miRNA display CGI


Results 1 - 20 of 22 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
17118 3' -62.9 NC_004333.2 + 20290 0.66 0.34229
Target:  5'- gGUCGaucgCCGcCACGaaagcGCGAGCCGCgCCc -3'
miRNA:   3'- -CAGCa---GGCaGUGCc----CGCUCGGCG-GGc -5'
17118 3' -62.9 NC_004333.2 + 12451 0.66 0.341506
Target:  5'- -gCG-CCGggcggggCGCGGGCGGGCgcuacggCGCCCc -3'
miRNA:   3'- caGCaGGCa------GUGCCCGCUCG-------GCGGGc -5'
17118 3' -62.9 NC_004333.2 + 41385 0.66 0.32687
Target:  5'- -aCGUCCaUCGCgcgccGGGCGAGCUcgGCCuCGu -3'
miRNA:   3'- caGCAGGcAGUG-----CCCGCUCGG--CGG-GC- -5'
17118 3' -62.9 NC_004333.2 + 41442 0.67 0.297594
Target:  5'- -cUGcUCGaCGCGGGCGAGUCGgCCGu -3'
miRNA:   3'- caGCaGGCaGUGCCCGCUCGGCgGGC- -5'
17118 3' -62.9 NC_004333.2 + 25433 0.67 0.297594
Target:  5'- -gCGgCCGUCAcgcCGGGCGuGCCGguuacgacgacaCCCGg -3'
miRNA:   3'- caGCaGGCAGU---GCCCGCuCGGC------------GGGC- -5'
17118 3' -62.9 NC_004333.2 + 42121 0.67 0.297594
Target:  5'- cUCGUacgaGUCGCuuucGGCGAGCaCGCCCc -3'
miRNA:   3'- cAGCAgg--CAGUGc---CCGCUCG-GCGGGc -5'
17118 3' -62.9 NC_004333.2 + 11065 0.67 0.290601
Target:  5'- cUCGaCCG-C-CGGGCGuGCgGCCCa -3'
miRNA:   3'- cAGCaGGCaGuGCCCGCuCGgCGGGc -5'
17118 3' -62.9 NC_004333.2 + 23821 0.67 0.290601
Target:  5'- -aCGaCuCGUCGCGcGuCGAGCUGCCCGu -3'
miRNA:   3'- caGCaG-GCAGUGCcC-GCUCGGCGGGC- -5'
17118 3' -62.9 NC_004333.2 + 9318 0.67 0.290601
Target:  5'- -aUG-CCG-CACGcGGCGAGgCGCCCc -3'
miRNA:   3'- caGCaGGCaGUGC-CCGCUCgGCGGGc -5'
17118 3' -62.9 NC_004333.2 + 2682 0.67 0.289908
Target:  5'- gGUCgGUCUGUCGCgcaauuGGGCGAccuucacGaCCGCCUGg -3'
miRNA:   3'- -CAG-CAGGCAGUG------CCCGCU-------C-GGCGGGC- -5'
17118 3' -62.9 NC_004333.2 + 19916 0.67 0.286467
Target:  5'- -cCGUCCGcaucaUCgACGacgagcgcgccgggcGGCGAGCCGCCgCGa -3'
miRNA:   3'- caGCAGGC-----AG-UGC---------------CCGCUCGGCGG-GC- -5'
17118 3' -62.9 NC_004333.2 + 2452 0.67 0.277001
Target:  5'- -cCGgcgCCGUCAUGGGCuacGCCGCgUCGa -3'
miRNA:   3'- caGCa--GGCAGUGCCCGcu-CGGCG-GGC- -5'
17118 3' -62.9 NC_004333.2 + 17200 0.68 0.263914
Target:  5'- uGUUuaUCGUCGCGGGCGAucacuGCCGCUa- -3'
miRNA:   3'- -CAGcaGGCAGUGCCCGCU-----CGGCGGgc -5'
17118 3' -62.9 NC_004333.2 + 21017 0.68 0.24523
Target:  5'- -gCGUCCGgcccCGuGGCGuAGCCGCCgGg -3'
miRNA:   3'- caGCAGGCagu-GC-CCGC-UCGGCGGgC- -5'
17118 3' -62.9 NC_004333.2 + 26187 0.69 0.210631
Target:  5'- cUCGUCCuGcUUGCGGGCGGcuaccccgaagucGCCuGCCCGa -3'
miRNA:   3'- cAGCAGG-C-AGUGCCCGCU-------------CGG-CGGGC- -5'
17118 3' -62.9 NC_004333.2 + 6593 0.69 0.195707
Target:  5'- aUCG-CCGcCAC-GGCGcGCCGCCCa -3'
miRNA:   3'- cAGCaGGCaGUGcCCGCuCGGCGGGc -5'
17118 3' -62.9 NC_004333.2 + 45505 0.7 0.185961
Target:  5'- aUCGUCUacaacUgGCGGGCGGGgCGCCCc -3'
miRNA:   3'- cAGCAGGc----AgUGCCCGCUCgGCGGGc -5'
17118 3' -62.9 NC_004333.2 + 29452 0.71 0.163448
Target:  5'- -cCGUuuGcuUCGCGGGCGAcgaGCCGCuuGa -3'
miRNA:   3'- caGCAggC--AGUGCCCGCU---CGGCGggC- -5'
17118 3' -62.9 NC_004333.2 + 35472 0.71 0.151146
Target:  5'- cGUCGgcaCCGUCaACGGGCcggugagcGuGCCGCCUGc -3'
miRNA:   3'- -CAGCa--GGCAG-UGCCCG--------CuCGGCGGGC- -5'
17118 3' -62.9 NC_004333.2 + 21009 0.72 0.135693
Target:  5'- cGUgGcagCCGUCACGGGCGAcgaagugGCCGCgCa -3'
miRNA:   3'- -CAgCa--GGCAGUGCCCGCU-------CGGCGgGc -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.