miRNA display CGI


Results 1 - 20 of 34 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
6976 3' -58.8 NC_001875.2 + 95235 0.66 0.789605
Target:  5'- gGUGGUGCaaggGCgacgCGcaGCGGCUgCGCCGc -3'
miRNA:   3'- gCACCACG----CGa---GUagCGCCGA-GUGGC- -5'
6976 3' -58.8 NC_001875.2 + 72754 0.66 0.789605
Target:  5'- --aGGUGCGCUCcaacgCGCGuGUgUCGCCc -3'
miRNA:   3'- gcaCCACGCGAGua---GCGC-CG-AGUGGc -5'
6976 3' -58.8 NC_001875.2 + 41016 0.66 0.789605
Target:  5'- gCGUGGUcGUGCUCAgUCGCgacacgucGGUgaaCACCa -3'
miRNA:   3'- -GCACCA-CGCGAGU-AGCG--------CCGa--GUGGc -5'
6976 3' -58.8 NC_001875.2 + 6948 0.66 0.789605
Target:  5'- uCGUGcGUGCGCcgcgaCAUCGCcacGGCgCGCUGc -3'
miRNA:   3'- -GCAC-CACGCGa----GUAGCG---CCGaGUGGC- -5'
6976 3' -58.8 NC_001875.2 + 33442 0.66 0.780543
Target:  5'- gCGUGaGcGCGUUCAgCGCGGCcgGCCa -3'
miRNA:   3'- -GCAC-CaCGCGAGUaGCGCCGagUGGc -5'
6976 3' -58.8 NC_001875.2 + 7039 0.66 0.768569
Target:  5'- gGUGGccgcGCGCUUGUCggccugguuccgcuGCGGCgacgcCACCGg -3'
miRNA:   3'- gCACCa---CGCGAGUAG--------------CGCCGa----GUGGC- -5'
6976 3' -58.8 NC_001875.2 + 92615 0.66 0.762038
Target:  5'- aGUGGUGgGCgcga-GCGGCUUGCgCGc -3'
miRNA:   3'- gCACCACgCGaguagCGCCGAGUG-GC- -5'
6976 3' -58.8 NC_001875.2 + 85857 0.66 0.762038
Target:  5'- uGUGGUGCGCguccgUCA-CGCuGGggUACCGc -3'
miRNA:   3'- gCACCACGCG-----AGUaGCG-CCgaGUGGC- -5'
6976 3' -58.8 NC_001875.2 + 98566 0.66 0.749765
Target:  5'- uGUGGUGUGCgUCAagggCGaCGGCUuuugcaacucggagCGCCGc -3'
miRNA:   3'- gCACCACGCG-AGUa---GC-GCCGA--------------GUGGC- -5'
6976 3' -58.8 NC_001875.2 + 29227 0.67 0.743085
Target:  5'- --aGGUGCGCaaacgCGCGGCUU-CCGu -3'
miRNA:   3'- gcaCCACGCGagua-GCGCCGAGuGGC- -5'
6976 3' -58.8 NC_001875.2 + 40612 0.67 0.743085
Target:  5'- cCGUGGUGgGCgccacCA-CGCGcCUCGCCu -3'
miRNA:   3'- -GCACCACgCGa----GUaGCGCcGAGUGGc -5'
6976 3' -58.8 NC_001875.2 + 93240 0.67 0.733463
Target:  5'- --cGGUGCGCUCcucgacgCGCaGCUgGCCc -3'
miRNA:   3'- gcaCCACGCGAGua-----GCGcCGAgUGGc -5'
6976 3' -58.8 NC_001875.2 + 9680 0.67 0.733463
Target:  5'- --aGGUacacCGCUcCGUUGgGGCUCGCCGu -3'
miRNA:   3'- gcaCCAc---GCGA-GUAGCgCCGAGUGGC- -5'
6976 3' -58.8 NC_001875.2 + 3094 0.67 0.733463
Target:  5'- gCGUGcacGCGC-CGgggCGCGGCUCGCgGc -3'
miRNA:   3'- -GCACca-CGCGaGUa--GCGCCGAGUGgC- -5'
6976 3' -58.8 NC_001875.2 + 101631 0.67 0.732496
Target:  5'- aGUGGUcGCcacaacgGC-CGUCGCGGCgaacggCGCCa -3'
miRNA:   3'- gCACCA-CG-------CGaGUAGCGCCGa-----GUGGc -5'
6976 3' -58.8 NC_001875.2 + 33498 0.67 0.727648
Target:  5'- --gGGUGCGCcaaccgauuguacaCGcagCGCGGCUUGCCGg -3'
miRNA:   3'- gcaCCACGCGa-------------GUa--GCGCCGAGUGGC- -5'
6976 3' -58.8 NC_001875.2 + 69252 0.67 0.723756
Target:  5'- --cGGcGCGCUgGgcCGCGGCUCgaGCCGu -3'
miRNA:   3'- gcaCCaCGCGAgUa-GCGCCGAG--UGGC- -5'
6976 3' -58.8 NC_001875.2 + 67265 0.67 0.713971
Target:  5'- gGUGGcGCGCUUgaugaaccacgaGUCGcCGGCcagCACCa -3'
miRNA:   3'- gCACCaCGCGAG------------UAGC-GCCGa--GUGGc -5'
6976 3' -58.8 NC_001875.2 + 99014 0.67 0.70412
Target:  5'- -uUGGUGCcacGCUCGcaaGCGGCgccguUCGCCGa -3'
miRNA:   3'- gcACCACG---CGAGUag-CGCCG-----AGUGGC- -5'
6976 3' -58.8 NC_001875.2 + 50000 0.67 0.701152
Target:  5'- -----gGCGCUUGUCGCGGUuggggcgcgcguggUCGCCGg -3'
miRNA:   3'- gcaccaCGCGAGUAGCGCCG--------------AGUGGC- -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.