miRNA display CGI


Results 1 - 20 of 30 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
16352 3' -62.4 NC_004084.1 + 7604 1.08 0.000307
Target:  5'- cCGGCGCCCGCGAACGGGUCCAGGACGa -3'
miRNA:   3'- -GCCGCGGGCGCUUGCCCAGGUCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 1568 0.99 0.001745
Target:  5'- cCGGaGCCCGCGAACGGGUCCAGGACGa -3'
miRNA:   3'- -GCCgCGGGCGCUUGCCCAGGUCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 22461 0.75 0.110646
Target:  5'- gGGCGCUCGCGAcggcugcguggugGCGGcuccaGUUCGGGACGu -3'
miRNA:   3'- gCCGCGGGCGCU-------------UGCC-----CAGGUCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 43782 0.74 0.123272
Target:  5'- gGGCGCUCGCcGGCGGagaGUCCGGcGGCGa -3'
miRNA:   3'- gCCGCGGGCGcUUGCC---CAGGUC-CUGC- -5'
16352 3' -62.4 NC_004084.1 + 2839 0.73 0.151829
Target:  5'- uCGGCGUCCGCGGugGa-UCgCAGGACa -3'
miRNA:   3'- -GCCGCGGGCGCUugCccAG-GUCCUGc -5'
16352 3' -62.4 NC_004084.1 + 10451 0.73 0.151829
Target:  5'- cCGGaaGCCCGCGAgGCGa-UCCAGGACGg -3'
miRNA:   3'- -GCCg-CGGGCGCU-UGCccAGGUCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 29436 0.71 0.205949
Target:  5'- aCGGCGagcuucaCCGCGAACGcGG-CguGGGCGc -3'
miRNA:   3'- -GCCGCg------GGCGCUUGC-CCaGguCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 9134 0.7 0.21645
Target:  5'- uCGGCGUCCGuCGGGCGGaaGUCgAGGGg- -3'
miRNA:   3'- -GCCGCGGGC-GCUUGCC--CAGgUCCUgc -5'
16352 3' -62.4 NC_004084.1 + 49188 0.7 0.21645
Target:  5'- uGGaCGCCCugauCGAGCaGGucaUCCAGGACGg -3'
miRNA:   3'- gCC-GCGGGc---GCUUGcCC---AGGUCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 27831 0.7 0.238829
Target:  5'- gCGGCGUCCGCGA---GGUCaC-GGACGa -3'
miRNA:   3'- -GCCGCGGGCGCUugcCCAG-GuCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 54113 0.7 0.244718
Target:  5'- aCGaCGCCCGCGAucaccgGCGGGacgUCguGGACu -3'
miRNA:   3'- -GCcGCGGGCGCU------UGCCC---AGguCCUGc -5'
16352 3' -62.4 NC_004084.1 + 46855 0.69 0.269485
Target:  5'- -cGCGUCCGUGAACGucUCCuguGGGCGg -3'
miRNA:   3'- gcCGCGGGCGCUUGCccAGGu--CCUGC- -5'
16352 3' -62.4 NC_004084.1 + 47907 0.69 0.282608
Target:  5'- aCGGuCGCuCCGCGAggugccGCGcGaUCCAGGGCa -3'
miRNA:   3'- -GCC-GCG-GGCGCU------UGC-CcAGGUCCUGc -5'
16352 3' -62.4 NC_004084.1 + 6154 0.69 0.282608
Target:  5'- cCGGgGUUCcugGCGAuCGGGcUCCAGGugGa -3'
miRNA:   3'- -GCCgCGGG---CGCUuGCCC-AGGUCCugC- -5'
16352 3' -62.4 NC_004084.1 + 57594 0.68 0.310363
Target:  5'- aGuCGCCCGUcucGAACGGGUUgAGGAg- -3'
miRNA:   3'- gCcGCGGGCG---CUUGCCCAGgUCCUgc -5'
16352 3' -62.4 NC_004084.1 + 7239 0.68 0.324999
Target:  5'- aGGauuUCCuCGAcUGGGUCCAGGACGa -3'
miRNA:   3'- gCCgc-GGGcGCUuGCCCAGGUCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 51937 0.67 0.332508
Target:  5'- aCGuuCGCUCaGcCGGGCGaGGUCCAGGACa -3'
miRNA:   3'- -GCc-GCGGG-C-GCUUGC-CCAGGUCCUGc -5'
16352 3' -62.4 NC_004084.1 + 18130 0.67 0.355792
Target:  5'- cCGGCucgGCCCG-GAugGaGUCCGGGuCGa -3'
miRNA:   3'- -GCCG---CGGGCgCUugCcCAGGUCCuGC- -5'
16352 3' -62.4 NC_004084.1 + 27545 0.67 0.363804
Target:  5'- cCGGUGgCCGCGcACaaGGGccUCCcGGACGg -3'
miRNA:   3'- -GCCGCgGGCGCuUG--CCC--AGGuCCUGC- -5'
16352 3' -62.4 NC_004084.1 + 16011 0.67 0.371121
Target:  5'- uCGGCcaccuccGCCCGUGAcugcGCGGGccUCCucgAGGAUGc -3'
miRNA:   3'- -GCCG-------CGGGCGCU----UGCCC--AGG---UCCUGC- -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.