miRNA display CGI


Results 1 - 20 of 34 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
20419 3' -51.4 NC_004688.1 + 101961 0.66 0.985589
Target:  5'- uGGCAUGAGAgCCgaCGAGGuAACCauCGGu -3'
miRNA:   3'- -CCGUACUCUaGG--GCUUU-UUGGgcGCC- -5'
20419 3' -51.4 NC_004688.1 + 26385 0.66 0.983739
Target:  5'- cGCcgGAGcUgCCGGAccggccaucgccGAGCCCGCGc -3'
miRNA:   3'- cCGuaCUCuAgGGCUU------------UUUGGGCGCc -5'
20419 3' -51.4 NC_004688.1 + 61892 0.66 0.983545
Target:  5'- cGGCA-GAGAUCCUuggcguaGAAccGCCCGUu- -3'
miRNA:   3'- -CCGUaCUCUAGGG-------CUUuuUGGGCGcc -5'
20419 3' -51.4 NC_004688.1 + 84394 0.66 0.979278
Target:  5'- aGGCAgGGGA-CCCGGccgacgcGAAugcugguCCCGUGGa -3'
miRNA:   3'- -CCGUaCUCUaGGGCU-------UUUu------GGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 20039 0.67 0.971703
Target:  5'- gGGCGgcAGcUUCCGGaacGAAGCCgGCGGg -3'
miRNA:   3'- -CCGUacUCuAGGGCU---UUUUGGgCGCC- -5'
20419 3' -51.4 NC_004688.1 + 49214 0.67 0.971703
Target:  5'- uGUcgGGGcgUCCGAAAGgauuGCCCGCa- -3'
miRNA:   3'- cCGuaCUCuaGGGCUUUU----UGGGCGcc -5'
20419 3' -51.4 NC_004688.1 + 45466 0.67 0.965433
Target:  5'- gGGUAUGAGGaucggccuucaUUCCGAAAucGAUUgGCGGu -3'
miRNA:   3'- -CCGUACUCU-----------AGGGCUUU--UUGGgCGCC- -5'
20419 3' -51.4 NC_004688.1 + 76983 0.68 0.958245
Target:  5'- aGGCGUGuGGGUCCuCGG--GugCCGCa- -3'
miRNA:   3'- -CCGUAC-UCUAGG-GCUuuUugGGCGcc -5'
20419 3' -51.4 NC_004688.1 + 1876 0.68 0.950095
Target:  5'- uGGCuuuuauuGGUCuuGAGGAuggugccagGCCCGCGGu -3'
miRNA:   3'- -CCGuacu---CUAGggCUUUU---------UGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 74374 0.68 0.949226
Target:  5'- cGGCuccacacccggGAGAUgCCGAuGAugCCGuCGGa -3'
miRNA:   3'- -CCGua---------CUCUAgGGCUuUUugGGC-GCC- -5'
20419 3' -51.4 NC_004688.1 + 13824 0.68 0.940948
Target:  5'- aGCcgGAGAguguUCCuCGGAGGAUuucgCCGCGGc -3'
miRNA:   3'- cCGuaCUCU----AGG-GCUUUUUG----GGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 54349 0.68 0.940948
Target:  5'- uGCAucguccUGAGAgcCCCGucGAAGGCCCaGCGGu -3'
miRNA:   3'- cCGU------ACUCUa-GGGC--UUUUUGGG-CGCC- -5'
20419 3' -51.4 NC_004688.1 + 30346 0.69 0.938006
Target:  5'- gGGCAggccguuuuugaaggUGAccucgCCCGAGAuguAUCCGCGGg -3'
miRNA:   3'- -CCGU---------------ACUcua--GGGCUUUu--UGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 61982 0.69 0.932897
Target:  5'- cGGCGUcccGcacgccgccaaucgaAGAUCCCGAcguuGCCgCGCGGg -3'
miRNA:   3'- -CCGUA---C---------------UCUAGGGCUuuu-UGG-GCGCC- -5'
20419 3' -51.4 NC_004688.1 + 68194 0.7 0.907362
Target:  5'- cGGCG-GAGAugUCCUGAcaggGGAAUCCGCcGGu -3'
miRNA:   3'- -CCGUaCUCU--AGGGCU----UUUUGGGCG-CC- -5'
20419 3' -51.4 NC_004688.1 + 673 0.7 0.907362
Target:  5'- -aCAUGAGccgCCCGGAGGGCgCGCaGGg -3'
miRNA:   3'- ccGUACUCua-GGGCUUUUUGgGCG-CC- -5'
20419 3' -51.4 NC_004688.1 + 96298 0.7 0.894124
Target:  5'- aGGCGaaAGGUCCCcggcc-CCCGCGGg -3'
miRNA:   3'- -CCGUacUCUAGGGcuuuuuGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 46519 0.7 0.893436
Target:  5'- uGGCGUGc-GUCCCGGucGACgguaagccgaucgCCGCGGg -3'
miRNA:   3'- -CCGUACucUAGGGCUuuUUG-------------GGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 85470 0.7 0.892745
Target:  5'- uGGCGUGAaagCCCGAAuuacaguauccACCCGgGGa -3'
miRNA:   3'- -CCGUACUcuaGGGCUUuu---------UGGGCgCC- -5'
20419 3' -51.4 NC_004688.1 + 110687 0.7 0.88642
Target:  5'- uGGCAUGGcGAUUgCGAccgccugAGAGCCaCGUGGa -3'
miRNA:   3'- -CCGUACU-CUAGgGCU-------UUUUGG-GCGCC- -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.