miRNA display CGI


Results 1 - 20 of 28 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
28846 3' -54.6 NC_006146.1 + 43475 0.66 0.960997
Target:  5'- aGCCUcCUCGgCGGCCGUugacacCGGCuccgGCGGCGg -3'
miRNA:   3'- -UGGA-GAGCaGCUGGUA------GUCG----CGUUGC- -5'
28846 3' -54.6 NC_006146.1 + 129318 0.66 0.953531
Target:  5'- gGCCUCUCcgccUCGGCCAgcCAGUagGCGGCc -3'
miRNA:   3'- -UGGAGAGc---AGCUGGUa-GUCG--CGUUGc -5'
28846 3' -54.6 NC_006146.1 + 125905 0.66 0.953531
Target:  5'- uCCggCUCGUgGAgucugcgccuCCGUCGGCGC-ACGa -3'
miRNA:   3'- uGGa-GAGCAgCU----------GGUAGUCGCGuUGC- -5'
28846 3' -54.6 NC_006146.1 + 111660 0.66 0.953134
Target:  5'- cAUCUCUCagaUCcgGGCCAUCAagccaaucccccuGCGCGACGg -3'
miRNA:   3'- -UGGAGAGc--AG--CUGGUAGU-------------CGCGUUGC- -5'
28846 3' -54.6 NC_006146.1 + 93565 0.66 0.949459
Target:  5'- aGCCggcCUCGUCcuucACCAUCAgccugggcauGCGCGACc -3'
miRNA:   3'- -UGGa--GAGCAGc---UGGUAGU----------CGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 168881 0.67 0.945157
Target:  5'- gGCCUagggucaUCGUUGccgcCCcgCAGCGCGACu -3'
miRNA:   3'- -UGGAg------AGCAGCu---GGuaGUCGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 126079 0.67 0.945157
Target:  5'- cACCUC-CGUC-ACCAgccgCAGCGgGGCc -3'
miRNA:   3'- -UGGAGaGCAGcUGGUa---GUCGCgUUGc -5'
28846 3' -54.6 NC_006146.1 + 56512 0.67 0.945157
Target:  5'- gGCCgcggggUCGUCGccgGCCAUCAGCaGCuGACGc -3'
miRNA:   3'- -UGGag----AGCAGC---UGGUAGUCG-CG-UUGC- -5'
28846 3' -54.6 NC_006146.1 + 40891 0.67 0.940621
Target:  5'- aGCCggggcCUCGUCuGCgAUCcgGGCGCGAUGg -3'
miRNA:   3'- -UGGa----GAGCAGcUGgUAG--UCGCGUUGC- -5'
28846 3' -54.6 NC_006146.1 + 115428 0.67 0.940621
Target:  5'- gGCCucguUCUCGcccgCGGCCAUCgAGCGgGugGc -3'
miRNA:   3'- -UGG----AGAGCa---GCUGGUAG-UCGCgUugC- -5'
28846 3' -54.6 NC_006146.1 + 54938 0.68 0.908434
Target:  5'- gGCCUCgaCGUCuGCCcgCGGgGCGACc -3'
miRNA:   3'- -UGGAGa-GCAGcUGGuaGUCgCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 58529 0.68 0.908434
Target:  5'- uAUCUCUgCaagCGGCCgGUCAGCGUGGCGg -3'
miRNA:   3'- -UGGAGA-Gca-GCUGG-UAGUCGCGUUGC- -5'
28846 3' -54.6 NC_006146.1 + 47642 0.68 0.895819
Target:  5'- aGCCgUCUCuGgccgCGGCCcggccCAGCGCGGCGg -3'
miRNA:   3'- -UGG-AGAG-Ca---GCUGGua---GUCGCGUUGC- -5'
28846 3' -54.6 NC_006146.1 + 71880 0.68 0.891854
Target:  5'- gGCCUCUacaCGGCCGUCAcgcggacccuccugcGCGCGGCc -3'
miRNA:   3'- -UGGAGAgcaGCUGGUAGU---------------CGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 5737 0.69 0.882288
Target:  5'- cACCUCUgGUCGcUCA--AGCGCAGCc -3'
miRNA:   3'- -UGGAGAgCAGCuGGUagUCGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 825 0.69 0.867875
Target:  5'- cCCUCcCGcCGGCCAUCcccacGCGCGGCc -3'
miRNA:   3'- uGGAGaGCaGCUGGUAGu----CGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 1757 0.69 0.867875
Target:  5'- cCCUCcCGcCGGCCAUCcccacGCGCGGCc -3'
miRNA:   3'- uGGAGaGCaGCUGGUAGu----CGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 2689 0.69 0.867875
Target:  5'- cCCUCcCGcCGGCCAUCcccacGCGCGGCc -3'
miRNA:   3'- uGGAGaGCaGCUGGUAGu----CGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 3621 0.69 0.867875
Target:  5'- cCCUCcCGcCGGCCAUCcccacGCGCGGCc -3'
miRNA:   3'- uGGAGaGCaGCUGGUAGu----CGCGUUGc -5'
28846 3' -54.6 NC_006146.1 + 85709 0.69 0.860349
Target:  5'- gUCUCUCGuccaUCGGCCAUgucaGGCGUGACa -3'
miRNA:   3'- uGGAGAGC----AGCUGGUAg---UCGCGUUGc -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.