miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
30571 3' -52.3 NC_006548.1 + 32004 0.66 0.786568
Target:  5'- aGCGCGCUGG-----UCGGCUAUG-Ca -3'
miRNA:   3'- aUGCGCGGCCuuucuAGCUGAUACcG- -5'
30571 3' -52.3 NC_006548.1 + 5675 0.66 0.776124
Target:  5'- gGCGUGCCGGAAgaccAGcUCGACgccAUcGCc -3'
miRNA:   3'- aUGCGCGGCCUU----UCuAGCUGa--UAcCG- -5'
30571 3' -52.3 NC_006548.1 + 15815 0.66 0.776124
Target:  5'- --aGCGCUGGAAccagggccagaGGAUCG-CUuccugGGCg -3'
miRNA:   3'- augCGCGGCCUU-----------UCUAGCuGAua---CCG- -5'
30571 3' -52.3 NC_006548.1 + 32580 0.66 0.754755
Target:  5'- -uUGCGCCGGAc---UgGGCUgAUGGCg -3'
miRNA:   3'- auGCGCGGCCUuucuAgCUGA-UACCG- -5'
30571 3' -52.3 NC_006548.1 + 17279 0.66 0.743857
Target:  5'- cUGCGCGCCGGGGAaguuccacucGGUCaGCcaacgGGCc -3'
miRNA:   3'- -AUGCGCGGCCUUU----------CUAGcUGaua--CCG- -5'
30571 3' -52.3 NC_006548.1 + 1990 0.67 0.732835
Target:  5'- aGCGCGCgCGGcugcaccaGGGGAUCGggcaccagGCcGUGGCu -3'
miRNA:   3'- aUGCGCG-GCC--------UUUCUAGC--------UGaUACCG- -5'
30571 3' -52.3 NC_006548.1 + 27976 0.67 0.732835
Target:  5'- aACGCGCCGGGAA---CG-CgcUGGCc -3'
miRNA:   3'- aUGCGCGGCCUUUcuaGCuGauACCG- -5'
30571 3' -52.3 NC_006548.1 + 25516 0.67 0.721701
Target:  5'- gGCGUGCCuc--GGcgCGAuCUGUGGCg -3'
miRNA:   3'- aUGCGCGGccuuUCuaGCU-GAUACCG- -5'
30571 3' -52.3 NC_006548.1 + 8001 0.67 0.710469
Target:  5'- aGCGCGCCGGAu-GAUgcaGGC---GGCg -3'
miRNA:   3'- aUGCGCGGCCUuuCUAg--CUGauaCCG- -5'
30571 3' -52.3 NC_006548.1 + 2086 0.67 0.699151
Target:  5'- gACGC-CCGcGAAcuGGUCGACcuUGGCg -3'
miRNA:   3'- aUGCGcGGC-CUUu-CUAGCUGauACCG- -5'
30571 3' -52.3 NC_006548.1 + 25832 0.68 0.664822
Target:  5'- cACGUGagCGGGAGGGccUUGGCUGggcUGGCa -3'
miRNA:   3'- aUGCGCg-GCCUUUCU--AGCUGAU---ACCG- -5'
30571 3' -52.3 NC_006548.1 + 20029 0.68 0.653295
Target:  5'- --aGCGCCGGAucguAGGUCGcggcgaucuccuGCaggAUGGCc -3'
miRNA:   3'- augCGCGGCCUu---UCUAGC------------UGa--UACCG- -5'
30571 3' -52.3 NC_006548.1 + 1668 0.69 0.561252
Target:  5'- -cCGgGgCGGAGAGAguuaUCGGCUG-GGCa -3'
miRNA:   3'- auGCgCgGCCUUUCU----AGCUGAUaCCG- -5'
30571 3' -52.3 NC_006548.1 + 36700 0.73 0.390538
Target:  5'- aGCGCGCCGGccucaugCGGCgcUGGCa -3'
miRNA:   3'- aUGCGCGGCCuuucua-GCUGauACCG- -5'
30571 3' -52.3 NC_006548.1 + 1131 0.75 0.297197
Target:  5'- aGCuGCGCCGGcuGGGUCGuCgacAUGGCa -3'
miRNA:   3'- aUG-CGCGGCCuuUCUAGCuGa--UACCG- -5'
30571 3' -52.3 NC_006548.1 + 11154 0.75 0.267303
Target:  5'- uUACuaGCCGGGAAuGGUCGACcgAUGGUu -3'
miRNA:   3'- -AUGcgCGGCCUUU-CUAGCUGa-UACCG- -5'
30571 3' -52.3 NC_006548.1 + 19955 0.77 0.220897
Target:  5'- gACGUGCCGGccggcgggGAGGAUUGGCagaGUGGCg -3'
miRNA:   3'- aUGCGCGGCC--------UUUCUAGCUGa--UACCG- -5'
30571 3' -52.3 NC_006548.1 + 36098 1.11 0.000872
Target:  5'- cUACGCGCCGGAAAGAUCGACUAUGGCa -3'
miRNA:   3'- -AUGCGCGGCCUUUCUAGCUGAUACCG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.