miRNA display CGI


Results 1 - 20 of 39 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
1616 3' -61 NC_001347.2 + 88186 0.66 0.805248
Target:  5'- cGGcGGACGCaacGgGCgUuuGCGUCCACc -3'
miRNA:   3'- aCCaCCUGCG---CgCGaGggCGUAGGUG- -5'
1616 3' -61 NC_001347.2 + 61253 0.66 0.805248
Target:  5'- aGGU-GACGCGaC-CUCCUGCcacauauagcucGUCCACa -3'
miRNA:   3'- aCCAcCUGCGC-GcGAGGGCG------------UAGGUG- -5'
1616 3' -61 NC_001347.2 + 26055 0.66 0.805248
Target:  5'- ---cGGGCGCuGCGgUCCCGaCAuggagacaguuUCCACg -3'
miRNA:   3'- accaCCUGCG-CGCgAGGGC-GU-----------AGGUG- -5'
1616 3' -61 NC_001347.2 + 93056 0.66 0.796799
Target:  5'- cGGUGcGAggacaacgcgcCGCGCGCacuUCCaCGCccaaAUCCACu -3'
miRNA:   3'- aCCAC-CU-----------GCGCGCG---AGG-GCG----UAGGUG- -5'
1616 3' -61 NC_001347.2 + 99595 0.66 0.796799
Target:  5'- cGGUGGAagacaGCGCGUgUCCGUucgCCGa -3'
miRNA:   3'- aCCACCUg----CGCGCGaGGGCGua-GGUg -5'
1616 3' -61 NC_001347.2 + 12631 0.66 0.796799
Target:  5'- gUGGUGGGCGaauCGCuaccCUCCgGCGUCUuucACg -3'
miRNA:   3'- -ACCACCUGC---GCGc---GAGGgCGUAGG---UG- -5'
1616 3' -61 NC_001347.2 + 20029 0.66 0.788216
Target:  5'- -cGUGGAauuacaGCGUUCCCuauugacgggcGCAUCCACg -3'
miRNA:   3'- acCACCUgcg---CGCGAGGG-----------CGUAGGUG- -5'
1616 3' -61 NC_001347.2 + 158678 0.66 0.779507
Target:  5'- ---gGGGCGCGCGCUgguuaaacagaCCGCcugCCACg -3'
miRNA:   3'- accaCCUGCGCGCGAg----------GGCGua-GGUG- -5'
1616 3' -61 NC_001347.2 + 108309 0.66 0.779507
Target:  5'- cGGUGcugccgcacgaGACGCGa-CUCCUGCAgacggguaUCCACg -3'
miRNA:   3'- aCCAC-----------CUGCGCgcGAGGGCGU--------AGGUG- -5'
1616 3' -61 NC_001347.2 + 63594 0.66 0.761744
Target:  5'- cGGUGGuGC-CGCGCUCUacuuCGUA-CCACg -3'
miRNA:   3'- aCCACC-UGcGCGCGAGG----GCGUaGGUG- -5'
1616 3' -61 NC_001347.2 + 98247 0.66 0.761744
Target:  5'- cUGGUGGAucacuuCGCGCGUgugCgGCGUaCCGCu -3'
miRNA:   3'- -ACCACCU------GCGCGCGag-GgCGUA-GGUG- -5'
1616 3' -61 NC_001347.2 + 84637 0.67 0.756332
Target:  5'- cGGUGGcUGC-CGCUacuacugucguuuccCCCGCAgCCACu -3'
miRNA:   3'- aCCACCuGCGcGCGA---------------GGGCGUaGGUG- -5'
1616 3' -61 NC_001347.2 + 158176 0.67 0.74357
Target:  5'- --cUGGACGCGCGCUCgcugguggCCGUggucuGUCgGCa -3'
miRNA:   3'- accACCUGCGCGCGAG--------GGCG-----UAGgUG- -5'
1616 3' -61 NC_001347.2 + 68032 0.67 0.74357
Target:  5'- gGaGUGcuGAcCGC-CGCUCCCGCcgCCGCc -3'
miRNA:   3'- aC-CAC--CU-GCGcGCGAGGGCGuaGGUG- -5'
1616 3' -61 NC_001347.2 + 136302 0.67 0.715675
Target:  5'- cGGcacgGGGCuCGCGCUCCCuagguGCggCCGCc -3'
miRNA:   3'- aCCa---CCUGcGCGCGAGGG-----CGuaGGUG- -5'
1616 3' -61 NC_001347.2 + 202333 0.67 0.705292
Target:  5'- gGGUGGAgagggaagguCGCGcCGCcgcagcaUCCCGCAuagccUCUACa -3'
miRNA:   3'- aCCACCU----------GCGC-GCG-------AGGGCGU-----AGGUG- -5'
1616 3' -61 NC_001347.2 + 91208 0.68 0.667046
Target:  5'- aGcUGGACGCGUugaccgaGCUCuaCCGCgAUCCGCa -3'
miRNA:   3'- aCcACCUGCGCG-------CGAG--GGCG-UAGGUG- -5'
1616 3' -61 NC_001347.2 + 35690 0.68 0.647742
Target:  5'- cGG-GGAaGaCGCGCUCCgGCccuggaaGUCCACg -3'
miRNA:   3'- aCCaCCUgC-GCGCGAGGgCG-------UAGGUG- -5'
1616 3' -61 NC_001347.2 + 171733 0.68 0.645808
Target:  5'- cGGUGGuuuggggcaACGCGCGCUuggacgcgcuaaugUCgGCGUCCGa -3'
miRNA:   3'- aCCACC---------UGCGCGCGA--------------GGgCGUAGGUg -5'
1616 3' -61 NC_001347.2 + 190892 0.69 0.623556
Target:  5'- aGGUGGccACGgugcccagcaguugGCGCUguUCCGCGUCCACg -3'
miRNA:   3'- aCCACC--UGCg-------------CGCGA--GGGCGUAGGUG- -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.