miRNA display CGI


Results 1 - 20 of 22 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
15850 3' -56.5 NC_004065.1 + 201465 0.66 0.950352
Target:  5'- -gCcgGACGCUC-CCCGCGagaucccGGUCGa -3'
miRNA:   3'- caGuaCUGCGAGaGGGUGCau-----CCGGC- -5'
15850 3' -56.5 NC_004065.1 + 91027 0.66 0.950352
Target:  5'- -cCAUGGCcaccgucccgaGCUCguagCaCCGCGUGGGCuCGg -3'
miRNA:   3'- caGUACUG-----------CGAGa---G-GGUGCAUCCG-GC- -5'
15850 3' -56.5 NC_004065.1 + 67541 0.66 0.946221
Target:  5'- --aGUGGCGCUCcucgUCCugGccGGCCGc -3'
miRNA:   3'- cagUACUGCGAGa---GGGugCauCCGGC- -5'
15850 3' -56.5 NC_004065.1 + 181263 0.66 0.941871
Target:  5'- uUCGUGAUGCUCUUCgGCGccaccGGCgGc -3'
miRNA:   3'- cAGUACUGCGAGAGGgUGCau---CCGgC- -5'
15850 3' -56.5 NC_004065.1 + 98861 0.66 0.937299
Target:  5'- gGUCAUauccaGACGCcgCUCUacgggcggCAgGUAGGCCGa -3'
miRNA:   3'- -CAGUA-----CUGCGa-GAGG--------GUgCAUCCGGC- -5'
15850 3' -56.5 NC_004065.1 + 169342 0.66 0.937299
Target:  5'- aUCAc--CGuCUCgCCCugGUGGGCCGu -3'
miRNA:   3'- cAGUacuGC-GAGaGGGugCAUCCGGC- -5'
15850 3' -56.5 NC_004065.1 + 58319 0.66 0.937299
Target:  5'- cGUCAUGACGCg--Ca-GCGUgcAGGCCa -3'
miRNA:   3'- -CAGUACUGCGagaGggUGCA--UCCGGc -5'
15850 3' -56.5 NC_004065.1 + 102014 0.66 0.932504
Target:  5'- gGUCGuaguUGGCGCggcgggccaccUCggugaCCCGCGgcGGCCGg -3'
miRNA:   3'- -CAGU----ACUGCG-----------AGa----GGGUGCauCCGGC- -5'
15850 3' -56.5 NC_004065.1 + 145778 0.67 0.926969
Target:  5'- gGUCGcgGGCGCUCgcacagaUCCucaugCACGUcGGGCCGg -3'
miRNA:   3'- -CAGUa-CUGCGAG-------AGG-----GUGCA-UCCGGC- -5'
15850 3' -56.5 NC_004065.1 + 222052 0.67 0.922239
Target:  5'- aUCGUGugGUUCUCCguUGUGuGGUgGg -3'
miRNA:   3'- cAGUACugCGAGAGGguGCAU-CCGgC- -5'
15850 3' -56.5 NC_004065.1 + 94406 0.67 0.91677
Target:  5'- --gGUGGCGC-CguagaCCCGCGUGacGGCCGu -3'
miRNA:   3'- cagUACUGCGaGa----GGGUGCAU--CCGGC- -5'
15850 3' -56.5 NC_004065.1 + 68514 0.68 0.892673
Target:  5'- -gCGgcgGACGCaUCUCCCGg--AGGCCGa -3'
miRNA:   3'- caGUa--CUGCG-AGAGGGUgcaUCCGGC- -5'
15850 3' -56.5 NC_004065.1 + 226504 0.68 0.865152
Target:  5'- gGUCu---CGCUCUCCCagGCGaAGGCCc -3'
miRNA:   3'- -CAGuacuGCGAGAGGG--UGCaUCCGGc -5'
15850 3' -56.5 NC_004065.1 + 165860 0.69 0.856267
Target:  5'- -gCcgGACGgUCUCUCACGgucccgaaggcgAGGCCGc -3'
miRNA:   3'- caGuaCUGCgAGAGGGUGCa-----------UCCGGC- -5'
15850 3' -56.5 NC_004065.1 + 109674 0.69 0.842427
Target:  5'- cUCcgGGCGCUCUCCgACGacaucGCCGc -3'
miRNA:   3'- cAGuaCUGCGAGAGGgUGCauc--CGGC- -5'
15850 3' -56.5 NC_004065.1 + 47704 0.69 0.842427
Target:  5'- cUCAUGACGCUgcgcaUCCCcucgaGCGU-GGCCu -3'
miRNA:   3'- cAGUACUGCGAg----AGGG-----UGCAuCCGGc -5'
15850 3' -56.5 NC_004065.1 + 56903 0.69 0.833681
Target:  5'- cGUCAuggaacUGACGUcuaccgaUCUCCuCACGUAcGGCCu -3'
miRNA:   3'- -CAGU------ACUGCG-------AGAGG-GUGCAU-CCGGc -5'
15850 3' -56.5 NC_004065.1 + 173022 0.7 0.801056
Target:  5'- gGUUcgGAUGCggugCUCUCAUGgcGGCCa -3'
miRNA:   3'- -CAGuaCUGCGa---GAGGGUGCauCCGGc -5'
15850 3' -56.5 NC_004065.1 + 165454 0.7 0.801056
Target:  5'- aGUCGacGCGCUC-CCCGCGgcGGCUc -3'
miRNA:   3'- -CAGUacUGCGAGaGGGUGCauCCGGc -5'
15850 3' -56.5 NC_004065.1 + 75578 0.7 0.801056
Target:  5'- -cCGUGACGUUCgugucgCCgGCGgggggAGGCCGc -3'
miRNA:   3'- caGUACUGCGAGa-----GGgUGCa----UCCGGC- -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.