Locus 5520

Sequence ID 2R_DroMel_CAF1
Location 17,663,126 – 17,663,236
Length 110
Max. P 0.948820
window8845

overview

Window 5

Location 17,663,126 – 17,663,236
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.03
Mean single sequence MFE -27.07
Consensus MFE -22.68
Energy contribution -22.50
Covariance contribution -0.19
Combinations/Pair 1.09
Mean z-score -2.31
Structure conservation index 0.84
SVM decision value 1.39
SVM RNA-class probability 0.948820
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17663126 110 + 20766785
GAAUCCAAAGCGGCAAUUAAGCGGCCAAACGAGUCUAACAAUGGAAACUGCGGCCAUAAAACAGCAUGAGUGCAAAUAUGCAUACACAUA--CCAGUGAGCGA-GCUGCAAAA-------
.........(((((........((((.......((((....))))......))))........((....(((((....))))).(((...--...))).))..-)))))....------- ( -27.62)
>DroSec_CAF1 16557 112 + 1
GAAUCCAAAGCGGCAAUUAAGCGGCCAAACGAGUCUAACAAUGGAAACUGCGGCCAUAAAACAGCAUGAGUGCAAAUAUGCAUACACAUACACCAGUAAGCGA-GCUGCAAAA-------
.........(((((........((((.......((((....))))......))))........((.((.(((((....))))).))..(((....))).))..-)))))....------- ( -26.42)
>DroEre_CAF1 16948 115 + 1
GAAUCCAAAGCGGCAAUUAAGCGGCCAAACGAGUCUAACAAUGGAAACUGCGGCCAUAAAACAGCAUGAGUGCAAAUAUGCAUACACAUA--CCUGUAAGCAAA-CUGCAAAGCUGCA--
.........(((((........((((.......((((....))))......))))......(((..((..((((..((((......))))--..))))..))..-)))....))))).-- ( -28.02)
>DroYak_CAF1 28545 118 + 1
CAAUCCAAAGCGGCAAUUAAGCGGCCAAACGAGUCUAACAAUGGAAACUGAGGCCAUAAAACAGCAUGAGUGCGAAUAUGCAUACACAUA--CCUGUAAGCAAAGCUGCAAAACUGAAAA
.........(((((........((((.......((((....))))......))))........(((....))).....(((.((((....--..)))).)))..)))))........... ( -26.22)
>consensus
GAAUCCAAAGCGGCAAUUAAGCGGCCAAACGAGUCUAACAAUGGAAACUGCGGCCAUAAAACAGCAUGAGUGCAAAUAUGCAUACACAUA__CCAGUAAGCAA_GCUGCAAAA_______
.........(((((........((((.......((((....))))......))))........(((....))).....(((.(((..........))).)))..)))))........... (-22.68 = -22.50 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:34 2006