miRNA display CGI


Results 1 - 20 of 26 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
30472 3' -51 NC_006548.1 + 17560 0.66 0.842814
Target:  5'- gCGCAGUUGGgucguccaguugccGACGACaGGCUgcaUCGCu -3'
miRNA:   3'- gGCGUCGACUaa------------CUGUUG-CCGA---AGUG- -5'
30472 3' -51 NC_006548.1 + 12188 0.66 0.84189
Target:  5'- gCGCAuGCUGAgugggGACuguCGGCgccgaUCGCu -3'
miRNA:   3'- gGCGU-CGACUaa---CUGuu-GCCGa----AGUG- -5'
30472 3' -51 NC_006548.1 + 29588 0.66 0.841889
Target:  5'- cCUGCGGCgGAggUGACAGCaGCagcucccgUCACc -3'
miRNA:   3'- -GGCGUCGaCUa-ACUGUUGcCGa-------AGUG- -5'
30472 3' -51 NC_006548.1 + 26986 0.66 0.822877
Target:  5'- cCCcCAaCUGAUcGAgGGCGGCUUUACc -3'
miRNA:   3'- -GGcGUcGACUAaCUgUUGCCGAAGUG- -5'
30472 3' -51 NC_006548.1 + 36440 0.66 0.813025
Target:  5'- aCGCGGCUGA---GCAGCGcGUagUUCAUc -3'
miRNA:   3'- gGCGUCGACUaacUGUUGC-CG--AAGUG- -5'
30472 3' -51 NC_006548.1 + 18715 0.67 0.80296
Target:  5'- cCUGCGGC-GGUUGuCGccAUGGCUuUCGCa -3'
miRNA:   3'- -GGCGUCGaCUAACuGU--UGCCGA-AGUG- -5'
30472 3' -51 NC_006548.1 + 33872 0.67 0.80296
Target:  5'- gCGCGGCcggUGAgcGACGAUGGaCggCGCa -3'
miRNA:   3'- gGCGUCG---ACUaaCUGUUGCC-GaaGUG- -5'
30472 3' -51 NC_006548.1 + 7301 0.67 0.792694
Target:  5'- -gGC-GCUGggUGAUGACGGCagaCACg -3'
miRNA:   3'- ggCGuCGACuaACUGUUGCCGaa-GUG- -5'
30472 3' -51 NC_006548.1 + 33961 0.67 0.760813
Target:  5'- gCGCAGCUGuaccgUGGCGcuCGGCcgUCGa -3'
miRNA:   3'- gGCGUCGACua---ACUGUu-GCCGa-AGUg -5'
30472 3' -51 NC_006548.1 + 23783 0.68 0.74987
Target:  5'- cUCGCAGUUGggUGAUcgugccaaguucGGCGGCgcCGCc -3'
miRNA:   3'- -GGCGUCGACuaACUG------------UUGCCGaaGUG- -5'
30472 3' -51 NC_006548.1 + 32487 0.68 0.74987
Target:  5'- cCUGCAGCgccgcGAacGGCAACGGCggCGa -3'
miRNA:   3'- -GGCGUCGa----CUaaCUGUUGCCGaaGUg -5'
30472 3' -51 NC_006548.1 + 15993 0.68 0.74987
Target:  5'- aCGaCGGCUGcg-GGCAACauccGCUUCACu -3'
miRNA:   3'- gGC-GUCGACuaaCUGUUGc---CGAAGUG- -5'
30472 3' -51 NC_006548.1 + 29697 0.68 0.748769
Target:  5'- -gGCGGCUGGcUGuccucgaucaccaGCAuguuCGGCUUCGCc -3'
miRNA:   3'- ggCGUCGACUaAC-------------UGUu---GCCGAAGUG- -5'
30472 3' -51 NC_006548.1 + 16525 0.68 0.737678
Target:  5'- gCCGCAGcCUGGUcgaucgGGCGAucaccgcCGGCUUcCACc -3'
miRNA:   3'- -GGCGUC-GACUAa-----CUGUU-------GCCGAA-GUG- -5'
30472 3' -51 NC_006548.1 + 36799 0.69 0.658622
Target:  5'- gUCGCcgAGCUGGUgcggcuCAGCaGCUUCACg -3'
miRNA:   3'- -GGCG--UCGACUAacu---GUUGcCGAAGUG- -5'
30472 3' -51 NC_006548.1 + 13095 0.69 0.658622
Target:  5'- gCUGCAGCUGcagGUUGAgCAGCGcaGCgUCACc -3'
miRNA:   3'- -GGCGUCGAC---UAACU-GUUGC--CGaAGUG- -5'
30472 3' -51 NC_006548.1 + 18780 0.69 0.646954
Target:  5'- cCUGCGGCUGGgcgagGAUcuGCGGCagggUCGCu -3'
miRNA:   3'- -GGCGUCGACUaa---CUGu-UGCCGa---AGUG- -5'
30472 3' -51 NC_006548.1 + 30542 0.69 0.646954
Target:  5'- cCCGCgGGCUGuaGUUGACGAaGGCUguccagaaaUCGCc -3'
miRNA:   3'- -GGCG-UCGAC--UAACUGUUgCCGA---------AGUG- -5'
30472 3' -51 NC_006548.1 + 35699 0.7 0.635271
Target:  5'- gCUGCGGCUGAUccgUGACGACuaCgacgUCGCg -3'
miRNA:   3'- -GGCGUCGACUA---ACUGUUGccGa---AGUG- -5'
30472 3' -51 NC_006548.1 + 18461 0.71 0.54262
Target:  5'- uUCGCAGCcGGUucgggUGGCAGCGGCguggUCu- -3'
miRNA:   3'- -GGCGUCGaCUA-----ACUGUUGCCGa---AGug -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.