Locus 4104

Sequence ID 2R_DroMel_CAF1
Location 13,500,886 – 13,500,995
Length 109
Max. P 0.749850
window6613

overview

Window 3

Location 13,500,886 – 13,500,995
Length 109
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 83.02
Mean single sequence MFE -19.64
Consensus MFE -14.11
Energy contribution -14.27
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.72
SVM decision value 0.47
SVM RNA-class probability 0.749850
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13500886 109 + 20766785
AGCACAUUUAAUUACUGCUACUUUUCU-CUAUGAA-AGAUCCC-AGU--CAG---GGACAGGAGGCGAGUCUAGACAUUAAAAACGACAAUUUAUCUAAAAAGUAAUUAAGUGCUCA
(((((..((((((((((((.(((.(((-((.((..-......)-)..--.))---))).))).)))..(((..............))).............)))))))))))))).. ( -23.94)
>DroPse_CAF1 46953 113 + 1
AGCACAUUUAAUUACUGCUACUUUUCU-CUAUGAAAAUGUCCC-AAAGCGAGCAA--GCGAGAGGCGAGUCUAGACAUUAAAAACGACAAUUUAUCUAAAAAGUAAUUAAGUGCUCA
(((((..((((((((((((.....(((-((((....)))....-...((......--)))))))))..(((..............))).............)))))))))))))).. ( -21.44)
>DroGri_CAF1 12283 94 + 1
AUCACAUUUAAUUACUGCCACUUUUCU-CUAUGAAAAUAUCUA-A---------------------GAGUCUAGCCAUUAAAAACGACAAUUUAUCUAAAAAGUAAUUAAGUGCUUA
....((((((((((((.....(((((.-....)))))......-.---------------------..(((..............))).............)))))))))))).... ( -14.34)
>DroWil_CAF1 16039 99 + 1
AGAACAUUUAAUUACUGCUACUUUUCU-CUAUGAAAAUAUCUC-UAAGAG----------------AAGUCUAGACAUUAAAAACGACAAUUUAUCUAAAAAGUAAUUAAGUGCUCA
.((.((((((((((((.(((..(((((-((..((.......))-..))))----------------)))..)))....((((........)))).......)))))))))))).)). ( -20.60)
>DroMoj_CAF1 16190 96 + 1
AGCACAUUUAAUUACUGCCACUUUUCUACUAUGAAAAUAUCUAAA---------------------GAGUCUAAACAUUAAAAACGACAAUUUAUCUAAAAAGUAAUUAAGUGCUCA
(((((..(((((((((.....(((((......)))))....((((---------------------..(((..............)))..)))).......)))))))))))))).. ( -16.24)
>DroPer_CAF1 55022 113 + 1
AGCACAUUUAAUUACUGCUACUUUUCU-CUAUGAAAAUGUCCC-AAUGCGAGCAA--GCGAGAGGCGAGUCUAGACAUUAAAAACGACAAUUUAUCUAAAAAGUAAUUAAGUGCUCA
(((((..(((((((((...((((.(((-((((....)).....-..(((......--)))))))).)))).((((...((((........))))))))...)))))))))))))).. ( -21.30)
>consensus
AGCACAUUUAAUUACUGCUACUUUUCU_CUAUGAAAAUAUCCC_AA___G________________GAGUCUAGACAUUAAAAACGACAAUUUAUCUAAAAAGUAAUUAAGUGCUCA
....((((((((((((.....(((((......)))))...............................(((..............))).............)))))))))))).... (-14.11 = -14.27 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:56 2006