Locus 5336

Sequence ID 3R_DroMel_CAF1
Location 13,999,725 – 13,999,825
Length 100
Max. P 0.684557
window8699

overview

Window 9

Location 13,999,725 – 13,999,825
Length 100
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 67.27
Mean single sequence MFE -39.43
Consensus MFE -13.36
Energy contribution -15.33
Covariance contribution 1.98
Combinations/Pair 1.57
Mean z-score -1.87
Structure conservation index 0.34
SVM decision value 0.31
SVM RNA-class probability 0.684557
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13999725 100 + 27905053
GGGCGCUGCUAGCGGCAGCAAUUCACUUGUGUCCACUUUGGCACAACAUUUCUCGGCGGCCACAUCCGCCGCAGCAUCGGCGGCAGCCGCUGCGGCAUCC
((..(((((.((((((..........(((((((......)))))))........(((((......)))))((.((....)).)).)))))))))))..)) ( -44.50)
>DroEre_CAF1 262251 100 + 1
AGGCCCUGCUAGUGGCGGCAACUCACUUGUGUCUACUUUGGCACAACACUUCUCGGCGGCCACAUCCGCCGCAGCAUCAGCGGCAGCCGCUGCGGCAUCC
.(((((((..(((((.(....).)..(((((((......)))))))))))...))).))))......((((((((....((....)).)))))))).... ( -44.00)
>DroYak_CAF1 286479 100 + 1
AGGCCAUGCUAGUGGGGGCAACUCACUUGUGUCCACUUUGGCGCAACACUUUUCGGCGGCCACAUCCGCCGCAGCAUCAGCGGCAGCCGCUGCUGCAUCU
..((((....((((((.((((.....)))).)))))).))))...........((((((......))))))..(((.((((((...)))))).))).... ( -43.20)
>DroMoj_CAF1 363289 92 + 1
--G---UGGCAGCAGUGGCAGCUCUUUGGUGUCCACCUUGGCGCAGCACUUCUCGGCAGCAAGCUCAGCGGGCUCGCUGCUCA---GCACCGCAACAGCC
--.---.(((.((.(((((.((.((..(((....)))..)).)).))....((.((((((.((((.....)))).)))))).)---)))).))....))) ( -34.50)
>DroAna_CAF1 260404 100 + 1
UGCCCCAACGAGCGCCGGAACCUCGCUGGUCUCUACACUGGCUCAGCACUUUUCGGCGGCCACUUCGGCGGCUGCUUCUGCGGCAGCUGCAGCUGCUUCU
.((......(((((((((((....(((((((........))).))))...)))))))((((.(....).))))))))..))((((((....))))))... ( -40.90)
>DroPer_CAF1 357560 85 + 1
AAGCACAGGCAGUGGUGGAAAUUCGCUUGUAUCCACAUUGGCGCAACACUUCUCGGCGGCCACAUCGGCUGCAGCAGCAGCU---------------GCC
.......((((((.(((((.((......)).)))))....((((....(.....)((((((.....)))))).)).)).)))---------------))) ( -29.50)
>consensus
AGGCCCUGCUAGCGGCGGCAACUCACUUGUGUCCACUUUGGCGCAACACUUCUCGGCGGCCACAUCCGCCGCAGCAUCAGCGGCAGCCGCUGCGGCAUCC
..........(((((.(....)))))).(((((......)))))...........(((((.......))))).((..(((((.....)))))..)).... (-13.36 = -15.33 +   1.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:16 2006