miRNA display CGI


Results 1 - 20 of 21 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
30915 3' -59.9 NC_006552.1 + 39274 0.66 0.518263
Target:  5'- gGUGacAGCCAGCgcuGCCGGcGCAGGaaGCg -3'
miRNA:   3'- gCGCa-UCGGUCG---CGGCC-CGUCUgaUG- -5'
30915 3' -59.9 NC_006552.1 + 33739 0.66 0.498094
Target:  5'- uCGCcaaccGCCAGCGCgGcGGCGGcAUUGCu -3'
miRNA:   3'- -GCGcau--CGGUCGCGgC-CCGUC-UGAUG- -5'
30915 3' -59.9 NC_006552.1 + 33565 0.66 0.488142
Target:  5'- aGCa-GGCCAGCGCCGaaauacgcGGCGucCUGCg -3'
miRNA:   3'- gCGcaUCGGUCGCGGC--------CCGUcuGAUG- -5'
30915 3' -59.9 NC_006552.1 + 60354 0.66 0.488142
Target:  5'- --aGUGGCCGGCGaaGGGCcagucgcuAGACcACa -3'
miRNA:   3'- gcgCAUCGGUCGCggCCCG--------UCUGaUG- -5'
30915 3' -59.9 NC_006552.1 + 58202 0.66 0.488142
Target:  5'- gGcCGaAGCCAcgcuGCGCCGGGU-GGCUAa -3'
miRNA:   3'- gC-GCaUCGGU----CGCGGCCCGuCUGAUg -5'
30915 3' -59.9 NC_006552.1 + 15335 0.66 0.488142
Target:  5'- cCGCGacgcacGGCCugcAGCGCC--GCAGGCUGCu -3'
miRNA:   3'- -GCGCa-----UCGG---UCGCGGccCGUCUGAUG- -5'
30915 3' -59.9 NC_006552.1 + 35617 0.66 0.478284
Target:  5'- cCGCaauggAGUCGGCGuCCGGGUGGGCc-- -3'
miRNA:   3'- -GCGca---UCGGUCGC-GGCCCGUCUGaug -5'
30915 3' -59.9 NC_006552.1 + 52471 0.66 0.478284
Target:  5'- aGCaaacGCCAGCGCgUGGGCAacCUGCg -3'
miRNA:   3'- gCGcau-CGGUCGCG-GCCCGUcuGAUG- -5'
30915 3' -59.9 NC_006552.1 + 12625 0.66 0.478284
Target:  5'- gGcCGUAGUCuGC-CCGGcGCuGGCUACg -3'
miRNA:   3'- gC-GCAUCGGuCGcGGCC-CGuCUGAUG- -5'
30915 3' -59.9 NC_006552.1 + 60888 0.66 0.468525
Target:  5'- uGCGgcGCacCGGCGCuggcauauCGGGCGGACg-- -3'
miRNA:   3'- gCGCauCG--GUCGCG--------GCCCGUCUGaug -5'
30915 3' -59.9 NC_006552.1 + 2061 0.67 0.421353
Target:  5'- aGCGc-GCCGGCGUCGuGcGCGGcCUGCu -3'
miRNA:   3'- gCGCauCGGUCGCGGC-C-CGUCuGAUG- -5'
30915 3' -59.9 NC_006552.1 + 38241 0.67 0.412265
Target:  5'- --gGUAGgCGGCGCCGGucuGCGGAUcGCg -3'
miRNA:   3'- gcgCAUCgGUCGCGGCC---CGUCUGaUG- -5'
30915 3' -59.9 NC_006552.1 + 24406 0.68 0.385746
Target:  5'- cCGgGaAGCCGcuguaGCCGGGCAGACg-- -3'
miRNA:   3'- -GCgCaUCGGUcg---CGGCCCGUCUGaug -5'
30915 3' -59.9 NC_006552.1 + 47656 0.68 0.37716
Target:  5'- aGCGUGGCCGGCuGUCGGGaucuCAGGu--- -3'
miRNA:   3'- gCGCAUCGGUCG-CGGCCC----GUCUgaug -5'
30915 3' -59.9 NC_006552.1 + 58363 0.68 0.368703
Target:  5'- uCGcCGUGGCCAGCccaacaCUGGuGCAGACcgGCu -3'
miRNA:   3'- -GC-GCAUCGGUCGc-----GGCC-CGUCUGa-UG- -5'
30915 3' -59.9 NC_006552.1 + 24718 0.71 0.251508
Target:  5'- uCGgGUcguaggccaccAGCCGGCGCCGGGCcuGCUc- -3'
miRNA:   3'- -GCgCA-----------UCGGUCGCGGCCCGucUGAug -5'
30915 3' -59.9 NC_006552.1 + 32760 0.71 0.245306
Target:  5'- aCGC---GCCAGguCGCCGGGCAcGCUACg -3'
miRNA:   3'- -GCGcauCGGUC--GCGGCCCGUcUGAUG- -5'
30915 3' -59.9 NC_006552.1 + 44094 0.71 0.239232
Target:  5'- cCGCGcucuUGGCCGGCGCCuGGGUuGAUagUGCu -3'
miRNA:   3'- -GCGC----AUCGGUCGCGG-CCCGuCUG--AUG- -5'
30915 3' -59.9 NC_006552.1 + 44466 0.73 0.17577
Target:  5'- uGCGcuGCCGGCGCCGG-CAGACg-- -3'
miRNA:   3'- gCGCauCGGUCGCGGCCcGUCUGaug -5'
30915 3' -59.9 NC_006552.1 + 62959 0.76 0.11746
Target:  5'- aCGCGcacgaacUGGCCGGCGCCGuucuucugccGGCGGACcUGCg -3'
miRNA:   3'- -GCGC-------AUCGGUCGCGGC----------CCGUCUG-AUG- -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.