miRNA display CGI


Results 1 - 16 of 16 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
14058 3' -53.9 NC_003521.1 + 141077 0.66 0.987297
Target:  5'- gUCUGCGAcguGGAGGCCCucCUguGGcUGCu -3'
miRNA:   3'- -AGACGCU---CCUCUGGGcaGAguUC-AUG- -5'
14058 3' -53.9 NC_003521.1 + 143320 0.66 0.983965
Target:  5'- cUCUGCGAGGu--CUCG-CUCucGUACc -3'
miRNA:   3'- -AGACGCUCCucuGGGCaGAGuuCAUG- -5'
14058 3' -53.9 NC_003521.1 + 60686 0.66 0.983783
Target:  5'- gCUGCGgccgcgcGGGGGACCCGggggCggcgCGGGUcGCa -3'
miRNA:   3'- aGACGC-------UCCUCUGGGCa---Ga---GUUCA-UG- -5'
14058 3' -53.9 NC_003521.1 + 166677 0.66 0.982069
Target:  5'- gCUGCGAcagcauCCCGUCUC-GGUGCg -3'
miRNA:   3'- aGACGCUccucu-GGGCAGAGuUCAUG- -5'
14058 3' -53.9 NC_003521.1 + 196107 0.66 0.980009
Target:  5'- aUCaGCGucaccAGGAucuGGCgCGUCUCGGGUACc -3'
miRNA:   3'- -AGaCGC-----UCCU---CUGgGCAGAGUUCAUG- -5'
14058 3' -53.9 NC_003521.1 + 11787 0.67 0.977778
Target:  5'- gCUGCGAGGAGuCCC-UCgagCcccuagGGGUGCu -3'
miRNA:   3'- aGACGCUCCUCuGGGcAGa--G------UUCAUG- -5'
14058 3' -53.9 NC_003521.1 + 211819 0.67 0.967001
Target:  5'- uUUUGCGguccGGGGGA-CCGUCUCGuucgcGUACg -3'
miRNA:   3'- -AGACGC----UCCUCUgGGCAGAGUu----CAUG- -5'
14058 3' -53.9 NC_003521.1 + 109608 0.68 0.960413
Target:  5'- --aGCGAGcacAGGCCCGUCUCGAu--- -3'
miRNA:   3'- agaCGCUCc--UCUGGGCAGAGUUcaug -5'
14058 3' -53.9 NC_003521.1 + 35346 0.69 0.94013
Target:  5'- --cGCGAGGAGGagugCCGUCgUCGAGgaacgACg -3'
miRNA:   3'- agaCGCUCCUCUg---GGCAG-AGUUCa----UG- -5'
14058 3' -53.9 NC_003521.1 + 113186 0.69 0.94013
Target:  5'- --cGCGAGGuG-CCCGUCUUc-GUGCa -3'
miRNA:   3'- agaCGCUCCuCuGGGCAGAGuuCAUG- -5'
14058 3' -53.9 NC_003521.1 + 152283 0.69 0.925225
Target:  5'- cCUGCcccGAGGAGG-CCGUUUC-GGUGCg -3'
miRNA:   3'- aGACG---CUCCUCUgGGCAGAGuUCAUG- -5'
14058 3' -53.9 NC_003521.1 + 61347 0.7 0.895761
Target:  5'- gCUGCc-GGAGcguACCCGUCagGAGUACg -3'
miRNA:   3'- aGACGcuCCUC---UGGGCAGagUUCAUG- -5'
14058 3' -53.9 NC_003521.1 + 101586 0.71 0.868167
Target:  5'- --cGCGAGGAGcCCCGUa-CAGGUGg -3'
miRNA:   3'- agaCGCUCCUCuGGGCAgaGUUCAUg -5'
14058 3' -53.9 NC_003521.1 + 216872 0.71 0.845295
Target:  5'- cUCUGCGGGcGAGACCgaugaggguCGUCgCAGGUGa -3'
miRNA:   3'- -AGACGCUC-CUCUGG---------GCAGaGUUCAUg -5'
14058 3' -53.9 NC_003521.1 + 184426 0.72 0.837286
Target:  5'- gCUGCGAGGAGuCCUGcCcCAAGgugACg -3'
miRNA:   3'- aGACGCUCCUCuGGGCaGaGUUCa--UG- -5'
14058 3' -53.9 NC_003521.1 + 152105 1.11 0.005566
Target:  5'- cUCUGCGAGGAGACCCGUCUCAAGUACg -3'
miRNA:   3'- -AGACGCUCCUCUGGGCAGAGUUCAUG- -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.