACCCUGUGAAUGCAGUUAGCCUAAAAAGGCGCAUGGUAAAUUAAUAGCGUGGGAAGCGUUAACA----A
..((((((....))))))........((....)).(((((......)))))(((((.....((((....)))).((((.((......)).))))....)))))....----. ( -31.60)
>DroSim_CAF1 197180 108 + 1
UUGGCCGCCCUGGCGGCUUUCAUUAAACUACGGUCCGCGGAAAACCCUGUGAAUGCAGUUAGCCUAAAAAGGCGCAUGGUAAAUUAAUAGCGUGGGAAGCGUUAACA----A
..((((((....))))))........((....)).(((((......)))))(((((.....((((....)))).((((.((......)).))))....)))))....----. ( -31.60)
>DroEre_CAF1 178560 108 + 1
UUGGCCGCCCUGGCUACUUUUAUUAAAUUACGGUCCGCGGAAAAUCCCGUGAACGCCGUUAGCCUUAAAAGGCGCAUGGUAAAUGAGCCGCUUGAAAAGCGUUAACA----A
(((((......((((...(((((((....(((((.(((((......)))))...)))))..((((....))))...)))))))..))))(((.....))))))))..----. ( -32.10)
>DroYak_CAF1 200053 108 + 1
UUGGCCGCCCUGGCGGCUUUCAUUAAACUACGGUCCGCGGAAAAUCCCGUGAAUGCAGUUAGCCUUAAGAGGCGCAUGGUAAAUGAAGGGCGUGAAAAUCGUUCGCA----A
..((((((....))))))((((((.((((.((...(((((......)))))..)).)))).((((....))))........))))))((((((....).)))))...----. ( -35.40)
>DroPer_CAF1 231491 111 + 1
GUGGCGGCAGUAAUUGCAUUCAUAAAGCUCCGUGCCCUGGACAAUACCGUGAAUGCAGUUAGCCUGAAGAAACGCAUGGUAAAUAUGU-CCAUAAAAAACCGCAACAGAAUA
((.((((((((((((((((((((...((.....))...((......)))))))))))))))..))).........((((.........-))))......)))).))...... ( -29.60)
>consensus
UUGGCCGCCCUGGCGGCUUUCAUUAAACUACGGUCCGCGGAAAACCCCGUGAAUGCAGUUAGCCUAAAAAGGCGCAUGGUAAAUUAAUAGCGUGAAAAGCGUUAACA____A
..((((((....)))))).((((..((((.((...(((((......)))))..)).)))).((((....))))..))))........((((((.....))))))........ (-20.99 = -21.38 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:37 2006