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
10896 3' -58.4 NC_002794.1 + 109274 0.66 0.861327
Target:  5'- -aCGGUCUUGGagCUCU-CCGcCGACg- -3'
miRNA:   3'- uaGCCAGAGCCg-GAGAuGGC-GCUGau -5'
10896 3' -58.4 NC_002794.1 + 30726 0.66 0.830005
Target:  5'- cAUCGGaCUCcGCC-CgaacugGCCGCGGCUGg -3'
miRNA:   3'- -UAGCCaGAGcCGGaGa-----UGGCGCUGAU- -5'
10896 3' -58.4 NC_002794.1 + 32784 0.66 0.830005
Target:  5'- -cCGGUUcgucaucccggUCGGUCUUcGCCGCGACc- -3'
miRNA:   3'- uaGCCAG-----------AGCCGGAGaUGGCGCUGau -5'
10896 3' -58.4 NC_002794.1 + 56314 0.67 0.813285
Target:  5'- -gCGGUCgcuggCGGCCgugGCCgGCGACg- -3'
miRNA:   3'- uaGCCAGa----GCCGGagaUGG-CGCUGau -5'
10896 3' -58.4 NC_002794.1 + 180932 0.67 0.804685
Target:  5'- cGUCGGaggUCGGUCUCgcguCCGCGGCc- -3'
miRNA:   3'- -UAGCCag-AGCCGGAGau--GGCGCUGau -5'
10896 3' -58.4 NC_002794.1 + 39660 0.67 0.804685
Target:  5'- -gUGGUCUuCGcCCUCUGCCGCG-Cg- -3'
miRNA:   3'- uaGCCAGA-GCcGGAGAUGGCGCuGau -5'
10896 3' -58.4 NC_002794.1 + 192350 0.67 0.799453
Target:  5'- -gCGGacCUCGGCCUCcGCCGCcgccgaccgagcgcgGGCUGa -3'
miRNA:   3'- uaGCCa-GAGCCGGAGaUGGCG---------------CUGAU- -5'
10896 3' -58.4 NC_002794.1 + 6955 0.67 0.795937
Target:  5'- cUCGGUCUCGGgCUCgcucCCGCucuccccuggaGACUc -3'
miRNA:   3'- uAGCCAGAGCCgGAGau--GGCG-----------CUGAu -5'
10896 3' -58.4 NC_002794.1 + 105411 0.67 0.787046
Target:  5'- -gCGGaUCUCGGCCUCcagggugGCCGCcGCc- -3'
miRNA:   3'- uaGCC-AGAGCCGGAGa------UGGCGcUGau -5'
10896 3' -58.4 NC_002794.1 + 117259 0.67 0.787046
Target:  5'- cUUGGcCUCGGCCagacaCU-CCGCGACg- -3'
miRNA:   3'- uAGCCaGAGCCGGa----GAuGGCGCUGau -5'
10896 3' -58.4 NC_002794.1 + 43026 0.67 0.778023
Target:  5'- --aGGUCgUCGGCCUCcauCgCGCGGCa- -3'
miRNA:   3'- uagCCAG-AGCCGGAGau-G-GCGCUGau -5'
10896 3' -58.4 NC_002794.1 + 85514 0.67 0.768874
Target:  5'- --aGGccccUUUCGGCCUCgccCCGCGGCUc -3'
miRNA:   3'- uagCC----AGAGCCGGAGau-GGCGCUGAu -5'
10896 3' -58.4 NC_002794.1 + 62279 0.67 0.768874
Target:  5'- -cCGGagCUCGGCCUgCUGCCGCu---- -3'
miRNA:   3'- uaGCCa-GAGCCGGA-GAUGGCGcugau -5'
10896 3' -58.4 NC_002794.1 + 70651 0.67 0.765182
Target:  5'- --aGGuUCUUGGCCUCgugcgcggcggccGCCGCGGCg- -3'
miRNA:   3'- uagCC-AGAGCCGGAGa------------UGGCGCUGau -5'
10896 3' -58.4 NC_002794.1 + 154330 0.68 0.762401
Target:  5'- cGUCGGUCgucccgggugccgCGGCCgagCUcccgcgcgguccagGCCGCGGCg- -3'
miRNA:   3'- -UAGCCAGa------------GCCGGa--GA--------------UGGCGCUGau -5'
10896 3' -58.4 NC_002794.1 + 98639 0.68 0.750237
Target:  5'- -gCGGggaaggUGGCCUacgaaUACCGCGACUAu -3'
miRNA:   3'- uaGCCaga---GCCGGAg----AUGGCGCUGAU- -5'
10896 3' -58.4 NC_002794.1 + 130369 0.68 0.740766
Target:  5'- -aCGGUCUCcGCCUCaACCGCugaggccgccuGGCUGu -3'
miRNA:   3'- uaGCCAGAGcCGGAGaUGGCG-----------CUGAU- -5'
10896 3' -58.4 NC_002794.1 + 121491 0.68 0.731203
Target:  5'- uUCGGaCgCGGCCUCcGCCGgGGCg- -3'
miRNA:   3'- uAGCCaGaGCCGGAGaUGGCgCUGau -5'
10896 3' -58.4 NC_002794.1 + 80371 0.68 0.721559
Target:  5'- -cCGGgccCagGGCCUCacccGCCGCGACUAc -3'
miRNA:   3'- uaGCCa--GagCCGGAGa---UGGCGCUGAU- -5'
10896 3' -58.4 NC_002794.1 + 189846 0.69 0.711841
Target:  5'- --gGGUCUCGGCCgCggaGCCGuCGGCg- -3'
miRNA:   3'- uagCCAGAGCCGGaGa--UGGC-GCUGau -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.