miRNA display CGI


Results 1 - 20 of 103 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
5149 3' -56.9 NC_001798.1 + 1359 0.69 0.744207
Target:  5'- -cGCCGGGCCGc---CGCGCACg--- -3'
miRNA:   3'- gcCGGCCCGGUacuuGCGCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 1834 0.72 0.553274
Target:  5'- uCGG-CGGGCCAguccgcGGCGCGCACggcgUUGa -3'
miRNA:   3'- -GCCgGCCCGGUac----UUGCGCGUGa---AAC- -5'
5149 3' -56.9 NC_001798.1 + 2289 0.67 0.842542
Target:  5'- gCGGCCagcgaGGCCA---GCGCGCGCg--- -3'
miRNA:   3'- -GCCGGc----CCGGUacuUGCGCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 2817 0.68 0.79737
Target:  5'- gGGCCcaGGGCCccGGcgaccaggcucacgGCGCGCACg--- -3'
miRNA:   3'- gCCGG--CCCGGuaCU--------------UGCGCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 2992 0.68 0.800049
Target:  5'- cCGGCCcgcGGGCCccGGGCGCggggGCGCg--- -3'
miRNA:   3'- -GCCGG---CCCGGuaCUUGCG----CGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 3200 0.66 0.887246
Target:  5'- cCGGCCGGcGCgGaggcGGGCGCgGCGCUc-- -3'
miRNA:   3'- -GCCGGCC-CGgUa---CUUGCG-CGUGAaac -5'
5149 3' -56.9 NC_001798.1 + 4351 0.67 0.82606
Target:  5'- gCGGCCGaGcGCCGgcgGGGgGCGCGCc--- -3'
miRNA:   3'- -GCCGGC-C-CGGUa--CUUgCGCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 5928 0.71 0.623968
Target:  5'- gGGgCGGGCCGUuccuCGCGCACa--- -3'
miRNA:   3'- gCCgGCCCGGUAcuu-GCGCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 6674 0.68 0.781943
Target:  5'- aGGCCGGGCgccgccuuCGUGGACGgGaCACc--- -3'
miRNA:   3'- gCCGGCCCG--------GUACUUGCgC-GUGaaac -5'
5149 3' -56.9 NC_001798.1 + 11982 0.68 0.753809
Target:  5'- aGGCgGGGCUGUGGGCGUGgUGCg--- -3'
miRNA:   3'- gCCGgCCCGGUACUUGCGC-GUGaaac -5'
5149 3' -56.9 NC_001798.1 + 15052 0.71 0.623968
Target:  5'- gCGGauGGGCCcgGGGCGCGCGg---- -3'
miRNA:   3'- -GCCggCCCGGuaCUUGCGCGUgaaac -5'
5149 3' -56.9 NC_001798.1 + 16605 0.66 0.86583
Target:  5'- gCGGCCcagGGGCuCGUGAcggACGaCGCGCc--- -3'
miRNA:   3'- -GCCGG---CCCG-GUACU---UGC-GCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 20511 0.66 0.850502
Target:  5'- uGGCCgGGGCCuggGGuuGCGcCGCGCg--- -3'
miRNA:   3'- gCCGG-CCCGGua-CU--UGC-GCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 22322 0.66 0.887246
Target:  5'- gGGCCGccGCCAcGGACGCGgACg--- -3'
miRNA:   3'- gCCGGCc-CGGUaCUUGCGCgUGaaac -5'
5149 3' -56.9 NC_001798.1 + 22748 0.66 0.858267
Target:  5'- gGGCCGaGGUCGcGAugGCGgACg--- -3'
miRNA:   3'- gCCGGC-CCGGUaCUugCGCgUGaaac -5'
5149 3' -56.9 NC_001798.1 + 23751 0.66 0.850502
Target:  5'- gCGGCCuccGGcGCCuucuACGCGCGCUa-- -3'
miRNA:   3'- -GCCGG---CC-CGGuacuUGCGCGUGAaac -5'
5149 3' -56.9 NC_001798.1 + 23808 0.69 0.708899
Target:  5'- uGGCCcgGGGCCGgccccccgcccccgGGGCGCGUGCUg-- -3'
miRNA:   3'- gCCGG--CCCGGUa-------------CUUGCGCGUGAaac -5'
5149 3' -56.9 NC_001798.1 + 24206 0.73 0.474798
Target:  5'- gCGGCCGccguGGCCAUGAGCcgccgcuacgaccGCGCGCa--- -3'
miRNA:   3'- -GCCGGC----CCGGUACUUG-------------CGCGUGaaac -5'
5149 3' -56.9 NC_001798.1 + 24840 0.66 0.886564
Target:  5'- uGGCCGGcggcagcgaggccGCCGUGGccgcCGUGCGCgccgUGa -3'
miRNA:   3'- gCCGGCC-------------CGGUACUu---GCGCGUGaa--AC- -5'
5149 3' -56.9 NC_001798.1 + 26005 0.67 0.82606
Target:  5'- cCGGCCgcguguucGGGCCGggGGucuuCGCGCGCg--- -3'
miRNA:   3'- -GCCGG--------CCCGGUa-CUu---GCGCGUGaaac -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.