miRNA display CGI


Results 1 - 15 of 15 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
23111 3' -56.5 NC_005178.1 + 12130 0.66 0.489647
Target:  5'- -aGGGAGGCgGCGACcaucgccuuGAUccgGGCCGCCu- -3'
miRNA:   3'- caUCCUCUG-CGUUG---------CUA---CCGGCGGua -5'
23111 3' -56.5 NC_005178.1 + 25198 0.66 0.489647
Target:  5'- --cGGGGGCucuGUAGCGAUuGCCGCCu- -3'
miRNA:   3'- cauCCUCUG---CGUUGCUAcCGGCGGua -5'
23111 3' -56.5 NC_005178.1 + 28125 0.67 0.458277
Target:  5'- cUGGGcGGugGCAcCGAUGGCggCGCCc- -3'
miRNA:   3'- cAUCC-UCugCGUuGCUACCG--GCGGua -5'
23111 3' -56.5 NC_005178.1 + 22099 0.67 0.45725
Target:  5'- -aGGGGGuugcCGUAaauauccACGAUGGCgGCCAUc -3'
miRNA:   3'- caUCCUCu---GCGU-------UGCUACCGgCGGUA- -5'
23111 3' -56.5 NC_005178.1 + 26317 0.67 0.408507
Target:  5'- uUGGGccgaagacgcuGGACGCGACGAUGGUgcagaacaGCCGg -3'
miRNA:   3'- cAUCC-----------UCUGCGUUGCUACCGg-------CGGUa -5'
23111 3' -56.5 NC_005178.1 + 14943 0.67 0.408507
Target:  5'- -cGGGAGACagGCGuccuggACGuggucgGGCCGCCAUc -3'
miRNA:   3'- caUCCUCUG--CGU------UGCua----CCGGCGGUA- -5'
23111 3' -56.5 NC_005178.1 + 25935 0.68 0.398964
Target:  5'- -cAGcGGGAUGCcacGugGAUGGuuGCCAUc -3'
miRNA:   3'- caUC-CUCUGCG---UugCUACCggCGGUA- -5'
23111 3' -56.5 NC_005178.1 + 25390 0.69 0.335457
Target:  5'- -gGGGAGACagccgaccagcagGCGgcccggaucaagGCGAUGGUCGCCGc -3'
miRNA:   3'- caUCCUCUG-------------CGU------------UGCUACCGGCGGUa -5'
23111 3' -56.5 NC_005178.1 + 2768 0.69 0.311728
Target:  5'- -cAGGAGACGCAGCuGGcccUGGucgaaaccaaCCGCCAg -3'
miRNA:   3'- caUCCUCUGCGUUG-CU---ACC----------GGCGGUa -5'
23111 3' -56.5 NC_005178.1 + 21038 0.7 0.273856
Target:  5'- -cGGGGGGCGCGGCGugcgucgaGGuuGCCGg -3'
miRNA:   3'- caUCCUCUGCGUUGCua------CCggCGGUa -5'
23111 3' -56.5 NC_005178.1 + 8595 0.7 0.266738
Target:  5'- -aGGGucaccuGGCGCAcgGCGAUGGCCguGCCGg -3'
miRNA:   3'- caUCCu-----CUGCGU--UGCUACCGG--CGGUa -5'
23111 3' -56.5 NC_005178.1 + 24737 0.73 0.182208
Target:  5'- aUAGGAGACGCcgAAC-AUGGCgGCCGc -3'
miRNA:   3'- cAUCCUCUGCG--UUGcUACCGgCGGUa -5'
23111 3' -56.5 NC_005178.1 + 26180 0.74 0.162825
Target:  5'- -----cGGCGCGGCGGUGGCCGCUg- -3'
miRNA:   3'- cauccuCUGCGUUGCUACCGGCGGua -5'
23111 3' -56.5 NC_005178.1 + 4714 0.75 0.122265
Target:  5'- -gAGGuuGACcuuGCAGCGAUGGUCGCCAa -3'
miRNA:   3'- caUCCu-CUG---CGUUGCUACCGGCGGUa -5'
23111 3' -56.5 NC_005178.1 + 15426 1.05 0.000789
Target:  5'- gGUAGGAGACGCAACGAUGGCCGCCAUc -3'
miRNA:   3'- -CAUCCUCUGCGUUGCUACCGGCGGUA- -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.