miRNA display CGI


Results 1 - 20 of 53 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
1598 3' -59.5 NC_001347.2 + 228481 0.68 0.778003
Target:  5'- aCUGUaCACggcgGCCGUggCCUCCGAGuaaaaaaaccAGGUGCu -3'
miRNA:   3'- -GGCA-GUG----CGGCA--GGAGGCUC----------UCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 222842 0.68 0.803451
Target:  5'- aCGU--CGCCGgCCUCCaggagGAGAuGGCGCu -3'
miRNA:   3'- gGCAguGCGGCaGGAGG-----CUCU-CCGCG- -5'
1598 3' -59.5 NC_001347.2 + 208515 0.67 0.827687
Target:  5'- --uUCGCGCuCGUCCUCCucgcacGAG-GGCaGCa -3'
miRNA:   3'- ggcAGUGCG-GCAGGAGG------CUCuCCG-CG- -5'
1598 3' -59.5 NC_001347.2 + 199622 0.66 0.897609
Target:  5'- gCCGcCgGCGCCGUUCUCgGGcagcGAGG-GCa -3'
miRNA:   3'- -GGCaG-UGCGGCAGGAGgCU----CUCCgCG- -5'
1598 3' -59.5 NC_001347.2 + 197145 0.73 0.535586
Target:  5'- gCCGUCGuCGCCG-CC-CCGGGGcccucGGUGCg -3'
miRNA:   3'- -GGCAGU-GCGGCaGGaGGCUCU-----CCGCG- -5'
1598 3' -59.5 NC_001347.2 + 196960 0.76 0.381797
Target:  5'- gCUGUCgcGCGCCG-CCgacgcCCGAGAcGGCGCg -3'
miRNA:   3'- -GGCAG--UGCGGCaGGa----GGCUCU-CCGCG- -5'
1598 3' -59.5 NC_001347.2 + 193897 0.68 0.803451
Target:  5'- cCCGUCAUGCCG-CUgggcgaaaUUGAG-GGCGCc -3'
miRNA:   3'- -GGCAGUGCGGCaGGa-------GGCUCuCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 193147 0.73 0.499134
Target:  5'- gCCGUCGCGCCuUCCUCCucugccuGGGcacGCGCg -3'
miRNA:   3'- -GGCAGUGCGGcAGGAGGcu-----CUC---CGCG- -5'
1598 3' -59.5 NC_001347.2 + 192212 0.67 0.850534
Target:  5'- gCGUCcCGCCG---UCCGAGAcGGUGUa -3'
miRNA:   3'- gGCAGuGCGGCaggAGGCUCU-CCGCG- -5'
1598 3' -59.5 NC_001347.2 + 183291 0.67 0.864915
Target:  5'- gUCGUUuaGCG-CGUCCUCC-AGGGuGCGUg -3'
miRNA:   3'- -GGCAG--UGCgGCAGGAGGcUCUC-CGCG- -5'
1598 3' -59.5 NC_001347.2 + 182631 0.73 0.535586
Target:  5'- gUGUagGC-CCGUCUgCCGAGAGGCGCc -3'
miRNA:   3'- gGCAg-UGcGGCAGGaGGCUCUCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 180228 0.74 0.44667
Target:  5'- gCCGcCGCGCCGUaguUCUCCGA-AGGCGg -3'
miRNA:   3'- -GGCaGUGCGGCA---GGAGGCUcUCCGCg -5'
1598 3' -59.5 NC_001347.2 + 179966 0.67 0.857813
Target:  5'- uCCGUCAuguggagaaacCGCCGuucggcucUCCUCCGAGccaaaagucGCGCc -3'
miRNA:   3'- -GGCAGU-----------GCGGC--------AGGAGGCUCuc-------CGCG- -5'
1598 3' -59.5 NC_001347.2 + 177166 0.67 0.864915
Target:  5'- aCCGUCAgGUg---CUCCGAGAcGCGCg -3'
miRNA:   3'- -GGCAGUgCGgcagGAGGCUCUcCGCG- -5'
1598 3' -59.5 NC_001347.2 + 175057 0.66 0.884465
Target:  5'- gCG--GCGCCGUCUUcggcgugcaucCCGAGAcgcggcaGGCGCa -3'
miRNA:   3'- gGCagUGCGGCAGGA-----------GGCUCU-------CCGCG- -5'
1598 3' -59.5 NC_001347.2 + 168551 0.68 0.778003
Target:  5'- gUCG-CGCGCCGUCUguaCCGu--GGCGUg -3'
miRNA:   3'- -GGCaGUGCGGCAGGa--GGCucuCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 166619 1.14 0.001406
Target:  5'- aCCGUCACGCCGUCCUCCGAGAGGCGCg -3'
miRNA:   3'- -GGCAGUGCGGCAGGAGGCUCUCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 156912 0.72 0.582364
Target:  5'- gCCGUgCGCGCCGUCCUUgGAGcGGa-- -3'
miRNA:   3'- -GGCA-GUGCGGCAGGAGgCUCuCCgcg -5'
1598 3' -59.5 NC_001347.2 + 156835 0.68 0.778003
Target:  5'- uCCG-CGCGUCGgCCUCUG-GAGGaGCa -3'
miRNA:   3'- -GGCaGUGCGGCaGGAGGCuCUCCgCG- -5'
1598 3' -59.5 NC_001347.2 + 153788 0.71 0.646123
Target:  5'- gCCGcUCAgGCCGUgguaguccgagucgCCUCCGGGcgagguGGGUGCu -3'
miRNA:   3'- -GGC-AGUgCGGCA--------------GGAGGCUC------UCCGCG- -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.