miRNA display CGI


Results 1 - 20 of 23 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
22263 3' -57.4 NC_005045.1 + 15433 0.66 0.564191
Target:  5'- gCAGCGGUUCCAGCagGggagGCuuGGCCu -3'
miRNA:   3'- gGUCGCUGAGGUCGagCa---UGu-CCGGc -5'
22263 3' -57.4 NC_005045.1 + 6010 0.66 0.560948
Target:  5'- uUCAGCcucaagcagggcuuGAC-CCGGCUgGUggagguaggucaACGGGCCGg -3'
miRNA:   3'- -GGUCG--------------CUGaGGUCGAgCA------------UGUCCGGC- -5'
22263 3' -57.4 NC_005045.1 + 16023 0.66 0.550176
Target:  5'- gCAGCGccucgugguagGCgUCCAGCUCG-AUgauccacuggcggaAGGCCGg -3'
miRNA:   3'- gGUCGC-----------UG-AGGUCGAGCaUG--------------UCCGGC- -5'
22263 3' -57.4 NC_005045.1 + 32753 0.66 0.542674
Target:  5'- gCAGCaccGCUCCAGgaCGUGUAGGCa- -3'
miRNA:   3'- gGUCGc--UGAGGUCgaGCAUGUCCGgc -5'
22263 3' -57.4 NC_005045.1 + 6802 0.66 0.50676
Target:  5'- aUAGCGACaUCUGGCgcaagaagggaggCGUGCuGGCCc -3'
miRNA:   3'- gGUCGCUG-AGGUCGa------------GCAUGuCCGGc -5'
22263 3' -57.4 NC_005045.1 + 26146 0.67 0.500526
Target:  5'- -aGGCGACcgUCCcGCUCGUcgaACAGGUa- -3'
miRNA:   3'- ggUCGCUG--AGGuCGAGCA---UGUCCGgc -5'
22263 3' -57.4 NC_005045.1 + 31801 0.67 0.500526
Target:  5'- -gGGCGaugcGCUCCAGCUCGacGCAGaCCu -3'
miRNA:   3'- ggUCGC----UGAGGUCGAGCa-UGUCcGGc -5'
22263 3' -57.4 NC_005045.1 + 10199 0.67 0.479995
Target:  5'- uCCGGCcugGACUCCGGuCUgGUGCuGGaCUGu -3'
miRNA:   3'- -GGUCG---CUGAGGUC-GAgCAUGuCC-GGC- -5'
22263 3' -57.4 NC_005045.1 + 4893 0.67 0.479995
Target:  5'- uCCGGCGACga-GGCUgG-ACAGGCg- -3'
miRNA:   3'- -GGUCGCUGaggUCGAgCaUGUCCGgc -5'
22263 3' -57.4 NC_005045.1 + 15271 0.68 0.431544
Target:  5'- uCCAGaaucucugaagcgcaGugUCCAGUguccgCGUAguGGCCGc -3'
miRNA:   3'- -GGUCg--------------CugAGGUCGa----GCAUguCCGGC- -5'
22263 3' -57.4 NC_005045.1 + 18689 0.68 0.429627
Target:  5'- uCCGGCGacgGCUCCAgguggacGCUCGUGCc-GCCc -3'
miRNA:   3'- -GGUCGC---UGAGGU-------CGAGCAUGucCGGc -5'
22263 3' -57.4 NC_005045.1 + 17479 0.68 0.421064
Target:  5'- cCCA-CGACUCCAGC-CGccGCAGccGCCGc -3'
miRNA:   3'- -GGUcGCUGAGGUCGaGCa-UGUC--CGGC- -5'
22263 3' -57.4 NC_005045.1 + 34481 0.68 0.411671
Target:  5'- uCCGGCGugUaUCAGCUUGcugaGCuGGCCa -3'
miRNA:   3'- -GGUCGCugA-GGUCGAGCa---UGuCCGGc -5'
22263 3' -57.4 NC_005045.1 + 32491 0.68 0.402409
Target:  5'- uUCGGCGACgagcugCaCAGCcUGU-CAGGCCGu -3'
miRNA:   3'- -GGUCGCUGa-----G-GUCGaGCAuGUCCGGC- -5'
22263 3' -57.4 NC_005045.1 + 20089 0.69 0.366714
Target:  5'- --uGCGGgUCCGGCU---GCGGGCCGa -3'
miRNA:   3'- gguCGCUgAGGUCGAgcaUGUCCGGC- -5'
22263 3' -57.4 NC_005045.1 + 21844 0.69 0.366714
Target:  5'- aCAGCGACcgcgCCAGCUUGgcaGCgAGGuuGu -3'
miRNA:   3'- gGUCGCUGa---GGUCGAGCa--UG-UCCggC- -5'
22263 3' -57.4 NC_005045.1 + 4119 0.7 0.317392
Target:  5'- gCCAGCaGGCcgaggCAGCa-GUACAGGCCGa -3'
miRNA:   3'- -GGUCG-CUGag---GUCGagCAUGUCCGGC- -5'
22263 3' -57.4 NC_005045.1 + 16977 0.71 0.26637
Target:  5'- uCCAGCaGCUugugcagggccaCCAGCagGUGCAGGUCGu -3'
miRNA:   3'- -GGUCGcUGA------------GGUCGagCAUGUCCGGC- -5'
22263 3' -57.4 NC_005045.1 + 12308 0.72 0.240311
Target:  5'- aCCAGCGAUUCCGGUUCc--CcGGCCu -3'
miRNA:   3'- -GGUCGCUGAGGUCGAGcauGuCCGGc -5'
22263 3' -57.4 NC_005045.1 + 27416 0.72 0.234138
Target:  5'- aCGGCGACggggCCAuCUCaUGCAGGCCc -3'
miRNA:   3'- gGUCGCUGa---GGUcGAGcAUGUCCGGc -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.