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
18270 3' -54.9 NC_004681.1 + 27763 0.66 0.811254
Target:  5'- gCGGCAgcgGCGGcagcGGCGGCgCUaaGGUGCu -3'
miRNA:   3'- -GCCGUa--UGCCca--CCGCUG-GAa-CUACG- -5'
18270 3' -54.9 NC_004681.1 + 17411 0.66 0.811254
Target:  5'- aCGGCcgccccACGGGUGGCG-CCaacAUGUg -3'
miRNA:   3'- -GCCGua----UGCCCACCGCuGGaacUACG- -5'
18270 3' -54.9 NC_004681.1 + 18549 0.66 0.801962
Target:  5'- uGGCc--CGGuUGGCGACCUccAUGCc -3'
miRNA:   3'- gCCGuauGCCcACCGCUGGAacUACG- -5'
18270 3' -54.9 NC_004681.1 + 28948 0.66 0.801962
Target:  5'- aCGGCAUACGGaGuUGGUGACaca---GCa -3'
miRNA:   3'- -GCCGUAUGCC-C-ACCGCUGgaacuaCG- -5'
18270 3' -54.9 NC_004681.1 + 2434 0.67 0.78288
Target:  5'- uGGCGcGCGGcacgcagaaGUGGgcgcCGACCUcGGUGCa -3'
miRNA:   3'- gCCGUaUGCC---------CACC----GCUGGAaCUACG- -5'
18270 3' -54.9 NC_004681.1 + 64766 0.67 0.78288
Target:  5'- aGGCccagcuugGCGGGaucguccgguaUGGCGAUCUgGGUGUa -3'
miRNA:   3'- gCCGua------UGCCC-----------ACCGCUGGAaCUACG- -5'
18270 3' -54.9 NC_004681.1 + 50097 0.67 0.78288
Target:  5'- aCGGCGcGCGGGaUGGUGGUCUccagggUGAUGa -3'
miRNA:   3'- -GCCGUaUGCCC-ACCGCUGGA------ACUACg -5'
18270 3' -54.9 NC_004681.1 + 42419 0.67 0.77311
Target:  5'- uGcGCGUggGCGGGgaUGGUGAgCUUGAcgaUGCu -3'
miRNA:   3'- gC-CGUA--UGCCC--ACCGCUgGAACU---ACG- -5'
18270 3' -54.9 NC_004681.1 + 6843 0.67 0.753162
Target:  5'- uCGGCcgACuggucgauGGUGGCuagGGCCUUGGUGa -3'
miRNA:   3'- -GCCGuaUGc-------CCACCG---CUGGAACUACg -5'
18270 3' -54.9 NC_004681.1 + 18236 0.67 0.753162
Target:  5'- gGGCGUG-GGGaacgGGcCGACCUgacccGGUGCc -3'
miRNA:   3'- gCCGUAUgCCCa---CC-GCUGGAa----CUACG- -5'
18270 3' -54.9 NC_004681.1 + 34536 0.67 0.753162
Target:  5'- gCGGCAccgucaucUGGGauggcaucaUGGCGACCUgcgccaagGGUGCa -3'
miRNA:   3'- -GCCGUau------GCCC---------ACCGCUGGAa-------CUACG- -5'
18270 3' -54.9 NC_004681.1 + 42450 0.68 0.732743
Target:  5'- gCGGCAcuUGCGGcUGGUGGCaUUGGaGCg -3'
miRNA:   3'- -GCCGU--AUGCCcACCGCUGgAACUaCG- -5'
18270 3' -54.9 NC_004681.1 + 7255 0.68 0.722383
Target:  5'- gGGC--GCGGGUGucgaGCG-CCUUGGacUGCa -3'
miRNA:   3'- gCCGuaUGCCCAC----CGCuGGAACU--ACG- -5'
18270 3' -54.9 NC_004681.1 + 25006 0.68 0.711938
Target:  5'- uCGGCGgcaaGGGUGGCGAcacggucuucacCCUUG--GCg -3'
miRNA:   3'- -GCCGUaug-CCCACCGCU------------GGAACuaCG- -5'
18270 3' -54.9 NC_004681.1 + 19186 0.68 0.711938
Target:  5'- gGGUGUccUGGGUGGUGACgCcgGAUGCc -3'
miRNA:   3'- gCCGUAu-GCCCACCGCUG-GaaCUACG- -5'
18270 3' -54.9 NC_004681.1 + 16355 0.68 0.701418
Target:  5'- gCGGCGgu-GGGUGGCGACgagGgcGCc -3'
miRNA:   3'- -GCCGUaugCCCACCGCUGgaaCuaCG- -5'
18270 3' -54.9 NC_004681.1 + 75423 0.68 0.698249
Target:  5'- uGGCGUGCGcagaggccacgucuGGUGGCuuucgcuccGCaCUUGGUGCa -3'
miRNA:   3'- gCCGUAUGC--------------CCACCGc--------UG-GAACUACG- -5'
18270 3' -54.9 NC_004681.1 + 44820 0.69 0.669513
Target:  5'- aGGCGccGCagguGGUGGUGACgcgCUUGGUGCg -3'
miRNA:   3'- gCCGUa-UGc---CCACCGCUG---GAACUACG- -5'
18270 3' -54.9 NC_004681.1 + 42962 0.69 0.658797
Target:  5'- aGGCAcgcgcUGCaGGUGuaGACCUUGgcGCc -3'
miRNA:   3'- gCCGU-----AUGcCCACcgCUGGAACuaCG- -5'
18270 3' -54.9 NC_004681.1 + 62367 0.69 0.649132
Target:  5'- uCGGCGgugaucuugcccccgGCGcGGUGGacgaaGACCUUGGcgaUGCg -3'
miRNA:   3'- -GCCGUa--------------UGC-CCACCg----CUGGAACU---ACG- -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.