miRNA display CGI


Results 1 - 20 of 27 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
16078 3' -62.4 NC_004065.1 + 104003 0.66 0.773313
Target:  5'- gGGCGaGCGGCuCGUGGcgcuggagcaccUGCGaaAGGUg -3'
miRNA:   3'- gCCGCcUGCCG-GCACC------------ACGCagUCCA- -5'
16078 3' -62.4 NC_004065.1 + 115187 0.66 0.764583
Target:  5'- uGGCccuGGAucCGGCCGUGGccgccGCGaCGGGg -3'
miRNA:   3'- gCCG---CCU--GCCGGCACCa----CGCaGUCCa -5'
16078 3' -62.4 NC_004065.1 + 103702 0.66 0.737817
Target:  5'- aCGGUGGGCGGCgG-GGaGCGccuggCGGGc -3'
miRNA:   3'- -GCCGCCUGCCGgCaCCaCGCa----GUCCa -5'
16078 3' -62.4 NC_004065.1 + 31086 0.66 0.737817
Target:  5'- uGGCGG-CGGCCuuggccgccaggGUGGaGCGggCAGGc -3'
miRNA:   3'- gCCGCCuGCCGG------------CACCaCGCa-GUCCa -5'
16078 3' -62.4 NC_004065.1 + 185743 0.66 0.719566
Target:  5'- aGGCGGAUcgaccgGGCCcacauGUGGgGCGUCuGGc -3'
miRNA:   3'- gCCGCCUG------CCGG-----CACCaCGCAGuCCa -5'
16078 3' -62.4 NC_004065.1 + 102101 0.66 0.719566
Target:  5'- gGGCGGcgAUGGCCGgaccgaGGUGCGcggUCAuGGa -3'
miRNA:   3'- gCCGCC--UGCCGGCa-----CCACGC---AGU-CCa -5'
16078 3' -62.4 NC_004065.1 + 221989 0.67 0.701057
Target:  5'- uGGUagucGGGCGGaCCGUGGUcguGgGUCuGGUa -3'
miRNA:   3'- gCCG----CCUGCC-GGCACCA---CgCAGuCCA- -5'
16078 3' -62.4 NC_004065.1 + 119617 0.67 0.691724
Target:  5'- gCGGCGGAggagacgccguCGGCCGUGGcGUGUUcgaacGGc -3'
miRNA:   3'- -GCCGCCU-----------GCCGGCACCaCGCAGu----CCa -5'
16078 3' -62.4 NC_004065.1 + 8744 0.67 0.682348
Target:  5'- aCGacCGGA-GGCCGUGGUgGCGgcggCAGGg -3'
miRNA:   3'- -GCc-GCCUgCCGGCACCA-CGCa---GUCCa -5'
16078 3' -62.4 NC_004065.1 + 5414 0.67 0.682348
Target:  5'- -cGUGGAgGGCCGc-GUGCGUUGGGa -3'
miRNA:   3'- gcCGCCUgCCGGCacCACGCAGUCCa -5'
16078 3' -62.4 NC_004065.1 + 155367 0.67 0.663498
Target:  5'- aCGGCGGACGcGCCGcGGUcCGgaccucagaccCGGGUa -3'
miRNA:   3'- -GCCGCCUGC-CGGCaCCAcGCa----------GUCCA- -5'
16078 3' -62.4 NC_004065.1 + 116322 0.68 0.625588
Target:  5'- uCGGCGG-CGGCaGcGGcgacgGCGUCGGGa -3'
miRNA:   3'- -GCCGCCuGCCGgCaCCa----CGCAGUCCa -5'
16078 3' -62.4 NC_004065.1 + 27209 0.68 0.625588
Target:  5'- uGGCGG-CGGUCGUGGU-CGgCAGcGUg -3'
miRNA:   3'- gCCGCCuGCCGGCACCAcGCaGUC-CA- -5'
16078 3' -62.4 NC_004065.1 + 36129 0.68 0.625588
Target:  5'- cCGGCGG-CGGuuGUGGUG-GUUguguuGGUg -3'
miRNA:   3'- -GCCGCCuGCCggCACCACgCAGu----CCA- -5'
16078 3' -62.4 NC_004065.1 + 48104 0.68 0.625588
Target:  5'- uGGCGG-CGGCgGUGGcgGCGgcggUGGGa -3'
miRNA:   3'- gCCGCCuGCCGgCACCa-CGCa---GUCCa -5'
16078 3' -62.4 NC_004065.1 + 121745 0.68 0.606634
Target:  5'- aGGaCGGACGGcCCGUGaaaGUGUGUCAa-- -3'
miRNA:   3'- gCC-GCCUGCC-GGCAC---CACGCAGUcca -5'
16078 3' -62.4 NC_004065.1 + 167649 0.68 0.606634
Target:  5'- uCGGCgGGACGGCCGUaccGUGC-UCGGa- -3'
miRNA:   3'- -GCCG-CCUGCCGGCAc--CACGcAGUCca -5'
16078 3' -62.4 NC_004065.1 + 65435 0.69 0.597178
Target:  5'- gCGaGCGG-CGGCCGUGGUGgcUCuGGa -3'
miRNA:   3'- -GC-CGCCuGCCGGCACCACgcAGuCCa -5'
16078 3' -62.4 NC_004065.1 + 62369 0.69 0.55963
Target:  5'- aCGGCGGugGCGGCggggGUGGUgGCGgCGGGg -3'
miRNA:   3'- -GCCGCC--UGCCGg---CACCA-CGCaGUCCa -5'
16078 3' -62.4 NC_004065.1 + 115576 0.7 0.531904
Target:  5'- uGGUGaGACGGCgGUGGUggugGCGgCGGGa -3'
miRNA:   3'- gCCGC-CUGCCGgCACCA----CGCaGUCCa -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.