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 + 673 0.7 0.907362
Target:  5'- -aCAUGAGccgCCCGGAGGGCgCGCaGGg -3'
miRNA:   3'- ccGUACUCua-GGGCUUUUUGgGCG-CC- -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 + 9860 1.13 0.004006
Target:  5'- gGGCAUGAGAUCCCGAAAAACCCGCGGc -3'
miRNA:   3'- -CCGUACUCUAGGGCUUUUUGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 10808 0.71 0.831718
Target:  5'- uGGCGUaguccgcggcGAGAUCCCGGAagacGAACUCGuCGa -3'
miRNA:   3'- -CCGUA----------CUCUAGGGCUU----UUUGGGC-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 + 14955 0.8 0.384707
Target:  5'- gGGCAaaGAGAUCCUGAGAGAUuuGUGGc -3'
miRNA:   3'- -CCGUa-CUCUAGGGCUUUUUGggCGCC- -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 + 26044 0.73 0.74693
Target:  5'- gGGCAcG-GcUCCgGGGAGGCCCGUGGg -3'
miRNA:   3'- -CCGUaCuCuAGGgCUUUUUGGGCGCC- -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 + 27533 0.71 0.848644
Target:  5'- cGGCcgGGGAUCagGAAGuugaCCGCGGa -3'
miRNA:   3'- -CCGuaCUCUAGggCUUUuug-GGCGCC- -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 + 41687 0.74 0.695557
Target:  5'- uGGuCAcGAGG-CCCuuGGAGCCCGCGGa -3'
miRNA:   3'- -CC-GUaCUCUaGGGcuUUUUGGGCGCC- -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 + 46519 0.7 0.893436
Target:  5'- uGGCGUGc-GUCCCGGucGACgguaagccgaucgCCGCGGg -3'
miRNA:   3'- -CCGUACucUAGGGCUuuUUG-------------GGCGCC- -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 + 53175 0.71 0.872427
Target:  5'- cGGCgaGUGAuGGUCCagcgCGaAGAAGCCCGCGa -3'
miRNA:   3'- -CCG--UACU-CUAGG----GC-UUUUUGGGCGCc -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 + 59250 0.73 0.775566
Target:  5'- cGGCAUGAG--CCCGAccucggcauggugGAGACCgaGCGGc -3'
miRNA:   3'- -CCGUACUCuaGGGCU-------------UUUUGGg-CGCC- -5'
20419 3' -51.4 NC_004688.1 + 61185 0.78 0.506894
Target:  5'- cGGCGagGAGAUCCgGAGGGugUCGUGGu -3'
miRNA:   3'- -CCGUa-CUCUAGGgCUUUUugGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 61892 0.66 0.983545
Target:  5'- cGGCA-GAGAUCCUuggcguaGAAccGCCCGUu- -3'
miRNA:   3'- -CCGUaCUCUAGGG-------CUUuuUGGGCGcc -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.