miRNA display CGI


Results 1 - 20 of 25 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
27121 5' -51.2 NC_005832.1 + 101726 0.66 0.983084
Target:  5'- -aGAGUcUGCcguuGAGAAgCUGGUGG-GGu -3'
miRNA:   3'- gcCUCA-ACGu---UUCUUgGACCACCaCC- -5'
27121 5' -51.2 NC_005832.1 + 75378 0.66 0.980968
Target:  5'- gGGAGaaaacuGGGACCUGGUGGa-- -3'
miRNA:   3'- gCCUCaacguuUCUUGGACCACCacc -5'
27121 5' -51.2 NC_005832.1 + 37029 0.67 0.967341
Target:  5'- uCGGGGUcgGUguAGuuUCUGGUGGUGu -3'
miRNA:   3'- -GCCUCAa-CGuuUCuuGGACCACCACc -5'
27121 5' -51.2 NC_005832.1 + 76216 0.67 0.963948
Target:  5'- aGGGGUUGac---GGCCUGGUGGg-- -3'
miRNA:   3'- gCCUCAACguuucUUGGACCACCacc -5'
27121 5' -51.2 NC_005832.1 + 20410 0.67 0.960316
Target:  5'- uGGGGUUGC---GGACgCUGGgGGUGa -3'
miRNA:   3'- gCCUCAACGuuuCUUG-GACCaCCACc -5'
27121 5' -51.2 NC_005832.1 + 140 0.68 0.942814
Target:  5'- gGGAGgaGUggGGGAUCUGGUuugggagGaGUGGg -3'
miRNA:   3'- gCCUCaaCGuuUCUUGGACCA-------C-CACC- -5'
27121 5' -51.2 NC_005832.1 + 42528 0.68 0.933227
Target:  5'- uCGGGGgcggacgcgUGCugcuccaugaGGAGGGCCgccaugcucUGGUGGUGGa -3'
miRNA:   3'- -GCCUCa--------ACG----------UUUCUUGG---------ACCACCACC- -5'
27121 5' -51.2 NC_005832.1 + 8996 0.68 0.933227
Target:  5'- aGGAGagGCAAGuuuGCCUGaGgcgGGUGGa -3'
miRNA:   3'- gCCUCaaCGUUUcu-UGGAC-Ca--CCACC- -5'
27121 5' -51.2 NC_005832.1 + 48795 0.68 0.933227
Target:  5'- cCGaGAGUgGCAAgagaagGGAGCCacGGUGGUGa -3'
miRNA:   3'- -GC-CUCAaCGUU------UCUUGGa-CCACCACc -5'
27121 5' -51.2 NC_005832.1 + 75667 0.69 0.922103
Target:  5'- aCGGAcuugGUAGAGuGCCUGGUGGa-- -3'
miRNA:   3'- -GCCUcaa-CGUUUCuUGGACCACCacc -5'
27121 5' -51.2 NC_005832.1 + 100734 0.69 0.918559
Target:  5'- cCGGAGUagaguccauuaggauUaGCGAAGAcagguACCUGGUGGcagaGGa -3'
miRNA:   3'- -GCCUCA---------------A-CGUUUCU-----UGGACCACCa---CC- -5'
27121 5' -51.2 NC_005832.1 + 1501 0.69 0.903433
Target:  5'- -aGAGUUGCAGu--GCCUGG-GGUcGGg -3'
miRNA:   3'- gcCUCAACGUUucuUGGACCaCCA-CC- -5'
27121 5' -51.2 NC_005832.1 + 16757 0.69 0.896688
Target:  5'- uGGAGUcgGCAAcacgguccuGGAGCCagcccUGGcGGUGGa -3'
miRNA:   3'- gCCUCAa-CGUU---------UCUUGG-----ACCaCCACC- -5'
27121 5' -51.2 NC_005832.1 + 23079 0.7 0.889687
Target:  5'- uGGAGgcUGCGGGGuACgaGGUGGUGc -3'
miRNA:   3'- gCCUCa-ACGUUUCuUGgaCCACCACc -5'
27121 5' -51.2 NC_005832.1 + 54672 0.7 0.882435
Target:  5'- -cGAGUggGaCAGGGAcGCCUGGUGuGUGGu -3'
miRNA:   3'- gcCUCAa-C-GUUUCU-UGGACCAC-CACC- -5'
27121 5' -51.2 NC_005832.1 + 46072 0.7 0.879465
Target:  5'- gGGAGUgcgccuuuauagaGCAGGGAGCCgacucuauugUGGcGGUGGg -3'
miRNA:   3'- gCCUCAa------------CGUUUCUUGG----------ACCaCCACC- -5'
27121 5' -51.2 NC_005832.1 + 1469 0.7 0.872639
Target:  5'- aGGGGUUGCcgugaggaccaagaGGGGGGCCU-GUGGcUGGg -3'
miRNA:   3'- gCCUCAACG--------------UUUCUUGGAcCACC-ACC- -5'
27121 5' -51.2 NC_005832.1 + 7230 0.72 0.80594
Target:  5'- gCGGAGgaacacccgUGCGAGGAccacuuuGCCUGGagggagagGGUGGc -3'
miRNA:   3'- -GCCUCa--------ACGUUUCU-------UGGACCa-------CCACC- -5'
27121 5' -51.2 NC_005832.1 + 55828 0.73 0.748226
Target:  5'- uCGGAGccgGUcAGGGccGCCgUGGUGGUGGg -3'
miRNA:   3'- -GCCUCaa-CGuUUCU--UGG-ACCACCACC- -5'
27121 5' -51.2 NC_005832.1 + 6323 0.73 0.748226
Target:  5'- aCGGAGgggacgcgGCGGGGAAgCUGGUGGa-- -3'
miRNA:   3'- -GCCUCaa------CGUUUCUUgGACCACCacc -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.