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 + 77294 0.66 0.569646
Target:  5'- cCUCCGcCGcCG-CCGAGacggGCGGCGCg -3'
miRNA:   3'- cGAGGCcGCcGCgGGCUCa---CGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 76476 0.66 0.569646
Target:  5'- gGCU-CGGCGGUGCCCGAcaacGUGUuccaGCc -3'
miRNA:   3'- -CGAgGCCGCCGCGGGCU----CACGccg-CG- -5'
7656 3' -64.9 NC_001973.1 + 45613 0.66 0.569646
Target:  5'- aGCgcgUCGGCGaucagguccacGCGCUcguCGAGcGCGGCGUc -3'
miRNA:   3'- -CGa--GGCCGC-----------CGCGG---GCUCaCGCCGCG- -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 + 136483 0.66 0.560254
Target:  5'- --gCCGGCGGCGUggCCGAcGcUGUGGUacacGCg -3'
miRNA:   3'- cgaGGCCGCCGCG--GGCU-C-ACGCCG----CG- -5'
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 + 137189 0.66 0.560254
Target:  5'- cGCUCagccacucGCGGCGCgagUCGcGcgGCGGCGCg -3'
miRNA:   3'- -CGAGgc------CGCCGCG---GGCuCa-CGCCGCG- -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'
7656 3' -64.9 NC_001973.1 + 133363 0.66 0.541606
Target:  5'- cGCUCuCGGCcGUGUagaCGAGUuuGGUGCg -3'
miRNA:   3'- -CGAG-GCCGcCGCGg--GCUCAcgCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 45858 0.66 0.541606
Target:  5'- gGCgucgCgGGCGcGCGCuCCucGgccGCGGCGCu -3'
miRNA:   3'- -CGa---GgCCGC-CGCG-GGcuCa--CGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 63610 0.66 0.540679
Target:  5'- cGCUCaCGGaCGcGCGCacggccaaaucggCCGcGUgggGCGGCGCg -3'
miRNA:   3'- -CGAG-GCC-GC-CGCG-------------GGCuCA---CGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 61101 0.66 0.532359
Target:  5'- cGCggCCGacggagcaGCGGCGgCgGGGcGCGGCGUc -3'
miRNA:   3'- -CGa-GGC--------CGCCGCgGgCUCaCGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 46002 0.66 0.532359
Target:  5'- cGCgaugCCGGCGcgcgaGCGCCUGucugGCcaugGGCGCg -3'
miRNA:   3'- -CGa---GGCCGC-----CGCGGGCuca-CG----CCGCG- -5'
7656 3' -64.9 NC_001973.1 + 67619 0.66 0.532359
Target:  5'- aGCUggugCCGGCcGCGUCCGAGaGC-GUGCc -3'
miRNA:   3'- -CGA----GGCCGcCGCGGGCUCaCGcCGCG- -5'
7656 3' -64.9 NC_001973.1 + 137272 0.66 0.532359
Target:  5'- uGCggCGGCGGgGCUCGGccGCGcGCGUu -3'
miRNA:   3'- -CGagGCCGCCgCGGGCUcaCGC-CGCG- -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 + 41792 0.66 0.523169
Target:  5'- ---aCGGCGG-GCgCGAGUG-GGUGCu -3'
miRNA:   3'- cgagGCCGCCgCGgGCUCACgCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 90306 0.66 0.523169
Target:  5'- cGCacagUCGGuCGGCGggCGAG-GCGGUGCg -3'
miRNA:   3'- -CGa---GGCC-GCCGCggGCUCaCGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 37774 0.67 0.51404
Target:  5'- -aUCgGGgGGCGCCgccGcGCGGCGCu -3'
miRNA:   3'- cgAGgCCgCCGCGGgcuCaCGCCGCG- -5'
7656 3' -64.9 NC_001973.1 + 109355 0.67 0.51404
Target:  5'- aGCUCCGcucggccguaGCGgucgacgaGCGCCuCGuAGgcGCGGCGCa -3'
miRNA:   3'- -CGAGGC----------CGC--------CGCGG-GC-UCa-CGCCGCG- -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.