miRNA display CGI


Results 1 - 20 of 21 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
16990 3' -55 NC_004333.2 + 31858 0.65 0.701475
Target:  5'- gGUUGUuUGCcUGCaucuGCUGAAUCGCGGCa -3'
miRNA:   3'- -UAGCAcACGaGCG----CGGCUUAGUGCUG- -5'
16990 3' -55 NC_004333.2 + 28927 0.65 0.701475
Target:  5'- cGUCG-GUGCguagcggGCGCCGAggCACG-Cg -3'
miRNA:   3'- -UAGCaCACGag-----CGCGGCUuaGUGCuG- -5'
16990 3' -55 NC_004333.2 + 45567 0.65 0.701475
Target:  5'- cUCG-GUGCUCaugGCGCuCGAccagcccgGUCGCGAg -3'
miRNA:   3'- uAGCaCACGAG---CGCG-GCU--------UAGUGCUg -5'
16990 3' -55 NC_004333.2 + 8958 0.66 0.690445
Target:  5'- cAUCGcGUGCgCGgGCUGGAUCgugggccgugcGCGGCg -3'
miRNA:   3'- -UAGCaCACGaGCgCGGCUUAG-----------UGCUG- -5'
16990 3' -55 NC_004333.2 + 9335 0.66 0.679358
Target:  5'- uUCGgcacuuucaUGCUCGuCGUCGGcgCGCGGCg -3'
miRNA:   3'- uAGCac-------ACGAGC-GCGGCUuaGUGCUG- -5'
16990 3' -55 NC_004333.2 + 4160 0.66 0.679358
Target:  5'- uUCGUGUacagcgcgccgcGCUCGUGCUGca--GCGGCg -3'
miRNA:   3'- uAGCACA------------CGAGCGCGGCuuagUGCUG- -5'
16990 3' -55 NC_004333.2 + 35190 0.66 0.676022
Target:  5'- cGUCGauuUGUcGaugCGCGCCGAgcugaucaaccgcuAUCGCGACa -3'
miRNA:   3'- -UAGC---ACA-Cga-GCGCGGCU--------------UAGUGCUG- -5'
16990 3' -55 NC_004333.2 + 46201 0.66 0.645861
Target:  5'- -gCGcGU-CUCGCGCCGGAUCAgCGcCa -3'
miRNA:   3'- uaGCaCAcGAGCGCGGCUUAGU-GCuG- -5'
16990 3' -55 NC_004333.2 + 12085 0.67 0.612246
Target:  5'- -aCGUGgcugGCgcgcaGCGCCGcGUCACGGg -3'
miRNA:   3'- uaGCACa---CGag---CGCGGCuUAGUGCUg -5'
16990 3' -55 NC_004333.2 + 19135 0.67 0.588795
Target:  5'- gAUCGUgggcggcgcgGUGCUCGCGCUGGuuAUCgugcuagccgcgcGCGAUg -3'
miRNA:   3'- -UAGCA----------CACGAGCGCGGCU--UAG-------------UGCUG- -5'
16990 3' -55 NC_004333.2 + 28600 0.68 0.553406
Target:  5'- gAUCGcgcgcgauuccccuUGUGC-CGCGCCGAccgUGCGACc -3'
miRNA:   3'- -UAGC--------------ACACGaGCGCGGCUua-GUGCUG- -5'
16990 3' -55 NC_004333.2 + 18200 0.68 0.528363
Target:  5'- cGUCGUGcGCgcggcaucgcaauaCGCGCCGGAaaUCuACGACg -3'
miRNA:   3'- -UAGCACaCGa-------------GCGCGGCUU--AG-UGCUG- -5'
16990 3' -55 NC_004333.2 + 1128 0.69 0.513326
Target:  5'- aGUCG-GUGC-CGUGCUGcg-CGCGACg -3'
miRNA:   3'- -UAGCaCACGaGCGCGGCuuaGUGCUG- -5'
16990 3' -55 NC_004333.2 + 541 0.69 0.485886
Target:  5'- uUCaUGUGCUCGCGCgGAucgaacgugccgcccAUCucgGCGACg -3'
miRNA:   3'- uAGcACACGAGCGCGgCU---------------UAG---UGCUG- -5'
16990 3' -55 NC_004333.2 + 48071 0.7 0.451098
Target:  5'- uGUCGUGcUGCUCgGUGCCGAcgaggCGCaGGCg -3'
miRNA:   3'- -UAGCAC-ACGAG-CGCGGCUua---GUG-CUG- -5'
16990 3' -55 NC_004333.2 + 21315 0.7 0.450095
Target:  5'- cAUCGg--GCUCGCaguguuuGCCGAG-CGCGACg -3'
miRNA:   3'- -UAGCacaCGAGCG-------CGGCUUaGUGCUG- -5'
16990 3' -55 NC_004333.2 + 34520 0.71 0.392311
Target:  5'- cUCGUGcUGCUCGCGCagcugccCGAGUaccgCGCGAUg -3'
miRNA:   3'- uAGCAC-ACGAGCGCG-------GCUUA----GUGCUG- -5'
16990 3' -55 NC_004333.2 + 17396 0.72 0.323981
Target:  5'- cAUCGaGcUGCUCGCGCagcgcGGUCACGACg -3'
miRNA:   3'- -UAGCaC-ACGAGCGCGgc---UUAGUGCUG- -5'
16990 3' -55 NC_004333.2 + 12167 0.74 0.27118
Target:  5'- cUCGUGU-CUCGCGCCGAGccgcuucuUC-CGGCg -3'
miRNA:   3'- uAGCACAcGAGCGCGGCUU--------AGuGCUG- -5'
16990 3' -55 NC_004333.2 + 29087 0.76 0.190691
Target:  5'- aAUCGUGacggucacacggGC-CGCGCCGAGUgGCGACg -3'
miRNA:   3'- -UAGCACa-----------CGaGCGCGGCUUAgUGCUG- -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.