Locus 1333

Sequence ID 2R_DroMel_CAF1
Location 5,151,699 – 5,151,797
Length 98
Max. P 0.843757
window2308

overview

Window 8

Location 5,151,699 – 5,151,797
Length 98
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 72.26
Mean single sequence MFE -21.08
Consensus MFE -10.99
Energy contribution -11.43
Covariance contribution 0.44
Combinations/Pair 1.16
Mean z-score -1.76
Structure conservation index 0.52
SVM decision value 0.76
SVM RNA-class probability 0.843757
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5151699 98 + 20766785
GUCGUUCCCUAAUUAGUUAUCUAAAGUUAGUUGGCGACACUAAUGGCAGUGGCACUACAGCUACAACAACAGCAACACAACUACGACAGCAUUAGAC-U-
((((((..((((((((....)))..)))))..)))))).((((((.(.(((((......)))))......((........))......)))))))..-.- ( -23.10)
>DroPse_CAF1 26415 82 + 1
ACCG-UCUCUAAUUAGUUAUCUAAAGUUAGUUGGCGACACUAAUGGCAGUGGAAGUGCAGAAGC-------GAAA--CAAACAC--------UCGGCUAU
...(-((.(((((((..(......)..))))))).)))....(((((((((....(((....))-------)...--....)))--------)..))))) ( -17.70)
>DroSim_CAF1 13663 96 + 1
GUCGCUCCCUAAUUAGUUAUCUAAAGUUAGUUGGCGACACUAAUGGCAGUGGCACUACAACUACAGCAACAGCAA--CAACUACGCCAGCAUUAGCC-U-
((((((..((((((((....)))..)))))..)))))).((((((((.((((........)))).((....))..--.......))))...))))..-.- ( -25.90)
>DroEre_CAF1 29359 78 + 1
GCAGCUCCCUAAUUAGUUAUCUAAAGUUAGUUGGCGACACUAAUGGCAGUGGCACUACCAC--------------------UACUACAGCAUUAGCC-U-
((.(((..((((((((....)))..)))))..)))........(((.(((((.....))))--------------------).)))..)).......-.- ( -17.90)
>DroYak_CAF1 27664 78 + 1
GUCGCCCCCUAAUUAGUUAUCUAAAGUUAGUUGGCGACACUAAUGGCAGUGGCACUACAAC--------------------UACUACAGCAUUAGCC-U-
((((((..((((((((....)))..)))))..)))))).((((((..(((((........)--------------------))))....))))))..-.- ( -22.50)
>DroPer_CAF1 26127 82 + 1
ACCG-UCUCUAAUUAGUUAUCUAAAGUUAGUUGGCGACACUAAUGGCAGUGGAAGCGCAGAAGC-------GAAA--CAAACAC--------UCGGCUAU
...(-((.(((((((..(......)..))))))).)))....(((((((((....(((....))-------)...--....)))--------)..))))) ( -19.40)
>consensus
GCCGCUCCCUAAUUAGUUAUCUAAAGUUAGUUGGCGACACUAAUGGCAGUGGCACUACAAC__C_______G_AA__CAA_UAC_ACAGCAUUAGCC_U_
((((((.((...((((....)))).((((((.(....))))))))).))))))............................................... (-10.99 = -11.43 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:25 2006