miRNA display CGI


Results 1 - 20 of 25 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
30136 5' -54.2 NC_006273.1 + 146347 0.66 0.987568
Target:  5'- uUCG-CCGCGAUCaCGUUccGCGUCGu- -3'
miRNA:   3'- cAGCaGGCGCUGG-GCAAu-UGCAGCuu -5'
30136 5' -54.2 NC_006273.1 + 232843 0.66 0.986012
Target:  5'- cUCG-CCGCGGCCCG--GACGUa--- -3'
miRNA:   3'- cAGCaGGCGCUGGGCaaUUGCAgcuu -5'
30136 5' -54.2 NC_006273.1 + 115221 0.66 0.983772
Target:  5'- -aCGUCgGCGG-CCGUUGugguaacgacaaccACGUCGGAg -3'
miRNA:   3'- caGCAGgCGCUgGGCAAU--------------UGCAGCUU- -5'
30136 5' -54.2 NC_006273.1 + 66161 0.66 0.982458
Target:  5'- uUCGUCUgccuGCGACCCGUagacuuucAGCGUCuGAc -3'
miRNA:   3'- cAGCAGG----CGCUGGGCAa-------UUGCAG-CUu -5'
30136 5' -54.2 NC_006273.1 + 621 0.66 0.980445
Target:  5'- --aGUCCGCGGCCCuGUUGcGCGUg--- -3'
miRNA:   3'- cagCAGGCGCUGGG-CAAU-UGCAgcuu -5'
30136 5' -54.2 NC_006273.1 + 130284 0.66 0.980445
Target:  5'- -gCGUCCGCaaGCgCCGUgcGCGUUGGAc -3'
miRNA:   3'- caGCAGGCGc-UG-GGCAauUGCAGCUU- -5'
30136 5' -54.2 NC_006273.1 + 195514 0.66 0.980445
Target:  5'- --aGUCCGCGGCCCuGUUGcGCGUg--- -3'
miRNA:   3'- cagCAGGCGCUGGG-CAAU-UGCAgcuu -5'
30136 5' -54.2 NC_006273.1 + 69752 0.66 0.978264
Target:  5'- -cCGggCCGCGGCaCCGUgcuGCGUCuGAGu -3'
miRNA:   3'- caGCa-GGCGCUG-GGCAau-UGCAG-CUU- -5'
30136 5' -54.2 NC_006273.1 + 46246 0.67 0.975908
Target:  5'- uGUCGUCCuCGGCCa----GCGUCGAc -3'
miRNA:   3'- -CAGCAGGcGCUGGgcaauUGCAGCUu -5'
30136 5' -54.2 NC_006273.1 + 145100 0.67 0.973371
Target:  5'- gGUUGUCgGCGGCCUGcgaaGACGUCu-- -3'
miRNA:   3'- -CAGCAGgCGCUGGGCaa--UUGCAGcuu -5'
30136 5' -54.2 NC_006273.1 + 15140 0.67 0.970646
Target:  5'- -aCGUCCGCGGCCgGgacgcaguuUUGugGcCGAAg -3'
miRNA:   3'- caGCAGGCGCUGGgC---------AAUugCaGCUU- -5'
30136 5' -54.2 NC_006273.1 + 122984 0.68 0.957747
Target:  5'- -gCGUCCGCGGCgaCGguccuuCGUCGAGc -3'
miRNA:   3'- caGCAGGCGCUGg-GCaauu--GCAGCUU- -5'
30136 5' -54.2 NC_006273.1 + 86132 0.68 0.957747
Target:  5'- --gGUCCGUGACCCGaaUAGcCGUCGu- -3'
miRNA:   3'- cagCAGGCGCUGGGCa-AUU-GCAGCuu -5'
30136 5' -54.2 NC_006273.1 + 142218 0.68 0.953997
Target:  5'- -gCGUCCGCGguggacgcaaacGCCCGUU-GCGUCc-- -3'
miRNA:   3'- caGCAGGCGC------------UGGGCAAuUGCAGcuu -5'
30136 5' -54.2 NC_006273.1 + 179482 0.69 0.931913
Target:  5'- ----aCUGCGACCUGUUAcGCGUCGGc -3'
miRNA:   3'- cagcaGGCGCUGGGCAAU-UGCAGCUu -5'
30136 5' -54.2 NC_006273.1 + 174609 0.7 0.910147
Target:  5'- cGUCGUCCGUuugGACaacuUUAGCGUCGAAu -3'
miRNA:   3'- -CAGCAGGCG---CUGggc-AAUUGCAGCUU- -5'
30136 5' -54.2 NC_006273.1 + 164440 0.7 0.900422
Target:  5'- cGUCGUCUGCGGCCgCGgccgcucgaugacGAUGUCGGc -3'
miRNA:   3'- -CAGCAGGCGCUGG-GCaa-----------UUGCAGCUu -5'
30136 5' -54.2 NC_006273.1 + 227358 0.7 0.897901
Target:  5'- cGUCG-CCGCGuCUCGUU--CGUCGAGg -3'
miRNA:   3'- -CAGCaGGCGCuGGGCAAuuGCAGCUU- -5'
30136 5' -54.2 NC_006273.1 + 47425 0.71 0.855972
Target:  5'- aUCaUCCGCGACUCGUacGACGUCGu- -3'
miRNA:   3'- cAGcAGGCGCUGGGCAa-UUGCAGCuu -5'
30136 5' -54.2 NC_006273.1 + 25173 0.71 0.848274
Target:  5'- cGUCGUCCgacGCGAUgaCGUUAACGcCGAAc -3'
miRNA:   3'- -CAGCAGG---CGCUGg-GCAAUUGCaGCUU- -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.