miRNA display CGI


Results 1 - 20 of 66 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
19201 3' -54.3 NC_004684.1 + 17058 0.66 0.792457
Target:  5'- cCAAGGagGC-CGCCCGccuggccgGGCGCACCGa-- -3'
miRNA:   3'- -GUUCU--UGaGCGGGU--------UCGUGUGGCgua -5'
19201 3' -54.3 NC_004684.1 + 42814 0.66 0.792457
Target:  5'- uCAGGAcguGCUCGCCCG-GCAUGa-GCAUg -3'
miRNA:   3'- -GUUCU---UGAGCGGGUuCGUGUggCGUA- -5'
19201 3' -54.3 NC_004684.1 + 63070 0.66 0.792457
Target:  5'- aUAGGcACUccagugCGCCC-GGUGCACCGCGUc -3'
miRNA:   3'- -GUUCuUGA------GCGGGuUCGUGUGGCGUA- -5'
19201 3' -54.3 NC_004684.1 + 42458 0.66 0.792457
Target:  5'- gAGGAACUucucggggucgcCGCCCAGcgcGCugAUCGCGg -3'
miRNA:   3'- gUUCUUGA------------GCGGGUU---CGugUGGCGUa -5'
19201 3' -54.3 NC_004684.1 + 43835 0.66 0.792457
Target:  5'- cCAGGuACUCGUCCccgcacgacAGGCGCAUCgGCAg -3'
miRNA:   3'- -GUUCuUGAGCGGG---------UUCGUGUGG-CGUa -5'
19201 3' -54.3 NC_004684.1 + 39304 0.66 0.791468
Target:  5'- ---cAGCUCGCCUaacGAGCGCcccaguuGCCGCGc -3'
miRNA:   3'- guucUUGAGCGGG---UUCGUG-------UGGCGUa -5'
19201 3' -54.3 NC_004684.1 + 62389 0.66 0.782498
Target:  5'- uCAGGAGCggcaccgggcccUUGCCCucGCGCugCGCc- -3'
miRNA:   3'- -GUUCUUG------------AGCGGGuuCGUGugGCGua -5'
19201 3' -54.3 NC_004684.1 + 32946 0.66 0.782498
Target:  5'- gCAGGAuggGC-CGCUCGggcAGCACACUGCu- -3'
miRNA:   3'- -GUUCU---UGaGCGGGU---UCGUGUGGCGua -5'
19201 3' -54.3 NC_004684.1 + 5110 0.66 0.782498
Target:  5'- -uGGAGCagCGCCUggaccugcugaAGGC-CACCGCAUg -3'
miRNA:   3'- guUCUUGa-GCGGG-----------UUCGuGUGGCGUA- -5'
19201 3' -54.3 NC_004684.1 + 3466 0.66 0.782498
Target:  5'- -----uCUCGCCCAAGCucagccacgccGgGCCGCAc -3'
miRNA:   3'- guucuuGAGCGGGUUCG-----------UgUGGCGUa -5'
19201 3' -54.3 NC_004684.1 + 11810 0.66 0.77238
Target:  5'- gGAGAAgg-GCgCGAGCGCGCCGCu- -3'
miRNA:   3'- gUUCUUgagCGgGUUCGUGUGGCGua -5'
19201 3' -54.3 NC_004684.1 + 30003 0.66 0.77238
Target:  5'- aCGAuGACcUGCCCGAGCugGCCGa-- -3'
miRNA:   3'- -GUUcUUGaGCGGGUUCGugUGGCgua -5'
19201 3' -54.3 NC_004684.1 + 39574 0.66 0.769316
Target:  5'- -cAGGAgUCGCCCAccaggAGCAggccaggaccgaacCGCCGCGc -3'
miRNA:   3'- guUCUUgAGCGGGU-----UCGU--------------GUGGCGUa -5'
19201 3' -54.3 NC_004684.1 + 64749 0.66 0.762114
Target:  5'- uCAGGAacaccaGCUCGCUCAugcguuGGC-CACCGCc- -3'
miRNA:   3'- -GUUCU------UGAGCGGGU------UCGuGUGGCGua -5'
19201 3' -54.3 NC_004684.1 + 6831 0.66 0.751712
Target:  5'- gAGGAGCUgGCCUAcggcgcgaagGGCgACGCCGUg- -3'
miRNA:   3'- gUUCUUGAgCGGGU----------UCG-UGUGGCGua -5'
19201 3' -54.3 NC_004684.1 + 47920 0.66 0.751712
Target:  5'- cCAGGGGCgcaugUCGCgCGGGC-CACCGCc- -3'
miRNA:   3'- -GUUCUUG-----AGCGgGUUCGuGUGGCGua -5'
19201 3' -54.3 NC_004684.1 + 39488 0.66 0.751712
Target:  5'- cCAGGAACUCGCgCAGGcCGgGCCa--- -3'
miRNA:   3'- -GUUCUUGAGCGgGUUC-GUgUGGcgua -5'
19201 3' -54.3 NC_004684.1 + 42844 0.67 0.741185
Target:  5'- cCGGGAcGCUaucgcgGCCC-GGCACACCGCc- -3'
miRNA:   3'- -GUUCU-UGAg-----CGGGuUCGUGUGGCGua -5'
19201 3' -54.3 NC_004684.1 + 33101 0.67 0.741185
Target:  5'- --uGAugUCGCCgGA-CACGCCGCc- -3'
miRNA:   3'- guuCUugAGCGGgUUcGUGUGGCGua -5'
19201 3' -54.3 NC_004684.1 + 47843 0.67 0.741185
Target:  5'- gGAGAccuggcAC-CGCCC-GGCGCAcCCGCAg -3'
miRNA:   3'- gUUCU------UGaGCGGGuUCGUGU-GGCGUa -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.