miRNA display CGI


Results 1 - 20 of 28 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
12345 5' -61.5 NC_003324.1 + 13066 0.66 0.470675
Target:  5'- aCGAuuUGCaGCCGguaccGCcGCCG-CCGACCg -3'
miRNA:   3'- -GCU--ACG-CGGCac---CGcCGGCaGGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 25851 0.66 0.461218
Target:  5'- gGAUGCgGCgCGUGGUGGagCGaUCgCGAUCg -3'
miRNA:   3'- gCUACG-CG-GCACCGCCg-GC-AG-GCUGG- -5'
12345 5' -61.5 NC_003324.1 + 35923 0.66 0.461218
Target:  5'- aCGAUGCGUucuCG-GGCaGCCcGUCguUGACCg -3'
miRNA:   3'- -GCUACGCG---GCaCCGcCGG-CAG--GCUGG- -5'
12345 5' -61.5 NC_003324.1 + 48710 0.66 0.461218
Target:  5'- uGAUGUugcggcggaGCCGgauGCGGgCG-CCGACCu -3'
miRNA:   3'- gCUACG---------CGGCac-CGCCgGCaGGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 23119 0.66 0.4584
Target:  5'- cCGAUGCgucgcuuuuccaucGCCGaugcaaUGGCGGCaaaCGUCUuGCCg -3'
miRNA:   3'- -GCUACG--------------CGGC------ACCGCCG---GCAGGcUGG- -5'
12345 5' -61.5 NC_003324.1 + 20590 0.66 0.451862
Target:  5'- gGAUccgGUGCUGUGGC-GCCGUC--GCCa -3'
miRNA:   3'- gCUA---CGCGGCACCGcCGGCAGgcUGG- -5'
12345 5' -61.5 NC_003324.1 + 16899 0.66 0.415516
Target:  5'- -uGUGCGCCGauuugcaaggUGGCGGCUG-CCaGCg -3'
miRNA:   3'- gcUACGCGGC----------ACCGCCGGCaGGcUGg -5'
12345 5' -61.5 NC_003324.1 + 8482 0.66 0.415516
Target:  5'- ---cGCcCCGaUGGUGGCCGgagCUGAUCg -3'
miRNA:   3'- gcuaCGcGGC-ACCGCCGGCa--GGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 16214 0.66 0.415516
Target:  5'- uCGAUaccGCGaCGgGGCaGGCCGUgCCGACg -3'
miRNA:   3'- -GCUA---CGCgGCaCCG-CCGGCA-GGCUGg -5'
12345 5' -61.5 NC_003324.1 + 54798 0.66 0.415516
Target:  5'- aGAUGCGCCGau-CGaG-CGUUCGACCg -3'
miRNA:   3'- gCUACGCGGCaccGC-CgGCAGGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 33928 0.66 0.412862
Target:  5'- uCGAUGUggaccucuacgauuGCCGcgaGGCGGCCGUgCaaGCCg -3'
miRNA:   3'- -GCUACG--------------CGGCa--CCGCCGGCAgGc-UGG- -5'
12345 5' -61.5 NC_003324.1 + 32470 0.67 0.389461
Target:  5'- ---cGCGCCGaGGUGGUgcgagaGcCCGACCa -3'
miRNA:   3'- gcuaCGCGGCaCCGCCGg-----CaGGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 42840 0.67 0.38438
Target:  5'- uCGcgGaCGCCGUauugcugguauucgaGGCuGCCGgCCGGCCc -3'
miRNA:   3'- -GCuaC-GCGGCA---------------CCGcCGGCaGGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 23992 0.67 0.3645
Target:  5'- uCGAcGCGCUGguagGGCGGCgGUagGGCUg -3'
miRNA:   3'- -GCUaCGCGGCa---CCGCCGgCAggCUGG- -5'
12345 5' -61.5 NC_003324.1 + 13173 0.68 0.331455
Target:  5'- gCGAggcUGCGUCGgcggcggucggcGGCGGCgGUaCCGGCUg -3'
miRNA:   3'- -GCU---ACGCGGCa-----------CCGCCGgCA-GGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 21157 0.68 0.325417
Target:  5'- ---cGCGCCGcGGCGGCCGacaaGGCa -3'
miRNA:   3'- gcuaCGCGGCaCCGCCGGCagg-CUGg -5'
12345 5' -61.5 NC_003324.1 + 44595 0.68 0.317983
Target:  5'- aGAcGCaCCGcaUGcGCGuGCCGUCCGAUCg -3'
miRNA:   3'- gCUaCGcGGC--AC-CGC-CGGCAGGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 52673 0.69 0.310679
Target:  5'- cCGcAUGCGCgagCGUGGaUGGUCGaUCCGGCg -3'
miRNA:   3'- -GC-UACGCG---GCACC-GCCGGC-AGGCUGg -5'
12345 5' -61.5 NC_003324.1 + 36751 0.69 0.289534
Target:  5'- cCGAUGCGaggcCCGUGGagcgcuGGCCGguguuuucgagcUCCGGCUc -3'
miRNA:   3'- -GCUACGC----GGCACCg-----CCGGC------------AGGCUGG- -5'
12345 5' -61.5 NC_003324.1 + 44408 0.7 0.256208
Target:  5'- ---cGCGCCGUGGCugcagaggcuaucGGCCGcgCC-ACCg -3'
miRNA:   3'- gcuaCGCGGCACCG-------------CCGGCa-GGcUGG- -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.