miRNA display CGI


Results 1 - 20 of 150 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
28988 3' -60.1 NC_006146.1 + 161978 0.66 0.823525
Target:  5'- -aUCCACCGUgGa-GCCGGuCUCCcacggggcguuGCCu -3'
miRNA:   3'- ggAGGUGGCAgUagCGGCC-GAGG-----------CGG- -5'
28988 3' -60.1 NC_006146.1 + 153426 0.66 0.822716
Target:  5'- cCCaCCACCGUCAUguCCGGCaUCUacgggcgGCCc -3'
miRNA:   3'- -GGaGGUGGCAGUAgcGGCCG-AGG-------CGG- -5'
28988 3' -60.1 NC_006146.1 + 48519 0.66 0.815362
Target:  5'- aCCUCCGCguUCcUgGCCGccGCaUCCGCCu -3'
miRNA:   3'- -GGAGGUGgcAGuAgCGGC--CG-AGGCGG- -5'
28988 3' -60.1 NC_006146.1 + 67201 0.66 0.815362
Target:  5'- aUUCCACUGgcCGUgGCCGGU--CGCCu -3'
miRNA:   3'- gGAGGUGGCa-GUAgCGGCCGagGCGG- -5'
28988 3' -60.1 NC_006146.1 + 56508 0.66 0.815362
Target:  5'- gUCgggCCGCgggGUCGUCGCCGGCcaUCagcaGCUg -3'
miRNA:   3'- -GGa--GGUGg--CAGUAGCGGCCG--AGg---CGG- -5'
28988 3' -60.1 NC_006146.1 + 57895 0.66 0.815362
Target:  5'- gCUCCAUCGccUCAagGCCGagUCCGUCa -3'
miRNA:   3'- gGAGGUGGC--AGUagCGGCcgAGGCGG- -5'
28988 3' -60.1 NC_006146.1 + 4718 0.66 0.815362
Target:  5'- gCCggCACCGagAUggucacccccCGCUGGC-CCGCCa -3'
miRNA:   3'- -GGagGUGGCagUA----------GCGGCCGaGGCGG- -5'
28988 3' -60.1 NC_006146.1 + 155746 0.66 0.814538
Target:  5'- gCUUCCACgG-CGUCGCCcgaggaGCUguagaccCCGCCg -3'
miRNA:   3'- -GGAGGUGgCaGUAGCGGc-----CGA-------GGCGG- -5'
28988 3' -60.1 NC_006146.1 + 155066 0.66 0.80705
Target:  5'- gUCUCUAUCca-AUCGCuCGGCUCgaUGCCg -3'
miRNA:   3'- -GGAGGUGGcagUAGCG-GCCGAG--GCGG- -5'
28988 3' -60.1 NC_006146.1 + 55233 0.66 0.80705
Target:  5'- gCCUCCGCCcucagGUaCGUCGCCcGGg-CgGCCc -3'
miRNA:   3'- -GGAGGUGG-----CA-GUAGCGG-CCgaGgCGG- -5'
28988 3' -60.1 NC_006146.1 + 142764 0.66 0.80705
Target:  5'- --gCCAauCCG-CA-CGCaGGCUCCGCCu -3'
miRNA:   3'- ggaGGU--GGCaGUaGCGgCCGAGGCGG- -5'
28988 3' -60.1 NC_006146.1 + 95114 0.66 0.80705
Target:  5'- cCCUgCAUCGUCugCGUgGGCU-CGCCc -3'
miRNA:   3'- -GGAgGUGGCAGuaGCGgCCGAgGCGG- -5'
28988 3' -60.1 NC_006146.1 + 4331 0.66 0.80705
Target:  5'- gCUUCaCGCCcagGUCAcgcgcguagUCGCUGGCcgCCGUCa -3'
miRNA:   3'- -GGAG-GUGG---CAGU---------AGCGGCCGa-GGCGG- -5'
28988 3' -60.1 NC_006146.1 + 158183 0.66 0.801993
Target:  5'- gCCUCCuugGCCGUCAggacccccuugucaaUgGCCaGGCUCCu-- -3'
miRNA:   3'- -GGAGG---UGGCAGU---------------AgCGG-CCGAGGcgg -5'
28988 3' -60.1 NC_006146.1 + 55994 0.66 0.798594
Target:  5'- uCUUCCACCGccccgaGUCGCUGGCcagcguggUgGCCu -3'
miRNA:   3'- -GGAGGUGGCag----UAGCGGCCGa-------GgCGG- -5'
28988 3' -60.1 NC_006146.1 + 156999 0.66 0.798594
Target:  5'- cCUUCCAaaaaGUCA-CGCgCGGCcUCgGCCg -3'
miRNA:   3'- -GGAGGUgg--CAGUaGCG-GCCG-AGgCGG- -5'
28988 3' -60.1 NC_006146.1 + 48684 0.66 0.798594
Target:  5'- gCUUCGCCGgccucCcUCGCCcgccGCUCCGUCc -3'
miRNA:   3'- gGAGGUGGCa----GuAGCGGc---CGAGGCGG- -5'
28988 3' -60.1 NC_006146.1 + 41090 0.66 0.798594
Target:  5'- aCUgCAUCGUCGUC-CgGuGCUCCGUg -3'
miRNA:   3'- gGAgGUGGCAGUAGcGgC-CGAGGCGg -5'
28988 3' -60.1 NC_006146.1 + 157588 0.66 0.795173
Target:  5'- aCUCCACCGcccuggugcccagCAcguggggguagUCGCgGGCgggcaCCGCCu -3'
miRNA:   3'- gGAGGUGGCa------------GU-----------AGCGgCCGa----GGCGG- -5'
28988 3' -60.1 NC_006146.1 + 135128 0.66 0.790002
Target:  5'- gCUCCggcggggggugGCCGggcCGcUGCCGGgUCCGCUg -3'
miRNA:   3'- gGAGG-----------UGGCa--GUaGCGGCCgAGGCGG- -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.