miRNA display CGI


Results 1 - 20 of 29 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
18478 3' -58.1 NC_004681.1 + 48599 1.09 0.000712
Target:  5'- cAGAGGCAGGCAUCCGCCAAGAGGACGg -3'
miRNA:   3'- -UCUCCGUCCGUAGGCGGUUCUCCUGC- -5'
18478 3' -58.1 NC_004681.1 + 8288 0.66 0.657105
Target:  5'- cGGuGGCGcGGacgCCGCCA--AGGACGg -3'
miRNA:   3'- -UCuCCGU-CCguaGGCGGUucUCCUGC- -5'
18478 3' -58.1 NC_004681.1 + 36231 0.66 0.646484
Target:  5'- gAGAGuGCGGGCAgaggcuaugaacUCgGCCAcugGGAGGuCu -3'
miRNA:   3'- -UCUC-CGUCCGU------------AGgCGGU---UCUCCuGc -5'
18478 3' -58.1 NC_004681.1 + 17273 0.66 0.635851
Target:  5'- cGGGcGGCGGGUAUCC-CgGAGAcGACGc -3'
miRNA:   3'- -UCU-CCGUCCGUAGGcGgUUCUcCUGC- -5'
18478 3' -58.1 NC_004681.1 + 63211 0.67 0.572283
Target:  5'- aAGAGGUucGGC-UUCGCCcGGuGGGACGu -3'
miRNA:   3'- -UCUCCGu-CCGuAGGCGGuUC-UCCUGC- -5'
18478 3' -58.1 NC_004681.1 + 30158 0.67 0.551377
Target:  5'- -cAGGCGGcGCggCCGCgGAGuGGACc -3'
miRNA:   3'- ucUCCGUC-CGuaGGCGgUUCuCCUGc -5'
18478 3' -58.1 NC_004681.1 + 57740 0.67 0.54101
Target:  5'- cAGAGGCagugaagaAGGUGUUCGCCGAGcuucAGG-CGa -3'
miRNA:   3'- -UCUCCG--------UCCGUAGGCGGUUC----UCCuGC- -5'
18478 3' -58.1 NC_004681.1 + 53036 0.68 0.530709
Target:  5'- -uGGGUAGGCAcUCCGCCGAGGuccucGuGCGg -3'
miRNA:   3'- ucUCCGUCCGU-AGGCGGUUCU-----CcUGC- -5'
18478 3' -58.1 NC_004681.1 + 24983 0.68 0.520481
Target:  5'- cGGGGGCucuggcggcacAGGCGUCgGCggCAAGGGuGGCGa -3'
miRNA:   3'- -UCUCCG-----------UCCGUAGgCG--GUUCUC-CUGC- -5'
18478 3' -58.1 NC_004681.1 + 57072 0.68 0.51033
Target:  5'- cGuGGacgaAGGCGucugccUCCGCCAGGAcGGACu -3'
miRNA:   3'- uCuCCg---UCCGU------AGGCGGUUCU-CCUGc -5'
18478 3' -58.1 NC_004681.1 + 12703 0.69 0.4804
Target:  5'- uGGAGGCuGGCAUCgagggUGCCAcugagacggcuGAGGACc -3'
miRNA:   3'- -UCUCCGuCCGUAG-----GCGGUu----------CUCCUGc -5'
18478 3' -58.1 NC_004681.1 + 14451 0.72 0.310274
Target:  5'- cGAGGCGGaggcgaacgccgcgcGCGccgccUCCGCCGAGcAGGGCGc -3'
miRNA:   3'- uCUCCGUC---------------CGU-----AGGCGGUUC-UCCUGC- -5'
18478 3' -58.1 NC_004681.1 + 29547 0.72 0.307321
Target:  5'- --cGGCucGGGCAUcgCCGCCAAGuGGGCa -3'
miRNA:   3'- ucuCCG--UCCGUA--GGCGGUUCuCCUGc -5'
18478 3' -58.1 NC_004681.1 + 41715 0.69 0.451352
Target:  5'- uGGAGGUGGGCGuUUCGUCGuggcGGAGGAg- -3'
miRNA:   3'- -UCUCCGUCCGU-AGGCGGU----UCUCCUgc -5'
18478 3' -58.1 NC_004681.1 + 2972 0.69 0.441885
Target:  5'- gGGAGGgGGGCuUCgucacggucgagCGCCucGGGGACGg -3'
miRNA:   3'- -UCUCCgUCCGuAG------------GCGGuuCUCCUGC- -5'
18478 3' -58.1 NC_004681.1 + 49971 0.7 0.395425
Target:  5'- uAGAGcaguggcguuucuGCGGGguUCUGCCAGGGgcGGACGu -3'
miRNA:   3'- -UCUC-------------CGUCCguAGGCGGUUCU--CCUGC- -5'
18478 3' -58.1 NC_004681.1 + 14560 0.71 0.353053
Target:  5'- cGGAGGCGGcGCGcgcggcguucgccUCCGCCucGcGGGCGg -3'
miRNA:   3'- -UCUCCGUC-CGU-------------AGGCGGuuCuCCUGC- -5'
18478 3' -58.1 NC_004681.1 + 24217 0.74 0.246522
Target:  5'- uGAGGaacacguugaAGGCGUCCGCCAGGcuGGCGc -3'
miRNA:   3'- uCUCCg---------UCCGUAGGCGGUUCucCUGC- -5'
18478 3' -58.1 NC_004681.1 + 72033 0.75 0.201165
Target:  5'- uGAGGCAuacGGCaAUCCgGCCGAuGAGGACa -3'
miRNA:   3'- uCUCCGU---CCG-UAGG-CGGUU-CUCCUGc -5'
18478 3' -58.1 NC_004681.1 + 65006 0.66 0.657105
Target:  5'- -cAGGCGGGCG-CCGC-GGGAGaGAUGc -3'
miRNA:   3'- ucUCCGUCCGUaGGCGgUUCUC-CUGC- -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.