Locus 6373

Sequence ID 3R_DroMel_CAF1
Location 16,720,189 – 16,720,297
Length 108
Max. P 0.767524
window10389

overview

Window 9

Location 16,720,189 – 16,720,297
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.47
Mean single sequence MFE -17.54
Consensus MFE -4.76
Energy contribution -4.96
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.27
SVM decision value 0.52
SVM RNA-class probability 0.767524
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16720189 108 - 27905053
AGAGAAGCGC-GAAGUAAAACUGCUAAAAUAGCCAAU--CAAUGUGCGACUAAGCA-----AGCAU----AUGUAUGUAAAGAGGUAUAACUUGCGAAAAGCGAAAAGCAAACAAUAAAU
..((..((((-(.((.....))((((...))))....--...)))))..))..(((-----((...----.(((((.(....).))))).))))).....((.....))........... ( -16.70)
>DroPse_CAF1 37557 111 - 1
AGAAAAGCGCAAAAGUAAAACUGCUAAAAUAGCCUAU--CAA-GUACAUAUGUAUG-----UACAUAUGUACCUAGUUAAAGAGGUAUAACUUACAACAGGCGAAAACC-AACAAUAAAU
........(((..........))).......((((..--...-((((((((((...-----.))))))))))...(((...(((......)))..))))))).......-.......... ( -20.80)
>DroYak_CAF1 48517 108 - 1
AGAAAAGCGA-GAAGUAAAAUUGCUAAAAUAGCCAAU--CAGUGUGCGUCUAAGCA-----AGCAU----AUGUAUGUAAAGAGGUAUAACUUGCAAAAAGCGAAAAGCAAACAAUAAAU
......((((-(..........((((...))))....--...(((((.(((..(((-----.((..----..)).)))..))).))))).))))).....((.....))........... ( -21.10)
>DroAna_CAF1 31784 89 - 1
AGAGAAGCGCAAAAGUAAAACUGCUAAAAUAGCCUAU--C------------------------AU----AUGUAUGUAAAGAGGUAUAACUUUCGAGAUGCGAAAACC-AACAAUAAAU
.((...((.....((((....))))......))...)--)------------------------..----.(((((.(..((((......))))..).)))))......-.......... ( -10.60)
>DroPer_CAF1 36828 118 - 1
AGAAAAGCGCAAAAGUAAAACUGCUAAAAUAGCCUAUCUCAA-GUACAUAUAUUUACAUAUUACAUAUUUACGUAUGUAAAGAGGUAUAACUUACAACAGGCGAAAACC-AACAAUAAAU
.......(((....((((....((((...)))).((((((..-(((........)))...((((((((....)))))))).))))))....)))).....)))......-.......... ( -18.50)
>consensus
AGAAAAGCGCAAAAGUAAAACUGCUAAAAUAGCCUAU__CAA_GUACAUAUAAGCA_____AACAU____AUGUAUGUAAAGAGGUAUAACUUACAAAAAGCGAAAACC_AACAAUAAAU
.......(((............((((...))))................................................(((......))).......)))................. ( -4.76 =  -4.96 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:53 2006