miRNA display CGI


Results 1 - 20 of 56 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
26598 3' -59.6 NC_005357.1 + 41819 0.74 0.137792
Target:  5'- uCCAcgGCGCugcuGGCCGACCCGCagGCGg -3'
miRNA:   3'- -GGUagUGCGc---UCGGCUGGGCGagCGC- -5'
26598 3' -59.6 NC_005357.1 + 31249 0.67 0.405666
Target:  5'- aCCAUCACcaCG-GCCGACCagCGCaCGCa -3'
miRNA:   3'- -GGUAGUGc-GCuCGGCUGG--GCGaGCGc -5'
26598 3' -59.6 NC_005357.1 + 20353 0.67 0.412929
Target:  5'- gCCAUCGagcCGCGcGCCGACCgCGacccgagcaagCGCGa -3'
miRNA:   3'- -GGUAGU---GCGCuCGGCUGG-GCga---------GCGC- -5'
26598 3' -59.6 NC_005357.1 + 33587 0.66 0.471812
Target:  5'- gCCA--ACGC--GCUGGCCCGCgUUGCGg -3'
miRNA:   3'- -GGUagUGCGcuCGGCUGGGCG-AGCGC- -5'
26598 3' -59.6 NC_005357.1 + 23322 0.72 0.178171
Target:  5'- aCCAUCuacccgaaggguuCGCaGGCCGGCCUGCaaUCGCGu -3'
miRNA:   3'- -GGUAGu------------GCGcUCGGCUGGGCG--AGCGC- -5'
26598 3' -59.6 NC_005357.1 + 18508 0.71 0.2156
Target:  5'- aCCAUCACGCcuauGCCGGCauggaagCCGCgggCGUGg -3'
miRNA:   3'- -GGUAGUGCGcu--CGGCUG-------GGCGa--GCGC- -5'
26598 3' -59.6 NC_005357.1 + 40187 0.7 0.251869
Target:  5'- uUCAUUGCGCGGccacgcGCCG-CCUGCUgCGCGu -3'
miRNA:   3'- -GGUAGUGCGCU------CGGCuGGGCGA-GCGC- -5'
26598 3' -59.6 NC_005357.1 + 14193 0.7 0.27148
Target:  5'- ---cCugGCGcAGuCCGACCCGCgCGUGg -3'
miRNA:   3'- gguaGugCGC-UC-GGCUGGGCGaGCGC- -5'
26598 3' -59.6 NC_005357.1 + 14618 0.68 0.345665
Target:  5'- gCAgcgCGCGCGAGgaCGugCUGCggcugCGCGg -3'
miRNA:   3'- gGUa--GUGCGCUCg-GCugGGCGa----GCGC- -5'
26598 3' -59.6 NC_005357.1 + 20786 0.67 0.396701
Target:  5'- gCAUCAagGCGAguuucuacGCCGACCUguuccucauGCUCGCc -3'
miRNA:   3'- gGUAGUg-CGCU--------CGGCUGGG---------CGAGCGc -5'
26598 3' -59.6 NC_005357.1 + 38941 0.67 0.387864
Target:  5'- uCUggUACaGCGGGCCGucguuCUCGUUCGCGu -3'
miRNA:   3'- -GGuaGUG-CGCUCGGCu----GGGCGAGCGC- -5'
26598 3' -59.6 NC_005357.1 + 31933 0.69 0.299512
Target:  5'- uUCGUCAa--GAGCaCGGCCCGUUCGgGc -3'
miRNA:   3'- -GGUAGUgcgCUCG-GCUGGGCGAGCgC- -5'
26598 3' -59.6 NC_005357.1 + 16147 0.74 0.145444
Target:  5'- uCCAUCgcgcgcgauGCGCGAGCCGACCagGC-CgGCGg -3'
miRNA:   3'- -GGUAG---------UGCGCUCGGCUGGg-CGaG-CGC- -5'
26598 3' -59.6 NC_005357.1 + 12853 0.67 0.387864
Target:  5'- gCCuggGCGCG-GCCGACCUGa-CGCGa -3'
miRNA:   3'- -GGuagUGCGCuCGGCUGGGCgaGCGC- -5'
26598 3' -59.6 NC_005357.1 + 6998 0.73 0.149415
Target:  5'- aCA-CGCGCGAGCgGGUCgGCUCGCGu -3'
miRNA:   3'- gGUaGUGCGCUCGgCUGGgCGAGCGC- -5'
26598 3' -59.6 NC_005357.1 + 14716 0.7 0.27148
Target:  5'- uCCAUgACcggcgGCGAGCCGcuGCCgGCgCGCGg -3'
miRNA:   3'- -GGUAgUG-----CGCUCGGC--UGGgCGaGCGC- -5'
26598 3' -59.6 NC_005357.1 + 16275 0.67 0.396701
Target:  5'- gCAUCGCagacgGCGAGCCGcugcgccaaAUCUGC-CGCGa -3'
miRNA:   3'- gGUAGUG-----CGCUCGGC---------UGGGCGaGCGC- -5'
26598 3' -59.6 NC_005357.1 + 31325 0.67 0.405666
Target:  5'- aCCAaUugGcCGcAGCCGACaaggUGCUCGCGc -3'
miRNA:   3'- -GGUaGugC-GC-UCGGCUGg---GCGAGCGC- -5'
26598 3' -59.6 NC_005357.1 + 25840 0.73 0.166297
Target:  5'- aCCAUCGCGUG-GUCGGCCuCGUccggCGCGu -3'
miRNA:   3'- -GGUAGUGCGCuCGGCUGG-GCGa---GCGC- -5'
26598 3' -59.6 NC_005357.1 + 18896 0.71 0.233439
Target:  5'- gCCAUCGacCGCGugcGCCGccuggaagGCgCGCUCGCGg -3'
miRNA:   3'- -GGUAGU--GCGCu--CGGC--------UGgGCGAGCGC- -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.