miRNA display CGI


Results 1 - 20 of 85 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
25045 5' -55.1 NC_005336.1 + 68197 0.66 0.939632
Target:  5'- cCGUcccuccGCGUGGACGCUGcgcgcGGAGGaGGCc -3'
miRNA:   3'- aGCAcu----CGCACUUGCGGC-----UCUUC-CCG- -5'
25045 5' -55.1 NC_005336.1 + 50786 0.66 0.939632
Target:  5'- ---cGAGCucGUGGGCaCCGAGAuggugguGGGCg -3'
miRNA:   3'- agcaCUCG--CACUUGcGGCUCUu------CCCG- -5'
25045 5' -55.1 NC_005336.1 + 112006 0.66 0.939632
Target:  5'- -gGUG-GCGUGu-CGCCGGcacgcGAugcAGGGCa -3'
miRNA:   3'- agCACuCGCACuuGCGGCU-----CU---UCCCG- -5'
25045 5' -55.1 NC_005336.1 + 95053 0.66 0.934781
Target:  5'- -gGUcGGCGUGGAC-CCGGGAcgcAGcGGCc -3'
miRNA:   3'- agCAcUCGCACUUGcGGCUCU---UC-CCG- -5'
25045 5' -55.1 NC_005336.1 + 38364 0.66 0.934781
Target:  5'- gCGUGGGCGUGcucggcaacgcGGCGCCGcu---GGCg -3'
miRNA:   3'- aGCACUCGCAC-----------UUGCGGCucuucCCG- -5'
25045 5' -55.1 NC_005336.1 + 89341 0.66 0.924357
Target:  5'- aCGUGcaccggcGCGUGAcauucGCGCCGAacgcGGGCc -3'
miRNA:   3'- aGCACu------CGCACU-----UGCGGCUcuu-CCCG- -5'
25045 5' -55.1 NC_005336.1 + 65792 0.66 0.924357
Target:  5'- cCGcGAGCGUGcGCGUggaCGAGAAcGGUg -3'
miRNA:   3'- aGCaCUCGCACuUGCG---GCUCUUcCCG- -5'
25045 5' -55.1 NC_005336.1 + 29228 0.66 0.924357
Target:  5'- aUCGUGcGCGgGAACGUCGcGuuGaGGCg -3'
miRNA:   3'- -AGCACuCGCaCUUGCGGCuCuuC-CCG- -5'
25045 5' -55.1 NC_005336.1 + 103549 0.66 0.924357
Target:  5'- cUCGUGgucgagaacGGCGUGcucgucaugGACGCgGAGgcGGaGCg -3'
miRNA:   3'- -AGCAC---------UCGCAC---------UUGCGgCUCuuCC-CG- -5'
25045 5' -55.1 NC_005336.1 + 130102 0.66 0.918784
Target:  5'- aCGaGAGCGcGGccgcCGCCGAGGAGGccGCc -3'
miRNA:   3'- aGCaCUCGCaCUu---GCGGCUCUUCC--CG- -5'
25045 5' -55.1 NC_005336.1 + 116478 0.66 0.918784
Target:  5'- ---cGGGCGUGGuguacacgGCGCCGAGca-GGCu -3'
miRNA:   3'- agcaCUCGCACU--------UGCGGCUCuucCCG- -5'
25045 5' -55.1 NC_005336.1 + 120908 0.66 0.918784
Target:  5'- uUCGUGuGGCGcaaGGCGCuCGAGGGcGGGUu -3'
miRNA:   3'- -AGCAC-UCGCac-UUGCG-GCUCUU-CCCG- -5'
25045 5' -55.1 NC_005336.1 + 65326 0.66 0.918784
Target:  5'- cUCGUGgAG-GaGAccGCGCUGcAGGAGGGCu -3'
miRNA:   3'- -AGCAC-UCgCaCU--UGCGGC-UCUUCCCG- -5'
25045 5' -55.1 NC_005336.1 + 100716 0.66 0.918784
Target:  5'- -----cGCGcacAGCGCCGAGgcGGGCg -3'
miRNA:   3'- agcacuCGCac-UUGCGGCUCuuCCCG- -5'
25045 5' -55.1 NC_005336.1 + 111402 0.66 0.918213
Target:  5'- cCG-GAGcCG-GAGcCGCCGAcgagcgccauccuGAAGGGCg -3'
miRNA:   3'- aGCaCUC-GCaCUU-GCGGCU-------------CUUCCCG- -5'
25045 5' -55.1 NC_005336.1 + 127984 0.66 0.912971
Target:  5'- -aGUGAaccGCGUGAacgcgcgcACGCCGAGcgcGGCc -3'
miRNA:   3'- agCACU---CGCACU--------UGCGGCUCuucCCG- -5'
25045 5' -55.1 NC_005336.1 + 84911 0.66 0.912971
Target:  5'- -aGUG-GUGguucggGAGC-UCGAGGAGGGCg -3'
miRNA:   3'- agCACuCGCa-----CUUGcGGCUCUUCCCG- -5'
25045 5' -55.1 NC_005336.1 + 65982 0.67 0.906919
Target:  5'- gUCGcGGcCGUGGccgGCGCCGuGGAGGcGCu -3'
miRNA:   3'- -AGCaCUcGCACU---UGCGGCuCUUCC-CG- -5'
25045 5' -55.1 NC_005336.1 + 36553 0.67 0.906919
Target:  5'- cCGcUGGGCGUGAgccGCGUCGc---GGGCu -3'
miRNA:   3'- aGC-ACUCGCACU---UGCGGCucuuCCCG- -5'
25045 5' -55.1 NC_005336.1 + 16228 0.67 0.906919
Target:  5'- gCGUGAGCccGUGuuCGUCGAGcgccucGGGGUc -3'
miRNA:   3'- aGCACUCG--CACuuGCGGCUCu-----UCCCG- -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.