miRNA display CGI


Results 1 - 19 of 19 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
9187 5' -59.6 NC_002512.2 + 93009 0.66 0.801905
Target:  5'- -uCGGUgGCggacgGGCAGCUGUGGUu- -3'
miRNA:   3'- cuGCCGaCGaca--CCGUCGACACCGuu -5'
9187 5' -59.6 NC_002512.2 + 169547 0.66 0.793083
Target:  5'- -cCGGCUGCcc-GGCGGC-GUGGCc- -3'
miRNA:   3'- cuGCCGACGacaCCGUCGaCACCGuu -5'
9187 5' -59.6 NC_002512.2 + 207398 0.66 0.781406
Target:  5'- gGACGGCUGCUGcgcgcucauguccaUGGCcuGCUGcacggagaucUGGCc- -3'
miRNA:   3'- -CUGCCGACGAC--------------ACCGu-CGAC----------ACCGuu -5'
9187 5' -59.6 NC_002512.2 + 82366 0.66 0.775028
Target:  5'- gGGCGGCggagggugaUGCUGcGGcCGGCgGUGGCu- -3'
miRNA:   3'- -CUGCCG---------ACGACaCC-GUCGaCACCGuu -5'
9187 5' -59.6 NC_002512.2 + 170823 0.66 0.775028
Target:  5'- gGGCGGCaGCgGcGGCAGCgGcGGCGAc -3'
miRNA:   3'- -CUGCCGaCGaCaCCGUCGaCaCCGUU- -5'
9187 5' -59.6 NC_002512.2 + 65512 0.66 0.769512
Target:  5'- uGACGGcCUGCUGcUGGCGGCggaagaugauguagaUGaccagcacgaUGGCGAu -3'
miRNA:   3'- -CUGCC-GACGAC-ACCGUCG---------------AC----------ACCGUU- -5'
9187 5' -59.6 NC_002512.2 + 6413 0.66 0.765812
Target:  5'- cGGCGGCggcGCUGgggaaGGCGGCcGUcuGGCGGg -3'
miRNA:   3'- -CUGCCGa--CGACa----CCGUCGaCA--CCGUU- -5'
9187 5' -59.6 NC_002512.2 + 2843 0.67 0.737512
Target:  5'- cGACGGCg-----GGCAGCUGcGGCAc -3'
miRNA:   3'- -CUGCCGacgacaCCGUCGACaCCGUu -5'
9187 5' -59.6 NC_002512.2 + 192660 0.67 0.727891
Target:  5'- gGGCGGCUGCcccacucggaucUGgGGgAGgUGUGGCGg -3'
miRNA:   3'- -CUGCCGACG------------ACaCCgUCgACACCGUu -5'
9187 5' -59.6 NC_002512.2 + 93048 0.67 0.727891
Target:  5'- gGACGGCUGCUGccccaGGC-GCUGUaccgGGaCGAg -3'
miRNA:   3'- -CUGCCGACGACa----CCGuCGACA----CC-GUU- -5'
9187 5' -59.6 NC_002512.2 + 128020 0.67 0.718191
Target:  5'- cGCGGCUGCUGcGGCcgggucgcucGCUGccucUGGCGGa -3'
miRNA:   3'- cUGCCGACGACaCCGu---------CGAC----ACCGUU- -5'
9187 5' -59.6 NC_002512.2 + 4423 0.67 0.698585
Target:  5'- cGGCGGCUGCUGguagaccggcgGGguGCcG-GGCGc -3'
miRNA:   3'- -CUGCCGACGACa----------CCguCGaCaCCGUu -5'
9187 5' -59.6 NC_002512.2 + 112520 0.68 0.687707
Target:  5'- gGACGaGUUGCUGUugcagacGGCGGCg--GGCAGg -3'
miRNA:   3'- -CUGC-CGACGACA-------CCGUCGacaCCGUU- -5'
9187 5' -59.6 NC_002512.2 + 4564 0.68 0.678766
Target:  5'- cGACGGCUGCggcgucuggGGCGGCggagGaGGCGg -3'
miRNA:   3'- -CUGCCGACGaca------CCGUCGa---CaCCGUu -5'
9187 5' -59.6 NC_002512.2 + 111162 0.69 0.588665
Target:  5'- uGCGcGCUGCcgaucaggugGUGGCGGCUGgggaugGGCAc -3'
miRNA:   3'- cUGC-CGACGa---------CACCGUCGACa-----CCGUu -5'
9187 5' -59.6 NC_002512.2 + 107631 0.71 0.500895
Target:  5'- gGGCGGCUGCccGUGGUucGCgugGUGGCu- -3'
miRNA:   3'- -CUGCCGACGa-CACCGu-CGa--CACCGuu -5'
9187 5' -59.6 NC_002512.2 + 207610 0.75 0.315617
Target:  5'- cGGCGGCUGCUGcGGCGGCgaguuccucggcGUGGUg- -3'
miRNA:   3'- -CUGCCGACGACaCCGUCGa-----------CACCGuu -5'
9187 5' -59.6 NC_002512.2 + 4801 0.76 0.257917
Target:  5'- cGACGGUUGCUGcGGCAGCUGcuGCGGg -3'
miRNA:   3'- -CUGCCGACGACaCCGUCGACacCGUU- -5'
9187 5' -59.6 NC_002512.2 + 4747 1.05 0.002515
Target:  5'- cGACGGCUGCUGUGGCAGCUGUGGCAAc -3'
miRNA:   3'- -CUGCCGACGACACCGUCGACACCGUU- -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.