miRNA display CGI


Results 1 - 20 of 21 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
2057 3' -51.9 NC_001348.1 + 47521 0.66 0.965616
Target:  5'- aAUACCGCagguaaAC-GGUGUggGGAAGCAAa -3'
miRNA:   3'- -UAUGGCGg-----UGaCCGCAa-CCUUUGUUg -5'
2057 3' -51.9 NC_001348.1 + 62947 0.66 0.963525
Target:  5'- cAUACCGCCccccacgagcaugaaACUGGuCGcgUGGuAGACGAUc -3'
miRNA:   3'- -UAUGGCGG---------------UGACC-GCa-ACC-UUUGUUG- -5'
2057 3' -51.9 NC_001348.1 + 772 0.66 0.962083
Target:  5'- -aACCGCCGgUGGUcUUGuuuGAACGACg -3'
miRNA:   3'- uaUGGCGGUgACCGcAACc--UUUGUUG- -5'
2057 3' -51.9 NC_001348.1 + 85110 0.66 0.962083
Target:  5'- gAUGCgGCgGCaaUGGCGUUuGGAAAaacCAACg -3'
miRNA:   3'- -UAUGgCGgUG--ACCGCAA-CCUUU---GUUG- -5'
2057 3' -51.9 NC_001348.1 + 111216 0.67 0.940158
Target:  5'- -cACCGCguUgGGCGagggggguguagaUUGGAAGCGACg -3'
miRNA:   3'- uaUGGCGguGaCCGC-------------AACCUUUGUUG- -5'
2057 3' -51.9 NC_001348.1 + 118576 0.67 0.940158
Target:  5'- -cACCGCguUgGGCGagggggguguagaUUGGAAGCGACg -3'
miRNA:   3'- uaUGGCGguGaCCGC-------------AACCUUUGUUG- -5'
2057 3' -51.9 NC_001348.1 + 106862 0.68 0.930249
Target:  5'- gAUAcCCGCCucUUGGCcUUGGAAACcACa -3'
miRNA:   3'- -UAU-GGCGGu-GACCGcAACCUUUGuUG- -5'
2057 3' -51.9 NC_001348.1 + 122929 0.68 0.930249
Target:  5'- gAUAcCCGCCucUUGGCcUUGGAAACcACa -3'
miRNA:   3'- -UAU-GGCGGu-GACCGcAACCUUUGuUG- -5'
2057 3' -51.9 NC_001348.1 + 54708 0.68 0.925219
Target:  5'- uUACUGuCCACUGGacuguaagcugaaugGUUGGAGACAc- -3'
miRNA:   3'- uAUGGC-GGUGACCg--------------CAACCUUUGUug -5'
2057 3' -51.9 NC_001348.1 + 124185 0.68 0.906234
Target:  5'- -gGCCGCgGagacGGUGUUGGAggggAGCGACg -3'
miRNA:   3'- uaUGGCGgUga--CCGCAACCU----UUGUUG- -5'
2057 3' -51.9 NC_001348.1 + 105607 0.68 0.906234
Target:  5'- -gGCCGCgGagacGGUGUUGGAggggAGCGACg -3'
miRNA:   3'- uaUGGCGgUga--CCGCAACCU----UUGUUG- -5'
2057 3' -51.9 NC_001348.1 + 3510 0.69 0.868784
Target:  5'- cGUACCGagucaauggucaCGCUGGCucccgcggUGGAGACGACu -3'
miRNA:   3'- -UAUGGCg-----------GUGACCGca------ACCUUUGUUG- -5'
2057 3' -51.9 NC_001348.1 + 42800 0.69 0.862431
Target:  5'- --cCCGCCGCguUGGCGUUuucGGGAucauccccGCAACa -3'
miRNA:   3'- uauGGCGGUG--ACCGCAA---CCUU--------UGUUG- -5'
2057 3' -51.9 NC_001348.1 + 123467 0.7 0.85428
Target:  5'- -cGCCgGUUGCUGGUGUUGGAcGCggUg -3'
miRNA:   3'- uaUGG-CGGUGACCGCAACCUuUGuuG- -5'
2057 3' -51.9 NC_001348.1 + 106737 0.7 0.85428
Target:  5'- -aAUCGCCGCUcggcguccgGGCGgaGGAGAcCGACg -3'
miRNA:   3'- uaUGGCGGUGA---------CCGCaaCCUUU-GUUG- -5'
2057 3' -51.9 NC_001348.1 + 106325 0.7 0.85428
Target:  5'- -cGCCgGUUGCUGGUGUUGGAcGCggUg -3'
miRNA:   3'- uaUGG-CGGUGACCGCAACCUuUGuuG- -5'
2057 3' -51.9 NC_001348.1 + 123055 0.7 0.85428
Target:  5'- -aAUCGCCGCUcggcguccgGGCGgaGGAGAcCGACg -3'
miRNA:   3'- uaUGGCGGUGA---------CCGCaaCCUUU-GUUG- -5'
2057 3' -51.9 NC_001348.1 + 81352 0.71 0.810313
Target:  5'- gGUACagagaGaCCACUGGCGUUGGuucccgcuAUAACg -3'
miRNA:   3'- -UAUGg----C-GGUGACCGCAACCuu------UGUUG- -5'
2057 3' -51.9 NC_001348.1 + 16529 0.73 0.696341
Target:  5'- uUACCGCCGuCUccaaagccucgccgGGCGUUGGAAuaaGACa -3'
miRNA:   3'- uAUGGCGGU-GA--------------CCGCAACCUUug-UUG- -5'
2057 3' -51.9 NC_001348.1 + 33168 0.75 0.591689
Target:  5'- gAUACCaacaGCCugaagauCUGGCGUUGGAuaaaAACGACa -3'
miRNA:   3'- -UAUGG----CGGu------GACCGCAACCU----UUGUUG- -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.