Locus 1223

Sequence ID 3R_DroMel_CAF1
Location 3,698,588 – 3,698,683
Length 95
Max. P 0.826573
window2001

overview

Window 1

Location 3,698,588 – 3,698,683
Length 95
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 79.19
Mean single sequence MFE -31.40
Consensus MFE -19.77
Energy contribution -20.02
Covariance contribution 0.25
Combinations/Pair 1.21
Mean z-score -1.85
Structure conservation index 0.63
SVM decision value 0.70
SVM RNA-class probability 0.826573
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3698588 95 + 27905053
--GGCCAAUUGGCUGGUUACUCAAACAGUUUCGUUUCGGGCUCUCGGCCAAAUUGCGGCUU--GCCGCAUUUCAAUGCGGCAG----UACGUCUGUCCACCCA
--((.((.((((((((...(((((((......)))).)))...))))))))...(((..((--(((((((....)))))))))----..))).)).))..... ( -34.10)
>DroPse_CAF1 59081 99 + 1
CGAACCAAUUGGCCAGUUAGUCAAACGG----GUUUCGGGCGCUCGGCCAAACUGCGGUUUGUGUCGCAUUUCAAUGCAGCAAACAGUCCAGCUGUCCUCCCA
.(((((..(((((......)))))...)----)))).(((.(((.((((((((....))))).)))((((....)))))))..((((.....))))...))). ( -29.60)
>DroSim_CAF1 59031 95 + 1
--GGCCAAUUGGCUGGUUAGUCAAACAGUUUCGUUUCGGGCUCUCGGCCAAAUUGCGGCUU--GCCGCAUUUCAAUGCGGCAG----UACGUCCGUCCACCCA
--((.(..((((((((..((((.(((......)))...)))).))))))))...(((..((--(((((((....)))))))))----..)))..).))..... ( -33.60)
>DroYak_CAF1 54722 91 + 1
--GGCCAAUUGGCUGGUGAGUCAAACAGUUUUGUUUCGGGCUCUCGGCCAAAUUGCGGUUU--GCCGCAUUUCAAUGCGGCAG----AACGU----CCACCCA
--((....((((((((.(((((.(((......)))...)))))))))))))...(((.(((--(((((((....)))))))))----).)))----....)). ( -38.40)
>DroAna_CAF1 41799 85 + 1
---CCCAAUUGGCCAGUUAUUCAAACAGUU-----UCGGGCUCUCAGCCAAAUUGCGGUUU--GUCGCAUUUCAAUGCGGCAA----UCCAC----CCACCCA
---......(((.............(((((-----...(((.....))).))))).((.((--(((((((....)))))))))----.))..----))).... ( -23.10)
>DroPer_CAF1 64529 99 + 1
CGAACCAAUUGGCCAGUUAGUCAAACGG----GUUUCGGGCGCUCGGCCAAACUGCGGUUUGUGUCGCAUUUCAAUGCAGCAAACAGUCCAGCUGUCCUCCCA
.(((((..(((((......)))))...)----)))).(((.(((.((((((((....))))).)))((((....)))))))..((((.....))))...))). ( -29.60)
>consensus
__GGCCAAUUGGCCAGUUAGUCAAACAGUU__GUUUCGGGCUCUCGGCCAAAUUGCGGUUU__GCCGCAUUUCAAUGCGGCAA____UACAUCUGUCCACCCA
..((((..(((((......)))))..............(((.....))).......))))...(((((((....)))))))...................... (-19.77 = -20.02 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:03 2006