miRNA display CGI


Results 1 - 20 of 38 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
20706 3' -54.6 NC_004688.1 + 67940 0.65 0.919665
Target:  5'- -cGGguGGGGaccguucuguccaGCGAGcgGACuCGCCCGUg -3'
miRNA:   3'- gaCU--UCCCg------------CGCUUuaCUG-GUGGGCG- -5'
20706 3' -54.6 NC_004688.1 + 84712 0.66 0.91008
Target:  5'- uUGuGGGGCaagcugGCcGAGUGcGCCACCUGCc -3'
miRNA:   3'- gACuUCCCG------CGcUUUAC-UGGUGGGCG- -5'
20706 3' -54.6 NC_004688.1 + 38179 0.66 0.91008
Target:  5'- cCUGAucccgauGGCGCGA----ACCGCCgGCg -3'
miRNA:   3'- -GACUuc-----CCGCGCUuuacUGGUGGgCG- -5'
20706 3' -54.6 NC_004688.1 + 4934 0.66 0.91008
Target:  5'- gCUGGAcGcaCGCGAGAUGGCCGCagagaUGCg -3'
miRNA:   3'- -GACUU-CccGCGCUUUACUGGUGg----GCG- -5'
20706 3' -54.6 NC_004688.1 + 95838 0.66 0.908212
Target:  5'- -cGAAGGGUaagcccgcucugGCGGgguccccccuguccGAUGGCCACaaGCa -3'
miRNA:   3'- gaCUUCCCG------------CGCU--------------UUACUGGUGggCG- -5'
20706 3' -54.6 NC_004688.1 + 43616 0.66 0.903765
Target:  5'- -aGAuGGGCGCcgucauGAGAUGcCCAC-CGCu -3'
miRNA:   3'- gaCUuCCCGCG------CUUUACuGGUGgGCG- -5'
20706 3' -54.6 NC_004688.1 + 23151 0.66 0.90312
Target:  5'- gUG-GGGGCGCGuc-UGGCCgacgguuACCaCGCg -3'
miRNA:   3'- gACuUCCCGCGCuuuACUGG-------UGG-GCG- -5'
20706 3' -54.6 NC_004688.1 + 21340 0.66 0.890398
Target:  5'- -cGAAuGGCGUGGucguUGaACUGCCCGCc -3'
miRNA:   3'- gaCUUcCCGCGCUuu--AC-UGGUGGGCG- -5'
20706 3' -54.6 NC_004688.1 + 105397 0.66 0.890398
Target:  5'- -aGGAGGGCGCGAcgcUGcuCCAUCgaaGCg -3'
miRNA:   3'- gaCUUCCCGCGCUuu-ACu-GGUGGg--CG- -5'
20706 3' -54.6 NC_004688.1 + 96728 0.67 0.883353
Target:  5'- -----cGGCGaUGAuGUaGACCGCCCGCg -3'
miRNA:   3'- gacuucCCGC-GCUuUA-CUGGUGGGCG- -5'
20706 3' -54.6 NC_004688.1 + 26775 0.67 0.883353
Target:  5'- -aGGAGGGCGuCGcugcGGUGGCCGCggaGCu -3'
miRNA:   3'- gaCUUCCCGC-GCu---UUACUGGUGgg-CG- -5'
20706 3' -54.6 NC_004688.1 + 92958 0.67 0.86083
Target:  5'- -cGAcGGGgGUGAcGUG-CCAgCCGCa -3'
miRNA:   3'- gaCUuCCCgCGCUuUACuGGUgGGCG- -5'
20706 3' -54.6 NC_004688.1 + 30092 0.67 0.852877
Target:  5'- --cGAGGGauCGucc-GACCGCCCGCg -3'
miRNA:   3'- gacUUCCCgcGCuuuaCUGGUGGGCG- -5'
20706 3' -54.6 NC_004688.1 + 12660 0.67 0.852877
Target:  5'- -aGGAuGGCGCGAAcgcACUugCCGCa -3'
miRNA:   3'- gaCUUcCCGCGCUUuacUGGugGGCG- -5'
20706 3' -54.6 NC_004688.1 + 98462 0.67 0.852877
Target:  5'- -aGAAGGGCGUGca---GCCAgCCGUu -3'
miRNA:   3'- gaCUUCCCGCGCuuuacUGGUgGGCG- -5'
20706 3' -54.6 NC_004688.1 + 97447 0.67 0.852071
Target:  5'- -gGgcGGGCGCcgcgaGGAAUGcgaaaauACCGCCCaGCa -3'
miRNA:   3'- gaCuuCCCGCG-----CUUUAC-------UGGUGGG-CG- -5'
20706 3' -54.6 NC_004688.1 + 99862 0.67 0.844715
Target:  5'- aUGAccucgggcuccAGGaaGCGCGAGGUGugCACaCGCu -3'
miRNA:   3'- gACU-----------UCC--CGCGCUUUACugGUGgGCG- -5'
20706 3' -54.6 NC_004688.1 + 26136 0.67 0.844715
Target:  5'- ----uGGGUGuUGAuGGUGGCCACCCGg -3'
miRNA:   3'- gacuuCCCGC-GCU-UUACUGGUGGGCg -5'
20706 3' -54.6 NC_004688.1 + 73412 0.68 0.827785
Target:  5'- aUGcGGGGCGUcacgGAGAUGcucGCC-CCCGUa -3'
miRNA:   3'- gACuUCCCGCG----CUUUAC---UGGuGGGCG- -5'
20706 3' -54.6 NC_004688.1 + 49980 0.68 0.810105
Target:  5'- -gGggGcGGUGCGGuAGUcGAUCGCCaCGCa -3'
miRNA:   3'- gaCuuC-CCGCGCU-UUA-CUGGUGG-GCG- -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.