miRNA display CGI


Results 1 - 20 of 75 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
25516 3' -54.6 NC_005337.1 + 42637 0.66 0.918193
Target:  5'- gCGGUggucgACGGcUGCUC--CGUGCGUGUc -3'
miRNA:   3'- -GUCGa----UGCCuGCGAGuaGCACGCACG- -5'
25516 3' -54.6 NC_005337.1 + 56045 0.68 0.864246
Target:  5'- gGGCgUGCGGuucguggacACGCUC-UCGUaCGUGCu -3'
miRNA:   3'- gUCG-AUGCC---------UGCGAGuAGCAcGCACG- -5'
25516 3' -54.6 NC_005337.1 + 133129 0.68 0.864246
Target:  5'- gAGCUgugauccccGCGGA-GCUgGUCGcgcGCGUGCu -3'
miRNA:   3'- gUCGA---------UGCCUgCGAgUAGCa--CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 21793 0.68 0.874756
Target:  5'- -uGCUGCGGGcCGCcuUCGacgcgccgcagcucuUCGUGCGcGCg -3'
miRNA:   3'- guCGAUGCCU-GCG--AGU---------------AGCACGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 85660 0.67 0.879126
Target:  5'- -cGCUGCGGAUGCUC-UUGUacaucGCGUuCa -3'
miRNA:   3'- guCGAUGCCUGCGAGuAGCA-----CGCAcG- -5'
25516 3' -54.6 NC_005337.1 + 45798 0.67 0.886229
Target:  5'- aCAGCUuggcgagcGCGGAguucUGCUCcUCGacgGCGUGUu -3'
miRNA:   3'- -GUCGA--------UGCCU----GCGAGuAGCa--CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 97941 0.67 0.891063
Target:  5'- -cGC-GCGGACGCUCuaCGUGUucccgaccuccuccGUGCg -3'
miRNA:   3'- guCGaUGCCUGCGAGuaGCACG--------------CACG- -5'
25516 3' -54.6 NC_005337.1 + 33105 0.67 0.905501
Target:  5'- -cGCUGCccuguguGGugGUUCAUCGUGguagGUGUg -3'
miRNA:   3'- guCGAUG-------CCugCGAGUAGCACg---CACG- -5'
25516 3' -54.6 NC_005337.1 + 16141 0.67 0.912284
Target:  5'- aCGGCgacgugACGGACGC--AUCGUGaUGUGa -3'
miRNA:   3'- -GUCGa-----UGCCUGCGagUAGCAC-GCACg -5'
25516 3' -54.6 NC_005337.1 + 122358 0.68 0.856479
Target:  5'- gGGUgccgcauCGGACGCcacgcgCAU-GUGCGUGCg -3'
miRNA:   3'- gUCGau-----GCCUGCGa-----GUAgCACGCACG- -5'
25516 3' -54.6 NC_005337.1 + 39108 0.68 0.848503
Target:  5'- uGGC-GCGGAaGCUCG-CGggcaGCGUGCg -3'
miRNA:   3'- gUCGaUGCCUgCGAGUaGCa---CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 23076 0.68 0.848503
Target:  5'- -cGCgGCGGcCGUgcccggCAUCGUGCGcGCg -3'
miRNA:   3'- guCGaUGCCuGCGa-----GUAGCACGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 63899 0.71 0.678525
Target:  5'- gCAGUacuucUACGGACGCgacCA-CGUGCGgcgGCg -3'
miRNA:   3'- -GUCG-----AUGCCUGCGa--GUaGCACGCa--CG- -5'
25516 3' -54.6 NC_005337.1 + 108843 0.7 0.778067
Target:  5'- aAGCgcGCGGGCGacacgcCGUCGUGCGaGCg -3'
miRNA:   3'- gUCGa-UGCCUGCga----GUAGCACGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 68556 0.69 0.805738
Target:  5'- aCGGCgcCGGGCGCgccccaCcgCGUGCG-GCu -3'
miRNA:   3'- -GUCGauGCCUGCGa-----GuaGCACGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 104179 0.69 0.805738
Target:  5'- aAGgUGCGcGCGCUCAcCGUGCGcgaGCg -3'
miRNA:   3'- gUCgAUGCcUGCGAGUaGCACGCa--CG- -5'
25516 3' -54.6 NC_005337.1 + 105341 0.69 0.82339
Target:  5'- gCGGCgGCGGGagGCUCccGUCGaucGCGUGCu -3'
miRNA:   3'- -GUCGaUGCCUg-CGAG--UAGCa--CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 101225 0.69 0.82339
Target:  5'- aGGUcGCGGAgGCgUCcgCGcGCGUGCu -3'
miRNA:   3'- gUCGaUGCCUgCG-AGuaGCaCGCACG- -5'
25516 3' -54.6 NC_005337.1 + 51635 0.69 0.831951
Target:  5'- gAGCUGCGGucgGCGCUCcgCGgucGCcaGCg -3'
miRNA:   3'- gUCGAUGCC---UGCGAGuaGCa--CGcaCG- -5'
25516 3' -54.6 NC_005337.1 + 20769 0.69 0.831951
Target:  5'- gGGCcGCGGccacGCGCUUcgCGgggacggGCGUGCc -3'
miRNA:   3'- gUCGaUGCC----UGCGAGuaGCa------CGCACG- -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.