miRNA display CGI


Results 1 - 20 of 49 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
19401 3' -56.2 NC_004685.1 + 33113 0.66 0.751663
Target:  5'- gCGACugGAU-CGCgGCGUGGGacGCg -3'
miRNA:   3'- aGUUGugCUAgGCGaCGCGCCCcuUG- -5'
19401 3' -56.2 NC_004685.1 + 33068 0.66 0.741474
Target:  5'- uUCuGCuCGAUCUGCUGCcacgGCGGGaucagaccGGACa -3'
miRNA:   3'- -AGuUGuGCUAGGCGACG----CGCCC--------CUUG- -5'
19401 3' -56.2 NC_004685.1 + 7535 0.66 0.741474
Target:  5'- gUCAGcCACGG-CgGCggGgGCGGGGAGu -3'
miRNA:   3'- -AGUU-GUGCUaGgCGa-CgCGCCCCUUg -5'
19401 3' -56.2 NC_004685.1 + 23017 0.66 0.741474
Target:  5'- aCGACACGAUCCGUgucgaugGUGUGGa---- -3'
miRNA:   3'- aGUUGUGCUAGGCGa------CGCGCCccuug -5'
19401 3' -56.2 NC_004685.1 + 53062 0.66 0.741474
Target:  5'- gUCGGCACGAUCC-CUu--CGGuGGAGCg -3'
miRNA:   3'- -AGUUGUGCUAGGcGAcgcGCC-CCUUG- -5'
19401 3' -56.2 NC_004685.1 + 15050 0.66 0.73118
Target:  5'- aCAGCGCaGAggCGCacGCcacgGCGGGGGACa -3'
miRNA:   3'- aGUUGUG-CUagGCGa-CG----CGCCCCUUG- -5'
19401 3' -56.2 NC_004685.1 + 2765 0.66 0.73118
Target:  5'- -gGGCACGGUgCCGCgGCGCGcgacgggcGGGGu- -3'
miRNA:   3'- agUUGUGCUA-GGCGaCGCGC--------CCCUug -5'
19401 3' -56.2 NC_004685.1 + 34803 0.66 0.73118
Target:  5'- gUCGGCAac--CCGUUGCGCGGGuccGACc -3'
miRNA:   3'- -AGUUGUgcuaGGCGACGCGCCCc--UUG- -5'
19401 3' -56.2 NC_004685.1 + 17222 0.66 0.72079
Target:  5'- gCAGCACGAgcagCGC-GCGUGGcGGGAg -3'
miRNA:   3'- aGUUGUGCUag--GCGaCGCGCC-CCUUg -5'
19401 3' -56.2 NC_004685.1 + 18713 0.66 0.72079
Target:  5'- gCGGCugGGccaacCCGCUGgGUGGaGGGAUc -3'
miRNA:   3'- aGUUGugCUa----GGCGACgCGCC-CCUUG- -5'
19401 3' -56.2 NC_004685.1 + 633 0.66 0.710316
Target:  5'- gUCGACacccGCGcgCUGCUG-GCGGGcGACg -3'
miRNA:   3'- -AGUUG----UGCuaGGCGACgCGCCCcUUG- -5'
19401 3' -56.2 NC_004685.1 + 43806 0.66 0.709264
Target:  5'- aUCAGCGuCGG-CCGCcccgaccUGCGCGGGccGCu -3'
miRNA:   3'- -AGUUGU-GCUaGGCG-------ACGCGCCCcuUG- -5'
19401 3' -56.2 NC_004685.1 + 12657 0.66 0.69871
Target:  5'- gCGGCACGcggCCGCUGUcggagguGCGGGccGCa -3'
miRNA:   3'- aGUUGUGCua-GGCGACG-------CGCCCcuUG- -5'
19401 3' -56.2 NC_004685.1 + 56379 0.67 0.689158
Target:  5'- --cGCACGAUCUGCUG-GUGGaccGGACg -3'
miRNA:   3'- aguUGUGCUAGGCGACgCGCCc--CUUG- -5'
19401 3' -56.2 NC_004685.1 + 56053 0.67 0.689158
Target:  5'- cCAGCGCacccaGUCgUGCUcgGcCGCGGGGAACa -3'
miRNA:   3'- aGUUGUGc----UAG-GCGA--C-GCGCCCCUUG- -5'
19401 3' -56.2 NC_004685.1 + 26842 0.67 0.678495
Target:  5'- uUCAAgACGG-CCGCccGCgGUGGGGAGu -3'
miRNA:   3'- -AGUUgUGCUaGGCGa-CG-CGCCCCUUg -5'
19401 3' -56.2 NC_004685.1 + 35194 0.67 0.677426
Target:  5'- cUCGAUACGAgUCCGCUggucgcgcgcacgGUGCGGauGGAGa -3'
miRNA:   3'- -AGUUGUGCU-AGGCGA-------------CGCGCC--CCUUg -5'
19401 3' -56.2 NC_004685.1 + 9930 0.67 0.672076
Target:  5'- cCGACGCGAUCaGCgucaugcgguaggugUGCGCGGGa--- -3'
miRNA:   3'- aGUUGUGCUAGgCG---------------ACGCGCCCcuug -5'
19401 3' -56.2 NC_004685.1 + 62778 0.67 0.667789
Target:  5'- aUCAcCGCGAUCaCcCUGCGCGaGGaGAAUc -3'
miRNA:   3'- -AGUuGUGCUAG-GcGACGCGC-CC-CUUG- -5'
19401 3' -56.2 NC_004685.1 + 44339 0.67 0.657052
Target:  5'- gUCGACGCGGUggCCGC-GauCGGGGAGa -3'
miRNA:   3'- -AGUUGUGCUA--GGCGaCgcGCCCCUUg -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.