miRNA display CGI


Results 1 - 20 of 31 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
22582 3' -51.8 NC_005091.1 + 943 0.72 0.536827
Target:  5'- -cGCGuACGA---CCCGGAAGCCGUc -3'
miRNA:   3'- uuUGCuUGCUaauGGGCCUUCGGCGu -5'
22582 3' -51.8 NC_005091.1 + 52597 0.67 0.832829
Target:  5'- cGGACGAagcAUGAgaacaGCCCGGAaucccacaagccgacAGCCGCc -3'
miRNA:   3'- -UUUGCU---UGCUaa---UGGGCCU---------------UCGGCGu -5'
22582 3' -51.8 NC_005091.1 + 10316 0.67 0.83831
Target:  5'- cGAGCGGucguACGAUUuuCCCGGAAGaguaCUGCGc -3'
miRNA:   3'- -UUUGCU----UGCUAAu-GGGCCUUC----GGCGU- -5'
22582 3' -51.8 NC_005091.1 + 10129 0.67 0.843709
Target:  5'- gAGACGGACG-UUACgCCGGcacgcgccgagcGCCGCAc -3'
miRNA:   3'- -UUUGCUUGCuAAUG-GGCCuu----------CGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 14732 0.66 0.864438
Target:  5'- -uGCGAGCGccguagcACCCGGA-GUCGUAg -3'
miRNA:   3'- uuUGCUUGCuaa----UGGGCCUuCGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 2017 0.66 0.864438
Target:  5'- uGGCGAACGAcgAauaUGGuGAGCCGCAg -3'
miRNA:   3'- uUUGCUUGCUaaUgg-GCC-UUCGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 22819 0.66 0.872646
Target:  5'- cGGCGcGGCGA-UAUCCGGAGcgaacGCCGCu -3'
miRNA:   3'- uUUGC-UUGCUaAUGGGCCUU-----CGGCGu -5'
22582 3' -51.8 NC_005091.1 + 14102 0.66 0.894936
Target:  5'- -cACGaAGCGGUUccggccgguaguaGCCgGGAGGUCGCc -3'
miRNA:   3'- uuUGC-UUGCUAA-------------UGGgCCUUCGGCGu -5'
22582 3' -51.8 NC_005091.1 + 20396 0.66 0.895663
Target:  5'- cGAGCagGAGCGGUcGCCCGuuGAAGuuGCu -3'
miRNA:   3'- -UUUG--CUUGCUAaUGGGC--CUUCggCGu -5'
22582 3' -51.8 NC_005091.1 + 34069 0.67 0.829129
Target:  5'- --uCGGGCGGcaGCUCGGAcucgauagcGGCCGCGu -3'
miRNA:   3'- uuuGCUUGCUaaUGGGCCU---------UCGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 8899 0.67 0.819729
Target:  5'- cAAGCGGAucacCGAagACCCGuacGAAGCUGCGg -3'
miRNA:   3'- -UUUGCUU----GCUaaUGGGC---CUUCGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 57531 0.69 0.737987
Target:  5'- cGAAUGGACGcccgGCCCGGAuucGCCGa- -3'
miRNA:   3'- -UUUGCUUGCuaa-UGGGCCUu--CGGCgu -5'
22582 3' -51.8 NC_005091.1 + 22338 0.69 0.705133
Target:  5'- cGGGCGAagACGAaacaCCGGAuAGCCGCGa -3'
miRNA:   3'- -UUUGCU--UGCUaaugGGCCU-UCGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 14797 0.69 0.706241
Target:  5'- cAGCG-ACGA-UACCCGGAucggggacgagacccGCCGCAu -3'
miRNA:   3'- uUUGCuUGCUaAUGGGCCUu--------------CGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 14917 0.69 0.706241
Target:  5'- cAGCG-ACGA-UACCCGGAucggggacgagacccGCCGCAu -3'
miRNA:   3'- uUUGCuUGCUaAUGGGCCUu--------------CGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 15036 0.69 0.706241
Target:  5'- cAGCG-ACGA-UACCCGGAucggggacgagacccGCCGCAu -3'
miRNA:   3'- uUUGCuUGCUaAUGGGCCUu--------------CGGCGU- -5'
22582 3' -51.8 NC_005091.1 + 30304 0.69 0.716177
Target:  5'- --uCGAACGGcUUGCCCGGu-GCgGCGu -3'
miRNA:   3'- uuuGCUUGCU-AAUGGGCCuuCGgCGU- -5'
22582 3' -51.8 NC_005091.1 + 4189 0.69 0.723855
Target:  5'- cGAGCGGAUGuccaagguccugucGUUGCCCGGcGGCgCGCc -3'
miRNA:   3'- -UUUGCUUGC--------------UAAUGGGCCuUCG-GCGu -5'
22582 3' -51.8 NC_005091.1 + 137 0.69 0.737987
Target:  5'- cGAAUGGACGcccgGCCCGGAuucGCCGa- -3'
miRNA:   3'- -UUUGCUUGCuaa-UGGGCCUu--CGGCgu -5'
22582 3' -51.8 NC_005091.1 + 9367 0.69 0.737987
Target:  5'- cGACGG--GAcUAUCCGGAGGCCGUu -3'
miRNA:   3'- uUUGCUugCUaAUGGGCCUUCGGCGu -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.