miRNA display CGI


Results 1 - 20 of 44 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
9380 3' -55.8 NC_002512.2 + 35793 0.66 0.963552
Target:  5'- -aUCGUCaCCAUucUUGGAgGAUCGCGGa -3'
miRNA:   3'- caAGCAG-GGUGcuGGCCU-CUAGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 71746 0.66 0.969649
Target:  5'- --cCGcUCCCGCGACuaCGGGGuUCGCu- -3'
miRNA:   3'- caaGC-AGGGUGCUG--GCCUCuAGCGuc -5'
9380 3' -55.8 NC_002512.2 + 76662 0.68 0.914875
Target:  5'- cUUC-UCCCgacgaaagaACGACCGGAGAUcCGCu- -3'
miRNA:   3'- cAAGcAGGG---------UGCUGGCCUCUA-GCGuc -5'
9380 3' -55.8 NC_002512.2 + 87619 0.7 0.855421
Target:  5'- --cCGUCCCcggcccggacgACGACCGGAucccaGAUCGgAGa -3'
miRNA:   3'- caaGCAGGG-----------UGCUGGCCU-----CUAGCgUC- -5'
9380 3' -55.8 NC_002512.2 + 88982 0.69 0.870078
Target:  5'- -gUCGUCCCcgucguCGAcCCGGAGcgCGgGGa -3'
miRNA:   3'- caAGCAGGGu-----GCU-GGCCUCuaGCgUC- -5'
9380 3' -55.8 NC_002512.2 + 89856 0.69 0.883936
Target:  5'- ---gGUUCUGCGugCGGuGAUCGUAGu -3'
miRNA:   3'- caagCAGGGUGCugGCCuCUAGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 92227 0.67 0.930794
Target:  5'- aGUUCGUgCCCgACGACCGGGacUCGgAc -3'
miRNA:   3'- -CAAGCA-GGG-UGCUGGCCUcuAGCgUc -5'
9380 3' -55.8 NC_002512.2 + 94285 0.68 0.914875
Target:  5'- --gCGU-CCACGGCCGGGGA--GCGGu -3'
miRNA:   3'- caaGCAgGGUGCUGGCCUCUagCGUC- -5'
9380 3' -55.8 NC_002512.2 + 94793 0.67 0.944707
Target:  5'- aGggCG-CgCACGACgCGGAGA-CGCGGg -3'
miRNA:   3'- -CaaGCaGgGUGCUG-GCCUCUaGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 106705 0.66 0.959159
Target:  5'- -cUCGUCCCGucccgccucggccuCGGCCucggcGGcGAUCGCGGc -3'
miRNA:   3'- caAGCAGGGU--------------GCUGG-----CCuCUAGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 107211 0.71 0.789762
Target:  5'- --cCGggCCGCGGCCGGGGAgcCGCGGu -3'
miRNA:   3'- caaGCagGGUGCUGGCCUCUa-GCGUC- -5'
9380 3' -55.8 NC_002512.2 + 113498 0.66 0.956648
Target:  5'- aGggCGaCCCGCc-CCGGGGAcCGCAGg -3'
miRNA:   3'- -CaaGCaGGGUGcuGGCCUCUaGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 118439 0.67 0.952883
Target:  5'- --aCGUCCCugGACgagacgcacuaCGGGaacuacucGGUCGCGGa -3'
miRNA:   3'- caaGCAGGGugCUG-----------GCCU--------CUAGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 122608 0.66 0.969649
Target:  5'- gGUUCGUCUCgGCGGCCucgguccgGGuGAaCGCGGa -3'
miRNA:   3'- -CAAGCAGGG-UGCUGG--------CCuCUaGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 132036 0.66 0.963552
Target:  5'- -gUCGUCggCCAgGgACCGGAGGgugCGCGa -3'
miRNA:   3'- caAGCAG--GGUgC-UGGCCUCUa--GCGUc -5'
9380 3' -55.8 NC_002512.2 + 135180 0.66 0.966699
Target:  5'- --gCGcCCCGCGcACCGcGAGcuGUCGCAc -3'
miRNA:   3'- caaGCaGGGUGC-UGGC-CUC--UAGCGUc -5'
9380 3' -55.8 NC_002512.2 + 137540 0.66 0.956648
Target:  5'- --gCGUCCgCgGCGACgGGuucGGUCGCGGa -3'
miRNA:   3'- caaGCAGG-G-UGCUGgCCu--CUAGCGUC- -5'
9380 3' -55.8 NC_002512.2 + 138998 0.67 0.930794
Target:  5'- --cCGUCCCggACGAuCCGGAcgagaucacGAUCGCGc -3'
miRNA:   3'- caaGCAGGG--UGCU-GGCCU---------CUAGCGUc -5'
9380 3' -55.8 NC_002512.2 + 141274 0.69 0.877109
Target:  5'- cGUUCGUCCCgACG-CCGGccGcgCGCAc -3'
miRNA:   3'- -CAAGCAGGG-UGCuGGCCu-CuaGCGUc -5'
9380 3' -55.8 NC_002512.2 + 142608 0.69 0.879865
Target:  5'- --cCGUccacCCCACGAccgcguguucgcuccCCGGAGAccccUCGCAGg -3'
miRNA:   3'- caaGCA----GGGUGCU---------------GGCCUCU----AGCGUC- -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.