miRNA display CGI


Results 1 - 20 of 33 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
19538 3' -58.4 NC_004685.1 + 61654 1.12 0.000531
Target:  5'- cGGGUGACGUACAGCCCGUCGCCCAGGu -3'
miRNA:   3'- -CCCACUGCAUGUCGGGCAGCGGGUCC- -5'
19538 3' -58.4 NC_004685.1 + 66995 0.66 0.677292
Target:  5'- cGGUGAUGgcggcgacaGCGGCCgCGUCucCCCAGa -3'
miRNA:   3'- cCCACUGCa--------UGUCGG-GCAGc-GGGUCc -5'
19538 3' -58.4 NC_004685.1 + 2226 0.66 0.677292
Target:  5'- uGGGUGccGgGUGCcagaccuGCCUGcCGCCCGGc -3'
miRNA:   3'- -CCCAC--UgCAUGu------CGGGCaGCGGGUCc -5'
19538 3' -58.4 NC_004685.1 + 50567 0.66 0.624153
Target:  5'- cGGaUGACGUugGcgaugugaGCCUccgucguGUUGCCCAGGu -3'
miRNA:   3'- cCC-ACUGCAugU--------CGGG-------CAGCGGGUCC- -5'
19538 3' -58.4 NC_004685.1 + 62180 0.67 0.562936
Target:  5'- cGGGUacGGCuUGCGGCCCG-CGCCUu-- -3'
miRNA:   3'- -CCCA--CUGcAUGUCGGGCaGCGGGucc -5'
19538 3' -58.4 NC_004685.1 + 53078 0.68 0.532385
Target:  5'- cGGUGGaGcGCAGCUCGUCGgCCCAc- -3'
miRNA:   3'- cCCACUgCaUGUCGGGCAGC-GGGUcc -5'
19538 3' -58.4 NC_004685.1 + 48323 0.68 0.522331
Target:  5'- cGGGUccagcugccgucGGCcugaauCGGCCCGUCGCaCAGGg -3'
miRNA:   3'- -CCCA------------CUGcau---GUCGGGCAGCGgGUCC- -5'
19538 3' -58.4 NC_004685.1 + 31881 0.68 0.512351
Target:  5'- aGGUGcCGUACGGUUCGcCGUacuaCCAGGu -3'
miRNA:   3'- cCCACuGCAUGUCGGGCaGCG----GGUCC- -5'
19538 3' -58.4 NC_004685.1 + 3115 0.69 0.482908
Target:  5'- aGGGUGACGUccugggugaGGCCguCGUCGCUCAu- -3'
miRNA:   3'- -CCCACUGCAug-------UCGG--GCAGCGGGUcc -5'
19538 3' -58.4 NC_004685.1 + 1155 0.7 0.426646
Target:  5'- aGGGUGGCccucggccaucGUGCAGCggcaGUCGUCCAGc -3'
miRNA:   3'- -CCCACUG-----------CAUGUCGgg--CAGCGGGUCc -5'
19538 3' -58.4 NC_004685.1 + 22967 0.73 0.28374
Target:  5'- cGGUGA-GUACAGCCCGaCGCUgcucagucagauCAGGg -3'
miRNA:   3'- cCCACUgCAUGUCGGGCaGCGG------------GUCC- -5'
19538 3' -58.4 NC_004685.1 + 55833 0.73 0.277019
Target:  5'- gGGGUcGACGUGCaucAGCUCGcCGCCCGu- -3'
miRNA:   3'- -CCCA-CUGCAUG---UCGGGCaGCGGGUcc -5'
19538 3' -58.4 NC_004685.1 + 58554 0.78 0.129271
Target:  5'- uGGUGGCGU-CGGCCaccgCGCCCAGGu -3'
miRNA:   3'- cCCACUGCAuGUCGGgca-GCGGGUCC- -5'
19538 3' -58.4 NC_004685.1 + 51604 0.68 0.552694
Target:  5'- cGGUcaGCuucUGCGGCCCGaaGCCCAGGu -3'
miRNA:   3'- cCCAc-UGc--AUGUCGGGCagCGGGUCC- -5'
19538 3' -58.4 NC_004685.1 + 19964 0.67 0.582529
Target:  5'- cGGGUucagcugGACGcuggACaaGGCCCG-CGCCCGGu -3'
miRNA:   3'- -CCCA-------CUGCa---UG--UCGGGCaGCGGGUCc -5'
19538 3' -58.4 NC_004685.1 + 7785 0.67 0.583564
Target:  5'- cGGUGcGCG-ACGGCCUGUgGCaCuCGGGg -3'
miRNA:   3'- cCCAC-UGCaUGUCGGGCAgCG-G-GUCC- -5'
19538 3' -58.4 NC_004685.1 + 34179 0.67 0.593936
Target:  5'- cGGaGAUGUACAcCCCGUCGCgaCCuGGc -3'
miRNA:   3'- cCCaCUGCAUGUcGGGCAGCG--GGuCC- -5'
19538 3' -58.4 NC_004685.1 + 36459 0.67 0.604338
Target:  5'- uGGUGAaguugccgcCGaGCAGCuuGUCGaCCGGGu -3'
miRNA:   3'- cCCACU---------GCaUGUCGggCAGCgGGUCC- -5'
19538 3' -58.4 NC_004685.1 + 67061 0.67 0.614761
Target:  5'- aGGUGugG-GCAG-CCGUCGCUgccgagCAGGc -3'
miRNA:   3'- cCCACugCaUGUCgGGCAGCGG------GUCC- -5'
19538 3' -58.4 NC_004685.1 + 56534 0.79 0.11019
Target:  5'- gGGGgcuaucGACGUagGCGGCCCuccgcGUCGCCCGGGc -3'
miRNA:   3'- -CCCa-----CUGCA--UGUCGGG-----CAGCGGGUCC- -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.