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
16293 3' -51.4 NC_004084.1 + 15295 0.66 0.922372
Target:  5'- cGGCUGGcGACGG-UGAUGACcgcccagGAuaacGCCa -3'
miRNA:   3'- -CUGACU-CUGCCaACUGCUGa------CUu---CGG- -5'
16293 3' -51.4 NC_004084.1 + 44218 0.66 0.902936
Target:  5'- cGACgagcGGAUGGccGACGGCUgGGAGCUc -3'
miRNA:   3'- -CUGac--UCUGCCaaCUGCUGA-CUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 11731 0.66 0.902936
Target:  5'- cGCUGAGcaguggcgcgucAUGGUccucgaGGCGACUGAGGUg -3'
miRNA:   3'- cUGACUC------------UGCCAa-----CUGCUGACUUCGg -5'
16293 3' -51.4 NC_004084.1 + 12712 0.66 0.902936
Target:  5'- aACUGGGGCGGcau-CGAuCUGGAuGCCc -3'
miRNA:   3'- cUGACUCUGCCaacuGCU-GACUU-CGG- -5'
16293 3' -51.4 NC_004084.1 + 16645 0.67 0.888572
Target:  5'- ---cGGGGCGGgUGACGcagccGCUGGAGUg -3'
miRNA:   3'- cugaCUCUGCCaACUGC-----UGACUUCGg -5'
16293 3' -51.4 NC_004084.1 + 38596 0.67 0.883286
Target:  5'- aGCUGGGuacucgagaccgucGCGGaacgacuccccGCGGCUGAAGCCg -3'
miRNA:   3'- cUGACUC--------------UGCCaac--------UGCUGACUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 10986 0.67 0.88098
Target:  5'- gGACUgGAGgagauGCGGcUGACGA--GGAGCCg -3'
miRNA:   3'- -CUGA-CUC-----UGCCaACUGCUgaCUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 48007 0.67 0.873123
Target:  5'- cGACUgcGAGAUGGUcGACGAcCUGGacgacgacgAGCUc -3'
miRNA:   3'- -CUGA--CUCUGCCAaCUGCU-GACU---------UCGG- -5'
16293 3' -51.4 NC_004084.1 + 44304 0.67 0.865007
Target:  5'- cGCUGAGACgcaGGUcgGAC-ACUGccGCCa -3'
miRNA:   3'- cUGACUCUG---CCAa-CUGcUGACuuCGG- -5'
16293 3' -51.4 NC_004084.1 + 22669 0.68 0.848026
Target:  5'- gGAUcGAGAUGGcaGAgGcCUGggGCCa -3'
miRNA:   3'- -CUGaCUCUGCCaaCUgCuGACuuCGG- -5'
16293 3' -51.4 NC_004084.1 + 25061 0.68 0.830104
Target:  5'- aGACUc-GGCGGUUGAgGuCcGAGGCCu -3'
miRNA:   3'- -CUGAcuCUGCCAACUgCuGaCUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 49639 0.68 0.811317
Target:  5'- gGGCUccgucGAGAUGGagucGGCGuaccgGCUGAAGCCg -3'
miRNA:   3'- -CUGA-----CUCUGCCaa--CUGC-----UGACUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 22763 0.68 0.811317
Target:  5'- cGAC-GAGACGGUguucACGGCguucGAGGUCa -3'
miRNA:   3'- -CUGaCUCUGCCAac--UGCUGa---CUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 56652 0.69 0.771491
Target:  5'- gGACUG--GCGG--GACGaACUGggGCCu -3'
miRNA:   3'- -CUGACucUGCCaaCUGC-UGACuuCGG- -5'
16293 3' -51.4 NC_004084.1 + 2480 0.71 0.685449
Target:  5'- cGCgagGAGGauGaUGACGACUGAAGUCc -3'
miRNA:   3'- cUGa--CUCUgcCaACUGCUGACUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 30414 0.71 0.674329
Target:  5'- cGACgucGACGGgcGGCGACgGAAGCg -3'
miRNA:   3'- -CUGacuCUGCCaaCUGCUGaCUUCGg -5'
16293 3' -51.4 NC_004084.1 + 47175 0.73 0.540704
Target:  5'- cGACUGGGAUGcugaccggGACGGCUucucGAGGCCa -3'
miRNA:   3'- -CUGACUCUGCcaa-----CUGCUGA----CUUCGG- -5'
16293 3' -51.4 NC_004084.1 + 37977 1.14 0.001368
Target:  5'- cGACUGAGACGGUUGACGACUGAAGCCa -3'
miRNA:   3'- -CUGACUCUGCCAACUGCUGACUUCGG- -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.