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 + 145015 1.12 0.000343
Target:  5'- gGCUCCGGCGGCGCCCGAGUGCGGCGCg -3'
miRNA:   3'- -CGAGGCCGCCGCGGGCUCACGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 106410 0.84 0.038734
Target:  5'- uGCUUCGuGCGGCGCgacgCCGAGcGCGGCGCa -3'
miRNA:   3'- -CGAGGC-CGCCGCG----GGCUCaCGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 53859 0.78 0.102944
Target:  5'- gGCggCGGCGGCGCcgCCGAGcGCGGCGg -3'
miRNA:   3'- -CGagGCCGCCGCG--GGCUCaCGCCGCg -5'
7656 3' -64.9 NC_001973.1 + 50090 0.78 0.105501
Target:  5'- ---gCGGCGGCGCCacgGAGggcgGCGGCGCc -3'
miRNA:   3'- cgagGCCGCCGCGGg--CUCa---CGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 144739 0.77 0.119205
Target:  5'- gGCggCGGCggaGGCGgCCGAGgagGCGGCGCg -3'
miRNA:   3'- -CGagGCCG---CCGCgGGCUCa--CGCCGCG- -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 + 111067 0.75 0.155358
Target:  5'- uGCUCaacGCGGCGCCCGAcGUG-GGcCGCg -3'
miRNA:   3'- -CGAGgc-CGCCGCGGGCU-CACgCC-GCG- -5'
7656 3' -64.9 NC_001973.1 + 30366 0.74 0.174877
Target:  5'- gGCcgCCGGCgcGGCGaCUCGGGUGCgggccGGCGCg -3'
miRNA:   3'- -CGa-GGCCG--CCGC-GGGCUCACG-----CCGCG- -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 + 16162 0.74 0.187175
Target:  5'- cGCUgUGGacgcacaCGGCGCCCGuGU-CGGCGCa -3'
miRNA:   3'- -CGAgGCC-------GCCGCGGGCuCAcGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 30796 0.74 0.187613
Target:  5'- -aUgUGGCGGuCGCCCGAGggguugGUGGCGUc -3'
miRNA:   3'- cgAgGCCGCC-GCGGGCUCa-----CGCCGCG- -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 + 16903 0.74 0.196551
Target:  5'- cGCgCCGGCGGCggcgGCCUcucgGCGGCGCa -3'
miRNA:   3'- -CGaGGCCGCCG----CGGGcucaCGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 132544 0.73 0.205859
Target:  5'- gGCg-CGGCGGCggGCUCGAGcGCGGCGg -3'
miRNA:   3'- -CGagGCCGCCG--CGGGCUCaCGCCGCg -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 + 94268 0.73 0.210654
Target:  5'- aCUUCGGCacguacaacgaGGCG-CCGAGggaagGCGGCGCg -3'
miRNA:   3'- cGAGGCCG-----------CCGCgGGCUCa----CGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 109843 0.73 0.215545
Target:  5'- cGCUUCcGCGGCGUCgccgccgccgaCGAGgacGCGGCGCg -3'
miRNA:   3'- -CGAGGcCGCCGCGG-----------GCUCa--CGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 120574 0.73 0.220534
Target:  5'- -gUCgGGCgugcuaucacgGGCGCgCCGAGUcGCGGUGCg -3'
miRNA:   3'- cgAGgCCG-----------CCGCG-GGCUCA-CGCCGCG- -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 + 58740 0.72 0.251996
Target:  5'- uGCagCGGCGcgccgucGCGCCCcucguggaaGAGUGcCGGCGCg -3'
miRNA:   3'- -CGagGCCGC-------CGCGGG---------CUCAC-GCCGCG- -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.