miRNA display CGI


Results 1 - 20 of 35 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
11427 3' -59.2 NC_003085.1 + 34180 0.66 0.502909
Target:  5'- aGUAGGCCag-GGCGGGAGUUucGCUCu -3'
miRNA:   3'- gCAUCCGGcagUCGCCUUCGAc-CGGG- -5'
11427 3' -59.2 NC_003085.1 + 47148 0.66 0.502909
Target:  5'- gCGgcGGCCGgUGGC-GAGGCaGGCCa -3'
miRNA:   3'- -GCauCCGGCaGUCGcCUUCGaCCGGg -5'
11427 3' -59.2 NC_003085.1 + 15116 0.66 0.492761
Target:  5'- cCGgAGGuCCGcaucaaCGGCGGguGCUGGCUg -3'
miRNA:   3'- -GCaUCC-GGCa-----GUCGCCuuCGACCGGg -5'
11427 3' -59.2 NC_003085.1 + 32849 0.66 0.481708
Target:  5'- --gAGGCCGcgCGccGCGGGaccgcccGGgaGGCCCa -3'
miRNA:   3'- gcaUCCGGCa-GU--CGCCU-------UCgaCCGGG- -5'
11427 3' -59.2 NC_003085.1 + 37532 0.66 0.472755
Target:  5'- uGgcGGCuCGUCAGCGGuaacGgUGGCa- -3'
miRNA:   3'- gCauCCG-GCAGUCGCCuu--CgACCGgg -5'
11427 3' -59.2 NC_003085.1 + 48779 0.66 0.453167
Target:  5'- cCG-AGGCCGgacGCGGGacAGgUGGCCg -3'
miRNA:   3'- -GCaUCCGGCaguCGCCU--UCgACCGGg -5'
11427 3' -59.2 NC_003085.1 + 9218 0.66 0.453167
Target:  5'- aCGUAGGCCc-CGGCGGcgAAGa--GCCCg -3'
miRNA:   3'- -GCAUCCGGcaGUCGCC--UUCgacCGGG- -5'
11427 3' -59.2 NC_003085.1 + 40966 0.67 0.446416
Target:  5'- uGU-GGCCccgccagcgcucgcaAGCGGcaaGGGCUGGCCCa -3'
miRNA:   3'- gCAuCCGGcag------------UCGCC---UUCGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 34297 0.67 0.415368
Target:  5'- --cGGGCCGUCAGCGcaGAGGg-GGCa- -3'
miRNA:   3'- gcaUCCGGCAGUCGC--CUUCgaCCGgg -5'
11427 3' -59.2 NC_003085.1 + 4100 0.67 0.406224
Target:  5'- gGUGGGCCG--GGCGGuccAGGCUGccaGCCa -3'
miRNA:   3'- gCAUCCGGCagUCGCC---UUCGAC---CGGg -5'
11427 3' -59.2 NC_003085.1 + 608 0.67 0.406224
Target:  5'- -cUGGcGCCGUCcugGGCGcgcucGAGGCUGGCgCg -3'
miRNA:   3'- gcAUC-CGGCAG---UCGC-----CUUCGACCGgG- -5'
11427 3' -59.2 NC_003085.1 + 26120 0.67 0.397208
Target:  5'- uCGgcGGCCGgCGGCGcuuGGCcGGCCa -3'
miRNA:   3'- -GCauCCGGCaGUCGCcu-UCGaCCGGg -5'
11427 3' -59.2 NC_003085.1 + 45404 0.68 0.388321
Target:  5'- gCGgAGcGCCGUCAGCGaAAGCauggGGCgCg -3'
miRNA:   3'- -GCaUC-CGGCAGUCGCcUUCGa---CCGgG- -5'
11427 3' -59.2 NC_003085.1 + 29255 0.68 0.379566
Target:  5'- --aAGG-CGUCcGCGucguGGCUGGCCCa -3'
miRNA:   3'- gcaUCCgGCAGuCGCcu--UCGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 11202 0.68 0.370944
Target:  5'- cCGUc-GUCGUCGcGCGGAAGUaggUGGCCa -3'
miRNA:   3'- -GCAucCGGCAGU-CGCCUUCG---ACCGGg -5'
11427 3' -59.2 NC_003085.1 + 47955 0.68 0.362456
Target:  5'- uGgcGGCCGUgaggcgcacCGGCcGAGGCUGGCg- -3'
miRNA:   3'- gCauCCGGCA---------GUCGcCUUCGACCGgg -5'
11427 3' -59.2 NC_003085.1 + 34929 0.68 0.34589
Target:  5'- gGUgcAGGCgcaCG-CGGCGGAGuuGCUGGCCg -3'
miRNA:   3'- gCA--UCCG---GCaGUCGCCUU--CGACCGGg -5'
11427 3' -59.2 NC_003085.1 + 12247 0.69 0.337813
Target:  5'- -cUGGGCCGcCAGaauugaaGGccGCUGGCgCCg -3'
miRNA:   3'- gcAUCCGGCaGUCg------CCuuCGACCG-GG- -5'
11427 3' -59.2 NC_003085.1 + 18066 0.69 0.321301
Target:  5'- gGUAGacgccucggacaaGCgG-CAGUGGGAGUUGGCCUg -3'
miRNA:   3'- gCAUC-------------CGgCaGUCGCCUUCGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 40819 0.69 0.312895
Target:  5'- gCGUcccGGCCGgccuguaccugaCGGCGGccGGGCUGGCCa -3'
miRNA:   3'- -GCAu--CCGGCa-----------GUCGCC--UUCGACCGGg -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.