miRNA display CGI


Results 1 - 20 of 27 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
15698 5' -56.5 NC_004065.1 + 116110 0.66 0.953254
Target:  5'- gGCgagGGGUGGUCGCcggagguagcuggUCggCGUcCUGCGGc -3'
miRNA:   3'- aCG---UCCAUCAGCG-------------AGa-GCGaGACGCC- -5'
15698 5' -56.5 NC_004065.1 + 59444 0.66 0.949688
Target:  5'- cGCAucccGUGGuUCGUUUUCGCUCUGUu- -3'
miRNA:   3'- aCGUc---CAUC-AGCGAGAGCGAGACGcc -5'
15698 5' -56.5 NC_004065.1 + 37624 0.66 0.945518
Target:  5'- gGCAcGGUAaugcGUCGCgucgggguUCUUcCUCUGCGGu -3'
miRNA:   3'- aCGU-CCAU----CAGCG--------AGAGcGAGACGCC- -5'
15698 5' -56.5 NC_004065.1 + 138503 0.66 0.943789
Target:  5'- cGCAGGUAGcgguaacgCGUUCgacgggcuguuggCGCUCgaacGCGGc -3'
miRNA:   3'- aCGUCCAUCa-------GCGAGa------------GCGAGa---CGCC- -5'
15698 5' -56.5 NC_004065.1 + 66556 0.66 0.941129
Target:  5'- cGCGGcGUgcgAGUCGUUCUCGUcgCUGgCGa -3'
miRNA:   3'- aCGUC-CA---UCAGCGAGAGCGa-GAC-GCc -5'
15698 5' -56.5 NC_004065.1 + 89439 0.66 0.933641
Target:  5'- cUGCAGGg---CGCcCUucuugaagaagacgcUGCUCUGCGGc -3'
miRNA:   3'- -ACGUCCaucaGCGaGA---------------GCGAGACGCC- -5'
15698 5' -56.5 NC_004065.1 + 58527 0.67 0.921332
Target:  5'- cUGgAGGUGGaUUGCUUcuuggaguuUCGCUUgggGCGGa -3'
miRNA:   3'- -ACgUCCAUC-AGCGAG---------AGCGAGa--CGCC- -5'
15698 5' -56.5 NC_004065.1 + 224035 0.67 0.921332
Target:  5'- cUGgAGGUAGUC-CUgUCGUgcgGCGGg -3'
miRNA:   3'- -ACgUCCAUCAGcGAgAGCGagaCGCC- -5'
15698 5' -56.5 NC_004065.1 + 229668 0.67 0.921332
Target:  5'- gGCAGGUGGgcgucggggcgCGCgUC-CGCUCgGCGa -3'
miRNA:   3'- aCGUCCAUCa----------GCG-AGaGCGAGaCGCc -5'
15698 5' -56.5 NC_004065.1 + 119303 0.67 0.921332
Target:  5'- aGCAGGUcuucgGGUCgaggguggcgGCUCUCGCcCUG-GGc -3'
miRNA:   3'- aCGUCCA-----UCAG----------CGAGAGCGaGACgCC- -5'
15698 5' -56.5 NC_004065.1 + 143385 0.67 0.915822
Target:  5'- cGCAGGUcgcGG-CGCcggUCUCGCccUCgGCGGc -3'
miRNA:   3'- aCGUCCA---UCaGCG---AGAGCG--AGaCGCC- -5'
15698 5' -56.5 NC_004065.1 + 91834 0.67 0.915822
Target:  5'- aGCGGG-GGUCGUUCuggUCGC-CcGCGGc -3'
miRNA:   3'- aCGUCCaUCAGCGAG---AGCGaGaCGCC- -5'
15698 5' -56.5 NC_004065.1 + 97399 0.67 0.904735
Target:  5'- cGCAGGUAGUCGaagaUCa-GCUCggagaucaugccgcaGCGGu -3'
miRNA:   3'- aCGUCCAUCAGCg---AGagCGAGa--------------CGCC- -5'
15698 5' -56.5 NC_004065.1 + 91952 0.67 0.90413
Target:  5'- cGCGGacaucGUGGcCGCgaugUCGCUCUGCGa -3'
miRNA:   3'- aCGUC-----CAUCaGCGag--AGCGAGACGCc -5'
15698 5' -56.5 NC_004065.1 + 44863 0.67 0.897952
Target:  5'- aGCAGc--GUCGcCUCUCGCUCgaGCaGGa -3'
miRNA:   3'- aCGUCcauCAGC-GAGAGCGAGa-CG-CC- -5'
15698 5' -56.5 NC_004065.1 + 229274 0.67 0.897952
Target:  5'- cUGCGGGaggccgAGUgCGCgaUCUCGCUCcGCGc -3'
miRNA:   3'- -ACGUCCa-----UCA-GCG--AGAGCGAGaCGCc -5'
15698 5' -56.5 NC_004065.1 + 229072 0.67 0.897952
Target:  5'- cGCuuucGGUGGUCuCUCUCuGCcugUCUGUGGu -3'
miRNA:   3'- aCGu---CCAUCAGcGAGAG-CG---AGACGCC- -5'
15698 5' -56.5 NC_004065.1 + 118736 0.68 0.891558
Target:  5'- gGCAGGUcucgcAGUCgGCUCggggUGCUUUGUGu -3'
miRNA:   3'- aCGUCCA-----UCAG-CGAGa---GCGAGACGCc -5'
15698 5' -56.5 NC_004065.1 + 79141 0.68 0.878129
Target:  5'- uUGCAGGUGGU-GCacgCGCUCcGCGa -3'
miRNA:   3'- -ACGUCCAUCAgCGagaGCGAGaCGCc -5'
15698 5' -56.5 NC_004065.1 + 138767 0.69 0.848834
Target:  5'- gUGCAGGaugucgAGgccgUGCUCUggcugcUGUUCUGCGGa -3'
miRNA:   3'- -ACGUCCa-----UCa---GCGAGA------GCGAGACGCC- -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.