miRNA display CGI


Results 1 - 20 of 58 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
19520 3' -57.8 NC_004685.1 + 21331 0.66 0.679595
Target:  5'- uUCGUCAcCCGCacccuGUGCGAcgggccgauucagGCCGAcgGCAg -3'
miRNA:   3'- gAGCAGU-GGCGc----CACGCU-------------UGGCU--CGU- -5'
19520 3' -57.8 NC_004685.1 + 2646 0.66 0.670126
Target:  5'- cCUCGUCcUCGUGGUaguGCGggUCGucGCGa -3'
miRNA:   3'- -GAGCAGuGGCGCCA---CGCuuGGCu-CGU- -5'
19520 3' -57.8 NC_004685.1 + 11870 0.66 0.669073
Target:  5'- aUCGUCGCCGacgacgugaacaCGGcccGCGccuuguucucugaGACCGAGCGg -3'
miRNA:   3'- gAGCAGUGGC------------GCCa--CGC-------------UUGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 44455 0.66 0.659575
Target:  5'- cCUCGUCACCuGCgcgcuGGUGUGGAUCaGGUc -3'
miRNA:   3'- -GAGCAGUGG-CG-----CCACGCUUGGcUCGu -5'
19520 3' -57.8 NC_004685.1 + 48693 0.66 0.659575
Target:  5'- gUCGaCACCaGCGGa-CGGGCCGAGUc -3'
miRNA:   3'- gAGCaGUGG-CGCCacGCUUGGCUCGu -5'
19520 3' -57.8 NC_004685.1 + 36374 0.66 0.649
Target:  5'- --gGUCGCCGCGcccgacgGCGGcCUGGGCAa -3'
miRNA:   3'- gagCAGUGGCGCca-----CGCUuGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 57009 0.66 0.649
Target:  5'- -aCGUCACgGCGcccUGCGGGCCGAc-- -3'
miRNA:   3'- gaGCAGUGgCGCc--ACGCUUGGCUcgu -5'
19520 3' -57.8 NC_004685.1 + 23749 0.66 0.63841
Target:  5'- -gCGUCGCCGUgucgggcaGGUccaGCuuGCCGGGCAg -3'
miRNA:   3'- gaGCAGUGGCG--------CCA---CGcuUGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 63992 0.66 0.63841
Target:  5'- uCUCGgucaGCCaGCGuUGCcGGCCGAGCAc -3'
miRNA:   3'- -GAGCag--UGG-CGCcACGcUUGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 27668 0.66 0.637351
Target:  5'- cCUCGUUGCCGUcagcgucgaucGGgGCGAagcggccGCCGGGCc -3'
miRNA:   3'- -GAGCAGUGGCG-----------CCaCGCU-------UGGCUCGu -5'
19520 3' -57.8 NC_004685.1 + 26530 0.66 0.628875
Target:  5'- uCUCGcCGCCGCacucGGUGCGcgucgccaggaucgcGCUGGGCGa -3'
miRNA:   3'- -GAGCaGUGGCG----CCACGCu--------------UGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 55898 0.66 0.627815
Target:  5'- ----cCGCCGaCGGUGUGGGCC-AGCAc -3'
miRNA:   3'- gagcaGUGGC-GCCACGCUUGGcUCGU- -5'
19520 3' -57.8 NC_004685.1 + 8854 0.66 0.627815
Target:  5'- --gGUCACCGCGG-GUGAcCCGucGCc -3'
miRNA:   3'- gagCAGUGGCGCCaCGCUuGGCu-CGu -5'
19520 3' -57.8 NC_004685.1 + 57299 0.66 0.627815
Target:  5'- uUgGUaCAgCGCcaGGUGCGAGUCGAGCAg -3'
miRNA:   3'- gAgCA-GUgGCG--CCACGCUUGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 15244 0.67 0.617224
Target:  5'- gUCuUCAUCgGCGGUGCGucAACCcaGAGCAc -3'
miRNA:   3'- gAGcAGUGG-CGCCACGC--UUGG--CUCGU- -5'
19520 3' -57.8 NC_004685.1 + 30262 0.67 0.617224
Target:  5'- -cCGUUGCCGCcuugGGUGUacaGGCCGAGCc -3'
miRNA:   3'- gaGCAGUGGCG----CCACGc--UUGGCUCGu -5'
19520 3' -57.8 NC_004685.1 + 65748 0.67 0.606645
Target:  5'- -aUGUCcCUGCucgGGuUGUGAACCGGGCAc -3'
miRNA:   3'- gaGCAGuGGCG---CC-ACGCUUGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 67073 0.67 0.596086
Target:  5'- -cCGUCGCUGCcGaGCaGGCCGAGCGg -3'
miRNA:   3'- gaGCAGUGGCGcCaCGcUUGGCUCGU- -5'
19520 3' -57.8 NC_004685.1 + 35208 0.67 0.596086
Target:  5'- gCUgGUCGCgCGCacGGUGCGGAUgGAGaCGu -3'
miRNA:   3'- -GAgCAGUG-GCG--CCACGCUUGgCUC-GU- -5'
19520 3' -57.8 NC_004685.1 + 45877 0.67 0.596086
Target:  5'- aUCGUCACCGCGacgGUGAaggccAUCGAGgAu -3'
miRNA:   3'- gAGCAGUGGCGCca-CGCU-----UGGCUCgU- -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.