miRNA display CGI


Results 1 - 20 of 42 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
24522 3' -60.8 NC_005264.1 + 156898 0.66 0.71689
Target:  5'- gGCaacGCCGCGGguucGGGCCGUGGuuAGAu -3'
miRNA:   3'- -CGgcuCGGCGCU----CCCGGCACCcuUUU- -5'
24522 3' -60.8 NC_005264.1 + 152939 0.66 0.71689
Target:  5'- cGCCGccuuucuGCCGCcAGGGC--UGGGAAGg -3'
miRNA:   3'- -CGGCu------CGGCGcUCCCGgcACCCUUUu -5'
24522 3' -60.8 NC_005264.1 + 104841 0.66 0.71689
Target:  5'- cGCCgGGGCCGCuGAGccacGGCCGccgcgcgGGGAc-- -3'
miRNA:   3'- -CGG-CUCGGCG-CUC----CCGGCa------CCCUuuu -5'
24522 3' -60.8 NC_005264.1 + 113513 0.66 0.687711
Target:  5'- gGCCGAG-CGCGAacaGCCGcGGGAGGu -3'
miRNA:   3'- -CGGCUCgGCGCUcc-CGGCaCCCUUUu -5'
24522 3' -60.8 NC_005264.1 + 43489 0.66 0.677887
Target:  5'- cGCCauuGCCGCGAuuugggggguGGGagGUGGGAGAc -3'
miRNA:   3'- -CGGcu-CGGCGCU----------CCCggCACCCUUUu -5'
24522 3' -60.8 NC_005264.1 + 162516 0.66 0.677887
Target:  5'- cGCCauuGCCGCGAuuugggggguGGGagGUGGGAGAc -3'
miRNA:   3'- -CGGcu-CGGCGCU----------CCCggCACCCUUUu -5'
24522 3' -60.8 NC_005264.1 + 116411 0.67 0.668027
Target:  5'- cGCUGAGcCCGCGGcaGGUCGcUGGGGGc- -3'
miRNA:   3'- -CGGCUC-GGCGCUc-CCGGC-ACCCUUuu -5'
24522 3' -60.8 NC_005264.1 + 21360 0.67 0.668027
Target:  5'- cCCGGGCCGCcucGGCCG-GuGGAAAGa -3'
miRNA:   3'- cGGCUCGGCGcucCCGGCaC-CCUUUU- -5'
24522 3' -60.8 NC_005264.1 + 3611 0.67 0.668027
Target:  5'- cGCCGcggggGGCCGCGAGGGC---GGGc--- -3'
miRNA:   3'- -CGGC-----UCGGCGCUCCCGgcaCCCuuuu -5'
24522 3' -60.8 NC_005264.1 + 122638 0.67 0.668027
Target:  5'- cGCCGcggggGGCCGCGAGGGC---GGGc--- -3'
miRNA:   3'- -CGGC-----UCGGCGCUCCCGgcaCCCuuuu -5'
24522 3' -60.8 NC_005264.1 + 162200 0.67 0.662099
Target:  5'- cGCgUGAGCCucuaucgcgcugccuGCGAcgcGGGCCGgcgGGGggGGg -3'
miRNA:   3'- -CG-GCUCGG---------------CGCU---CCCGGCa--CCCuuUU- -5'
24522 3' -60.8 NC_005264.1 + 43173 0.67 0.662099
Target:  5'- cGCgUGAGCCucuaucgcgcugccuGCGAcgcGGGCCGgcgGGGggGGg -3'
miRNA:   3'- -CG-GCUCGG---------------CGCU---CCCGGCa--CCCuuUU- -5'
24522 3' -60.8 NC_005264.1 + 70991 0.67 0.658141
Target:  5'- cGCCcGGUCGCaGGGGCugCGUGGGcAGGAu -3'
miRNA:   3'- -CGGcUCGGCGcUCCCG--GCACCC-UUUU- -5'
24522 3' -60.8 NC_005264.1 + 65455 0.67 0.648235
Target:  5'- cGCuCGGGCCcUGGGGGCUuuUGGGGGAu -3'
miRNA:   3'- -CG-GCUCGGcGCUCCCGGc-ACCCUUUu -5'
24522 3' -60.8 NC_005264.1 + 139321 0.67 0.638317
Target:  5'- cUCGGGUCGacAGGGCCGUacggGGGAGGAa -3'
miRNA:   3'- cGGCUCGGCgcUCCCGGCA----CCCUUUU- -5'
24522 3' -60.8 NC_005264.1 + 107609 0.67 0.638317
Target:  5'- uGCaUGAcauGCUGCGccuGGGCCGcGGGAGAAu -3'
miRNA:   3'- -CG-GCU---CGGCGCu--CCCGGCaCCCUUUU- -5'
24522 3' -60.8 NC_005264.1 + 101350 0.67 0.628394
Target:  5'- aGCCGAGaCCGCG-GGGCgCGUcGGc--- -3'
miRNA:   3'- -CGGCUC-GGCGCuCCCG-GCAcCCuuuu -5'
24522 3' -60.8 NC_005264.1 + 130979 0.67 0.618474
Target:  5'- cGCCGA-CCGCGAGGcGCUGgaagauuucagGGGGu-- -3'
miRNA:   3'- -CGGCUcGGCGCUCC-CGGCa----------CCCUuuu -5'
24522 3' -60.8 NC_005264.1 + 160360 0.68 0.605594
Target:  5'- cGCCGAccaucgucgaagcaGCCGCGAaGGCCcagcuccGGGAAGAa -3'
miRNA:   3'- -CGGCU--------------CGGCGCUcCCGGca-----CCCUUUU- -5'
24522 3' -60.8 NC_005264.1 + 41333 0.68 0.605594
Target:  5'- cGCCGAccaucgucgaagcaGCCGCGAaGGCCcagcuccGGGAAGAa -3'
miRNA:   3'- -CGGCU--------------CGGCGCUcCCGGca-----CCCUUUU- -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.