miRNA display CGI


Results 1 - 19 of 19 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
14639 3' -54.5 NC_003521.1 + 5700 0.68 0.95506
Target:  5'- --aUCACCAUCccgGGGGCugucuaucgcuagGGGGUGGuAGu -3'
miRNA:   3'- agaAGUGGUAGa--CCCUG-------------CCCUACC-UC- -5'
14639 3' -54.5 NC_003521.1 + 24899 0.68 0.933797
Target:  5'- --cUCACCAUgCcgcGGGacGCGGGAUGGAc -3'
miRNA:   3'- agaAGUGGUA-Ga--CCC--UGCCCUACCUc -5'
14639 3' -54.5 NC_003521.1 + 30972 0.66 0.981211
Target:  5'- cUCggCACgCAgcagcagCUGcGGAuCGGGAUGGGGc -3'
miRNA:   3'- -AGaaGUG-GUa------GAC-CCU-GCCCUACCUC- -5'
14639 3' -54.5 NC_003521.1 + 52402 0.66 0.979095
Target:  5'- cCUUCuuCGUCgcgGaGGAUGGGAgUGGGGu -3'
miRNA:   3'- aGAAGugGUAGa--C-CCUGCCCU-ACCUC- -5'
14639 3' -54.5 NC_003521.1 + 57679 0.67 0.968844
Target:  5'- ---aCACCGUCUGGGucugcACGgGGAUGcGAc -3'
miRNA:   3'- agaaGUGGUAGACCC-----UGC-CCUAC-CUc -5'
14639 3' -54.5 NC_003521.1 + 59343 0.69 0.925676
Target:  5'- cCUUCACCGagCUGGGAUGGGccgucugcgccgacUGGGa -3'
miRNA:   3'- aGAAGUGGUa-GACCCUGCCCu-------------ACCUc -5'
14639 3' -54.5 NC_003521.1 + 59658 0.71 0.827338
Target:  5'- gCUUCGCCcucuAUCUGGaGACGGaGAcccagauccUGGAGa -3'
miRNA:   3'- aGAAGUGG----UAGACC-CUGCC-CU---------ACCUC- -5'
14639 3' -54.5 NC_003521.1 + 93959 0.68 0.955439
Target:  5'- gCUUCcuCC-UCUGGG-CGGGAggggcGGAGg -3'
miRNA:   3'- aGAAGu-GGuAGACCCuGCCCUa----CCUC- -5'
14639 3' -54.5 NC_003521.1 + 123055 0.66 0.976806
Target:  5'- ---cCACCAUgcugCUGGGACGGcGGcggcGGAGg -3'
miRNA:   3'- agaaGUGGUA----GACCCUGCC-CUa---CCUC- -5'
14639 3' -54.5 NC_003521.1 + 137782 0.66 0.974083
Target:  5'- gUCUgcagCACCugcgcauGUCUGGGuACGGcuaccguaccGAUGGAGc -3'
miRNA:   3'- -AGAa---GUGG-------UAGACCC-UGCC----------CUACCUC- -5'
14639 3' -54.5 NC_003521.1 + 151389 0.66 0.979095
Target:  5'- ---aCGCCGUUcugcgGGGACGGGuagGGAc -3'
miRNA:   3'- agaaGUGGUAGa----CCCUGCCCua-CCUc -5'
14639 3' -54.5 NC_003521.1 + 172909 0.66 0.984957
Target:  5'- gUCcUCGuCCuUCUGGGAgGaGGAgGGAGg -3'
miRNA:   3'- -AGaAGU-GGuAGACCCUgC-CCUaCCUC- -5'
14639 3' -54.5 NC_003521.1 + 196719 0.66 0.983163
Target:  5'- aCUUCACCGgc-GGcGACGGuGGUGGcGg -3'
miRNA:   3'- aGAAGUGGUagaCC-CUGCC-CUACCuC- -5'
14639 3' -54.5 NC_003521.1 + 197125 0.71 0.866346
Target:  5'- cCUUCagagaaGCCAUCUGGGACGuGGcccugcUGGAa -3'
miRNA:   3'- aGAAG------UGGUAGACCCUGC-CCu-----ACCUc -5'
14639 3' -54.5 NC_003521.1 + 211195 0.7 0.873566
Target:  5'- uUCUUCGCguUCcuccgGGGGCGGGuUGGuGa -3'
miRNA:   3'- -AGAAGUGguAGa----CCCUGCCCuACCuC- -5'
14639 3' -54.5 NC_003521.1 + 222743 0.7 0.880579
Target:  5'- cUCgcgCGCCGUCUGGGcuACGGccacggcgucGGUGGGGu -3'
miRNA:   3'- -AGaa-GUGGUAGACCC--UGCC----------CUACCUC- -5'
14639 3' -54.5 NC_003521.1 + 235372 1.09 0.006971
Target:  5'- cUCUUCACCAUCUGGGACGGGAUGGAGu -3'
miRNA:   3'- -AGAAGUGGUAGACCCUGCCCUACCUC- -5'
14639 3' -54.5 NC_003521.1 + 235830 0.67 0.971688
Target:  5'- --gUCAgCGUCUGacGCGGGAUGGuGa -3'
miRNA:   3'- agaAGUgGUAGACccUGCCCUACCuC- -5'
14639 3' -54.5 NC_003521.1 + 236120 0.75 0.639061
Target:  5'- cUCUUgACUGUUUcGGGACGGGAcGGGGg -3'
miRNA:   3'- -AGAAgUGGUAGA-CCCUGCCCUaCCUC- -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.