miRNA display CGI


Results 1 - 20 of 97 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
7656 3' -64.9 NC_001973.1 + 4020 0.66 0.560254
Target:  5'- cGCgCUGaGCGcGCGCUCGAacGUGUacacggGGCGCa -3'
miRNA:   3'- -CGaGGC-CGC-CGCGGGCU--CACG------CCGCG- -5'
7656 3' -64.9 NC_001973.1 + 4224 0.67 0.469458
Target:  5'- gGCgcgCCuGcCGGCGCUCGuuugcGUgaGCGGCGCg -3'
miRNA:   3'- -CGa--GGcC-GCCGCGGGCu----CA--CGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 5849 0.72 0.266405
Target:  5'- -gUUCGGCGaGCGCacgcgCCGgcgucucgagaggcuGGUGCGGCGCa -3'
miRNA:   3'- cgAGGCCGC-CGCG-----GGC---------------UCACGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 6207 0.75 0.151698
Target:  5'- --aCCGGCGGCGCggugCCG-GcGCGGCGCc -3'
miRNA:   3'- cgaGGCCGCCGCG----GGCuCaCGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 6418 0.69 0.394613
Target:  5'- cGCggCGGCGGCGCgCCGA---CGaGCGCg -3'
miRNA:   3'- -CGagGCCGCCGCG-GGCUcacGC-CGCG- -5'
7656 3' -64.9 NC_001973.1 + 7095 0.74 0.176529
Target:  5'- -gUCCGGCGcgcgcgaccgccgucGUGCUCGAGUGCGGCc- -3'
miRNA:   3'- cgAGGCCGC---------------CGCGGGCUCACGCCGcg -5'
7656 3' -64.9 NC_001973.1 + 7826 0.69 0.394613
Target:  5'- cGCUCUcuguugagaacgGGCGGCGCCgcgcccguCGAGc-UGGCGCg -3'
miRNA:   3'- -CGAGG------------CCGCCGCGG--------GCUCacGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 7939 0.74 0.192036
Target:  5'- cGCggCCGGCGuggugcacGCGCCCGcGUGCGcguacGCGCg -3'
miRNA:   3'- -CGa-GGCCGC--------CGCGGGCuCACGC-----CGCG- -5'
7656 3' -64.9 NC_001973.1 + 10045 0.69 0.386783
Target:  5'- uGUUCUGGUGGCGCaCGuGccGCaGGCGCc -3'
miRNA:   3'- -CGAGGCCGCCGCGgGCuCa-CG-CCGCG- -5'
7656 3' -64.9 NC_001973.1 + 14608 0.69 0.386783
Target:  5'- ---gCGGUGGcCGCCCGGcUGuCGGUGCg -3'
miRNA:   3'- cgagGCCGCC-GCGGGCUcAC-GCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 16162 0.74 0.187175
Target:  5'- cGCUgUGGacgcacaCGGCGCCCGuGU-CGGCGCa -3'
miRNA:   3'- -CGAgGCC-------GCCGCGGGCuCAcGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 16903 0.74 0.196551
Target:  5'- cGCgCCGGCGGCggcgGCCUcucgGCGGCGCa -3'
miRNA:   3'- -CGaGGCCGCCG----CGGGcucaCGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 16950 0.69 0.356505
Target:  5'- uUUCCGcgaaGCGGCcguGCCCGAGUuuuuggucgugGCGGcCGCg -3'
miRNA:   3'- cGAGGC----CGCCG---CGGGCUCA-----------CGCC-GCG- -5'
7656 3' -64.9 NC_001973.1 + 17570 0.72 0.246968
Target:  5'- uGCacaUGGaauCGGCGCCCGAGU-CGGCGUg -3'
miRNA:   3'- -CGag-GCC---GCCGCGGGCUCAcGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 21336 0.67 0.495984
Target:  5'- cGCgagCCGGC--CGCCCGAGuUGcCGGUGg -3'
miRNA:   3'- -CGa--GGCCGccGCGGGCUC-AC-GCCGCg -5'
7656 3' -64.9 NC_001973.1 + 23568 0.66 0.560254
Target:  5'- aGCcggCCGGCGGacgcgcCGCCCGcGcUGC-GCGCc -3'
miRNA:   3'- -CGa--GGCCGCC------GCGGGCuC-ACGcCGCG- -5'
7656 3' -64.9 NC_001973.1 + 24125 0.66 0.523169
Target:  5'- aGC-CgGGCGaGCuCgCGGGUGCGcGCGCc -3'
miRNA:   3'- -CGaGgCCGC-CGcGgGCUCACGC-CGCG- -5'
7656 3' -64.9 NC_001973.1 + 26234 0.73 0.21017
Target:  5'- cGUUCaUGGUGGCGCUCGAcacgaccGUGCGGCa- -3'
miRNA:   3'- -CGAG-GCCGCCGCGGGCU-------CACGCCGcg -5'
7656 3' -64.9 NC_001973.1 + 27858 0.71 0.269961
Target:  5'- gGCgCUGGCGGCcgcgGCCgCGGGcGCGGgCGCg -3'
miRNA:   3'- -CGaGGCCGCCG----CGG-GCUCaCGCC-GCG- -5'
7656 3' -64.9 NC_001973.1 + 28289 0.66 0.550906
Target:  5'- cCUCgUGGCGGCcgaGCgCCGcGU-CGGCGCa -3'
miRNA:   3'- cGAG-GCCGCCG---CG-GGCuCAcGCCGCG- -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.