miRNA display CGI


Results 1 - 20 of 113 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
16265 3' -50.9 NC_004084.1 + 49559 1.13 0.002322
Target:  5'- cCGUCGUCGACGUACUCGAAGUACCGCu -3'
miRNA:   3'- -GCAGCAGCUGCAUGAGCUUCAUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 17350 0.86 0.128371
Target:  5'- -cUCGUCGACGUACUCGcGG-ACCGCu -3'
miRNA:   3'- gcAGCAGCUGCAUGAGCuUCaUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 686 0.82 0.233394
Target:  5'- -uUCGUCGACGUcCUCGAgcGGUGCaCGCa -3'
miRNA:   3'- gcAGCAGCUGCAuGAGCU--UCAUG-GCG- -5'
16265 3' -50.9 NC_004084.1 + 53248 0.8 0.301447
Target:  5'- aGUCGUCGAUcgACUCGA-GUGCUGCc -3'
miRNA:   3'- gCAGCAGCUGcaUGAGCUuCAUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 30936 0.79 0.340839
Target:  5'- uCGcUCGUCGACGUcgaGCUCGAGGacgccgACCGUc -3'
miRNA:   3'- -GC-AGCAGCUGCA---UGAGCUUCa-----UGGCG- -5'
16265 3' -50.9 NC_004084.1 + 873 0.78 0.357606
Target:  5'- aGUCGUCGACGUcGCcgUCGGaaucGGUAUCGCu -3'
miRNA:   3'- gCAGCAGCUGCA-UG--AGCU----UCAUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 11729 0.78 0.383823
Target:  5'- aCGUCGccggCGACGUGCUCGA---AUCGCg -3'
miRNA:   3'- -GCAGCa---GCUGCAUGAGCUucaUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 54590 0.78 0.383823
Target:  5'- cCGUCGUCGGCGUcgACgaagacuggaUCGAGGUcGCCGUu -3'
miRNA:   3'- -GCAGCAGCUGCA--UG----------AGCUUCA-UGGCG- -5'
16265 3' -50.9 NC_004084.1 + 15031 0.78 0.392841
Target:  5'- aG-CGUCGACGgccACUCGAGGUGgUGCu -3'
miRNA:   3'- gCaGCAGCUGCa--UGAGCUUCAUgGCG- -5'
16265 3' -50.9 NC_004084.1 + 5563 0.78 0.392841
Target:  5'- ---aGUCGACGUugUCGAGGUcGCCaGCg -3'
miRNA:   3'- gcagCAGCUGCAugAGCUUCA-UGG-CG- -5'
16265 3' -50.9 NC_004084.1 + 36431 0.77 0.430254
Target:  5'- gCGUCGUCGACGUACgcCGucuGcACCGUg -3'
miRNA:   3'- -GCAGCAGCUGCAUGa-GCuu-CaUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 28785 0.77 0.430254
Target:  5'- gGUCGUCGACGUccggaGC-CGAcagccaGGUGCCGUu -3'
miRNA:   3'- gCAGCAGCUGCA-----UGaGCU------UCAUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 45639 0.77 0.430254
Target:  5'- gGUCGUCGACGgcguCUCGGA-UGCCGa -3'
miRNA:   3'- gCAGCAGCUGCau--GAGCUUcAUGGCg -5'
16265 3' -50.9 NC_004084.1 + 580 0.76 0.469679
Target:  5'- uGUCGUCGAUGUGCUCuucGGUGaggaCGCc -3'
miRNA:   3'- gCAGCAGCUGCAUGAGcu-UCAUg---GCG- -5'
16265 3' -50.9 NC_004084.1 + 49814 0.76 0.479822
Target:  5'- uCGUCGUCGcCGcGCaUGAAGUACCGg -3'
miRNA:   3'- -GCAGCAGCuGCaUGaGCUUCAUGGCg -5'
16265 3' -50.9 NC_004084.1 + 8288 0.75 0.517177
Target:  5'- -cUCGUCauccgGACGaucgcgggccucgACUCGAAGUACCGCg -3'
miRNA:   3'- gcAGCAG-----CUGCa------------UGAGCUUCAUGGCG- -5'
16265 3' -50.9 NC_004084.1 + 4932 0.75 0.521402
Target:  5'- uCGcCGUCGACGUACUgGAugacGU-CCGCc -3'
miRNA:   3'- -GCaGCAGCUGCAUGAgCUu---CAuGGCG- -5'
16265 3' -50.9 NC_004084.1 + 31209 0.75 0.553481
Target:  5'- aCGUCGUCG-CGaacCUCGAGGUAC-GCa -3'
miRNA:   3'- -GCAGCAGCuGCau-GAGCUUCAUGgCG- -5'
16265 3' -50.9 NC_004084.1 + 2266 0.75 0.553481
Target:  5'- cCGUUGUUGAggagguaguCGUACUCGAGGgcAUCGCg -3'
miRNA:   3'- -GCAGCAGCU---------GCAUGAGCUUCa-UGGCG- -5'
16265 3' -50.9 NC_004084.1 + 46562 0.74 0.575192
Target:  5'- uCGUCGUCGGuCGUgaACUCGA--UAUCGCc -3'
miRNA:   3'- -GCAGCAGCU-GCA--UGAGCUucAUGGCG- -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.