miRNA display CGI


Results 1 - 20 of 35 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
23207 3' -57.7 NC_005259.1 + 57753 1.11 0.000547
Target:  5'- gCGAUGUUGCGAGCCGCGAGCGCCUGCu -3'
miRNA:   3'- -GCUACAACGCUCGGCGCUCGCGGACG- -5'
23207 3' -57.7 NC_005259.1 + 36221 0.79 0.116263
Target:  5'- gCGAUGc--CGAGCaccuuggccagCGCGAGCGCCUGCg -3'
miRNA:   3'- -GCUACaacGCUCG-----------GCGCUCGCGGACG- -5'
23207 3' -57.7 NC_005259.1 + 11122 0.77 0.148226
Target:  5'- aCGGUGacggUGCGAGCCGU---CGCCUGCg -3'
miRNA:   3'- -GCUACa---ACGCUCGGCGcucGCGGACG- -5'
23207 3' -57.7 NC_005259.1 + 28973 0.77 0.16055
Target:  5'- uCGGUGc--CGAgGCCGCGAGCGCCcGCu -3'
miRNA:   3'- -GCUACaacGCU-CGGCGCUCGCGGaCG- -5'
23207 3' -57.7 NC_005259.1 + 10783 0.73 0.274385
Target:  5'- uCGAg---GUGGGCCGCGAGCGCaaugucguaguccUUGCg -3'
miRNA:   3'- -GCUacaaCGCUCGGCGCUCGCG-------------GACG- -5'
23207 3' -57.7 NC_005259.1 + 31732 0.72 0.318027
Target:  5'- aGGUGaccGCGccuGCCGCGAGCGCUgGUg -3'
miRNA:   3'- gCUACaa-CGCu--CGGCGCUCGCGGaCG- -5'
23207 3' -57.7 NC_005259.1 + 38932 0.71 0.352625
Target:  5'- uCGGUGUUGCuGugcccggugccgcuGCCGcCGAGaGCCUGCa -3'
miRNA:   3'- -GCUACAACG-Cu-------------CGGC-GCUCgCGGACG- -5'
23207 3' -57.7 NC_005259.1 + 41424 0.71 0.382857
Target:  5'- aCGAUGUgcaCGGGCCGCcauuuGCGCCccGCg -3'
miRNA:   3'- -GCUACAac-GCUCGGCGcu---CGCGGa-CG- -5'
23207 3' -57.7 NC_005259.1 + 49418 0.7 0.418408
Target:  5'- uCGAUGccaGCGAGaaaCCgGCGAGCGCC-GCc -3'
miRNA:   3'- -GCUACaa-CGCUC---GG-CGCUCGCGGaCG- -5'
23207 3' -57.7 NC_005259.1 + 58586 0.7 0.418408
Target:  5'- gCGcgGcUGcCGGGCCGgaucuuuuCGAGCGCCUGg -3'
miRNA:   3'- -GCuaCaAC-GCUCGGC--------GCUCGCGGACg -5'
23207 3' -57.7 NC_005259.1 + 23321 0.7 0.434113
Target:  5'- uCGGUGUcGcCGAGCCGgauuacaucgggcuCGAGgcUGCCUGCg -3'
miRNA:   3'- -GCUACAaC-GCUCGGC--------------GCUC--GCGGACG- -5'
23207 3' -57.7 NC_005259.1 + 29021 0.69 0.450154
Target:  5'- gCGGUGUcugcggucgaacccUGaccaacgacgaGAGCCGCGAGCGCgguaucggcccgauCUGCg -3'
miRNA:   3'- -GCUACA--------------ACg----------CUCGGCGCUCGCG--------------GACG- -5'
23207 3' -57.7 NC_005259.1 + 58754 0.69 0.475303
Target:  5'- gCGAaGUUcgGCGAacgacGCUGCGGGCGCUgUGCg -3'
miRNA:   3'- -GCUaCAA--CGCU-----CGGCGCUCGCGG-ACG- -5'
23207 3' -57.7 NC_005259.1 + 49651 0.69 0.485161
Target:  5'- gCGAUG--GCG-GCCuCGAuacGCGCCUGCu -3'
miRNA:   3'- -GCUACaaCGCuCGGcGCU---CGCGGACG- -5'
23207 3' -57.7 NC_005259.1 + 45964 0.68 0.546158
Target:  5'- cCGAcGUUGcCGAGCUugGCGAGUGUguccgcguacauCUGCg -3'
miRNA:   3'- -GCUaCAAC-GCUCGG--CGCUCGCG------------GACG- -5'
23207 3' -57.7 NC_005259.1 + 55750 0.68 0.535799
Target:  5'- uGGUGUcgagaccgUGCGcAGCCGCGuacGCGUCgaGCu -3'
miRNA:   3'- gCUACA--------ACGC-UCGGCGCu--CGCGGa-CG- -5'
23207 3' -57.7 NC_005259.1 + 37564 0.68 0.525509
Target:  5'- cCGAUGUcgacUGCucGCCGCccGCGCCgaucUGCa -3'
miRNA:   3'- -GCUACA----ACGcuCGGCGcuCGCGG----ACG- -5'
23207 3' -57.7 NC_005259.1 + 47055 0.68 0.515295
Target:  5'- gCGAgcgUGUUgGUGAGCgagGCGAGCGCCgagacgauggGCa -3'
miRNA:   3'- -GCU---ACAA-CGCUCGg--CGCUCGCGGa---------CG- -5'
23207 3' -57.7 NC_005259.1 + 51764 0.68 0.505161
Target:  5'- ---cGUUGCGcuCgGCGAGCGCCUu- -3'
miRNA:   3'- gcuaCAACGCucGgCGCUCGCGGAcg -5'
23207 3' -57.7 NC_005259.1 + 3299 0.68 0.525509
Target:  5'- cCGGUcccucgGCGAGCgcugcgucgaCGUGAGCGCCggGCa -3'
miRNA:   3'- -GCUAcaa---CGCUCG----------GCGCUCGCGGa-CG- -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.