miRNA display CGI


Results 1 - 20 of 31 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
19575 3' -62.2 NC_004686.1 + 5364 0.67 0.321026
Target:  5'- uGUCGaGGaucuuCGCCGGCGaacccgacagAGCCGCaCCg -3'
miRNA:   3'- gCAGCaCCg----GCGGCCGUa---------UCGGCG-GG- -5'
19575 3' -62.2 NC_004686.1 + 5912 0.7 0.212614
Target:  5'- gCGUC-UGGCCGgUGGCuaucGGCUGCCg -3'
miRNA:   3'- -GCAGcACCGGCgGCCGua--UCGGCGGg -5'
19575 3' -62.2 NC_004686.1 + 6180 0.73 0.126755
Target:  5'- gGUCGUcagaagggucGGCgGCCaGGCAUGGCgCGaCCCg -3'
miRNA:   3'- gCAGCA----------CCGgCGG-CCGUAUCG-GC-GGG- -5'
19575 3' -62.2 NC_004686.1 + 7191 0.74 0.117045
Target:  5'- gCGUCcuuGUGGCCGCCGuGCAcccuGCCgGCUCg -3'
miRNA:   3'- -GCAG---CACCGGCGGC-CGUau--CGG-CGGG- -5'
19575 3' -62.2 NC_004686.1 + 10743 0.68 0.303501
Target:  5'- uCGagGUuGuuGCCGGCAcccccgcggcgcaAGCCGCCCu -3'
miRNA:   3'- -GCagCAcCggCGGCCGUa------------UCGGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 11414 0.68 0.27003
Target:  5'- aGUgGUGGCCGcCCGGUAUgcgggacauuuggaAGCa-CCCa -3'
miRNA:   3'- gCAgCACCGGC-GGCCGUA--------------UCGgcGGG- -5'
19575 3' -62.2 NC_004686.1 + 12421 1.1 0.000223
Target:  5'- uCGUCGUGGCCGCCGGCAUAGCCGCCCc -3'
miRNA:   3'- -GCAGCACCGGCGGCCGUAUCGGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 12578 0.66 0.3848
Target:  5'- gGagGUGGCCcugcgggaaguGCgGGgGUAGgCGCCCc -3'
miRNA:   3'- gCagCACCGG-----------CGgCCgUAUCgGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 12609 0.66 0.368092
Target:  5'- gGUCaccGGCUgGCUGGCAgccuGCgGCCCa -3'
miRNA:   3'- gCAGca-CCGG-CGGCCGUau--CGgCGGG- -5'
19575 3' -62.2 NC_004686.1 + 16641 0.67 0.35189
Target:  5'- gGUgaUGcGCCGCCGGUGguggugAGUCGUCCa -3'
miRNA:   3'- gCAgcAC-CGGCGGCCGUa-----UCGGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 16866 0.69 0.263575
Target:  5'- uGUUGcguUGGCgGCCGGCAacacuauugagggcUGGuaugaCCGCCCa -3'
miRNA:   3'- gCAGC---ACCGgCGGCCGU--------------AUC-----GGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 16990 0.67 0.359928
Target:  5'- aCGggCcUGGCCGCCGGCG-GGUCGgCg -3'
miRNA:   3'- -GCa-GcACCGGCGGCCGUaUCGGCgGg -5'
19575 3' -62.2 NC_004686.1 + 18358 0.66 0.408136
Target:  5'- gCGUuugCGUGGCUGCUGGCGgggaucuccaccaaUaAGCCGgUCg -3'
miRNA:   3'- -GCA---GCACCGGCGGCCGU--------------A-UCGGCgGG- -5'
19575 3' -62.2 NC_004686.1 + 20428 0.77 0.062769
Target:  5'- aCGUCGUGGCCGgcgaCGGCGaaaauGcCCGCCCc -3'
miRNA:   3'- -GCAGCACCGGCg---GCCGUau---C-GGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 21932 0.66 0.376384
Target:  5'- -uUCGaGcGCCGuCCGGagccGCCGCCCg -3'
miRNA:   3'- gcAGCaC-CGGC-GGCCguauCGGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 22107 0.68 0.30637
Target:  5'- uGUCGacgcGCCGCCGuCGgcGCCGUCCu -3'
miRNA:   3'- gCAGCac--CGGCGGCcGUauCGGCGGG- -5'
19575 3' -62.2 NC_004686.1 + 24244 0.66 0.41433
Target:  5'- uGUUGggggugGGCCGCCuGGCGggguugguuucucaGGCCuucGCCCc -3'
miRNA:   3'- gCAGCa-----CCGGCGG-CCGUa-------------UCGG---CGGG- -5'
19575 3' -62.2 NC_004686.1 + 26267 0.72 0.159266
Target:  5'- uGUCGgggugugcUGGCaCGCCGGCcagggaucauauccGUGGCUGCCg -3'
miRNA:   3'- gCAGC--------ACCG-GCGGCCG--------------UAUCGGCGGg -5'
19575 3' -62.2 NC_004686.1 + 29116 0.66 0.402001
Target:  5'- gCGUCGggaucGG-CGUCGGCG-GGCCGCgCu -3'
miRNA:   3'- -GCAGCa----CCgGCGGCCGUaUCGGCGgG- -5'
19575 3' -62.2 NC_004686.1 + 31212 0.67 0.35189
Target:  5'- cCGUCGUcGCUGCgGGCGcgcaGGuuGCCg -3'
miRNA:   3'- -GCAGCAcCGGCGgCCGUa---UCggCGGg -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.