Locus 2946

Sequence ID 3R_DroMel_CAF1
Location 7,879,183 – 7,879,299
Length 116
Max. P 0.544792
window4743

overview

Window 3

Location 7,879,183 – 7,879,299
Length 116
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 82.86
Mean single sequence MFE -26.23
Consensus MFE -19.77
Energy contribution -19.25
Covariance contribution -0.52
Combinations/Pair 1.25
Mean z-score -1.44
Structure conservation index 0.75
SVM decision value 0.02
SVM RNA-class probability 0.544792
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7879183 116 - 27905053
AAACAAGUCGCGACAUUUUAAGAAUAUUAAAGUAGUUUUCUAAAUGGCUGACCCCGGUCACAUCUUGGAAAUAUUAUUAUGACCCCACUGAGUGGAAAAUU--ACUUCGCUUGUUGCA
.........((((((.(((((.....)))))(((((((((((..((((((....))))))..((.(((..(((....)))....)))..)).)))))))))--))......)))))). ( -26.50)
>DroSec_CAF1 10695 116 - 1
AAACAAGUUGCGACAUUUUAAGAAUAUUAAAGUAGCUUUCUCAAUGGCUGACCCCGGUCACAUCUUGGAAAUAUUAUUAUGACCCCACUGAGUGGAAAAUU--ACUUCGCUUGUUGCA
........((((((.((((((((..........((((........))))(((....)))...))))))))...................(((((((.....--..))))))))))))) ( -24.80)
>DroSim_CAF1 10939 116 - 1
AAACAAGUUGCGACAUUUUAAGAAUAUUAAAGUAGCUUUCUAAAUGGCUGACCCCGGUCACAUCUUGGAAAUAUUAUUAUGACCCCACUGAGUGGAAAAUU--ACUUCGCUUGUUGCA
........((((((.((((((((..........((((........))))(((....)))...))))))))...................(((((((.....--..))))))))))))) ( -24.80)
>DroEre_CAF1 11151 116 - 1
AAACUAGUUGCGACAAUUUAAGAAUAUGAAAGUUGCUUUCUAAAUGGCUGACCCCGGUCACAUCUUGGAAAUAUUAUUAUGACCCCACUGAGCGGAAAAUU--ACUUCGCUUGUUGCA
........((((((..(((((((....(((((...)))))....((((((....))))))..)))))))....................(((((((.....--..))))))))))))) ( -26.60)
>DroYak_CAF1 11028 116 - 1
AAACAAGUUGCGACACUUUAAGAAUAUGAAAGUAGUUUUCUAAAUGGCUGACCCCGGUCACAUCUUGGAAAUAUUAUUAUGACCCCACUGAGUGGAAAAUU--ACUUCGCUUGUUGCA
........((((((((.....).....(((.(((((((((((..((((((....))))))..((.(((..(((....)))....)))..)).)))))))))--)))))...))))))) ( -25.80)
>DroPer_CAF1 6665 97 - 1
AAUCA--UUUCAAC-------------------AUUUUUCGCUUUUACUGGCCUGGGCCACAUAAGGGAAAUAUGAUUAUGGGGCAGCUAAGUGGAAUAUAUCCUUUCGCUUGUUGCA
..(((--(.....(-------------------((.((((.(((....((((....))))...))).)))).)))...)))).(((((.((((((((.......))))))))))))). ( -28.90)
>consensus
AAACAAGUUGCGACAUUUUAAGAAUAUUAAAGUAGCUUUCUAAAUGGCUGACCCCGGUCACAUCUUGGAAAUAUUAUUAUGACCCCACUGAGUGGAAAAUU__ACUUCGCUUGUUGCA
.........(((((......................(((((((...(.((((....)))))...)))))))..................(((((((.........)))))))))))). (-19.77 = -19.25 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:28 2006