miRNA display CGI


Results 1 - 20 of 57 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
28057 3' -52.2 NC_005887.1 + 13756 1.14 0.00087
Target:  5'- aCUGUCGAAACCUACCUCGUCGACCGCg -3'
miRNA:   3'- -GACAGCUUUGGAUGGAGCAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 12948 0.76 0.315234
Target:  5'- gCUGUCG-AGCCUGa-UCG-CGACCGCg -3'
miRNA:   3'- -GACAGCuUUGGAUggAGCaGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 39877 0.76 0.315234
Target:  5'- -cGUCGAugauCCgcgucagcGCCUCGUCGACgGCg -3'
miRNA:   3'- gaCAGCUuu--GGa-------UGGAGCAGCUGgCG- -5'
28057 3' -52.2 NC_005887.1 + 6308 0.75 0.339788
Target:  5'- -cGUCGAGGCCUugcGCCUCGcCGG-CGCc -3'
miRNA:   3'- gaCAGCUUUGGA---UGGAGCaGCUgGCG- -5'
28057 3' -52.2 NC_005887.1 + 7225 0.75 0.356041
Target:  5'- gCUGUCGGcgucgggcgcaucGACCaauaucaucgACCUCGgcagCGACCGCg -3'
miRNA:   3'- -GACAGCU-------------UUGGa---------UGGAGCa---GCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 1773 0.73 0.430264
Target:  5'- --cUCGAcaugcucGACCUGCg-CGUCGGCCGCu -3'
miRNA:   3'- gacAGCU-------UUGGAUGgaGCAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 28671 0.73 0.431249
Target:  5'- -gGUCGAGAuCCcACC-CGUCGcGCCGCu -3'
miRNA:   3'- gaCAGCUUU-GGaUGGaGCAGC-UGGCG- -5'
28057 3' -52.2 NC_005887.1 + 15639 0.72 0.482057
Target:  5'- aUGUCGAG--CUGCC-CG-CGGCCGCg -3'
miRNA:   3'- gACAGCUUugGAUGGaGCaGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 29494 0.72 0.492567
Target:  5'- aUGUCGuAGCCggcgGCCUCGacggCGGgCGCg -3'
miRNA:   3'- gACAGCuUUGGa---UGGAGCa---GCUgGCG- -5'
28057 3' -52.2 NC_005887.1 + 71 0.72 0.524699
Target:  5'- --uUCGAAAUCaACCUCGUCGuucaCGCa -3'
miRNA:   3'- gacAGCUUUGGaUGGAGCAGCug--GCG- -5'
28057 3' -52.2 NC_005887.1 + 6016 0.71 0.539967
Target:  5'- -cGUCG--GCCUauACCUggaucgagugcgcggCGUCGACCGCc -3'
miRNA:   3'- gaCAGCuuUGGA--UGGA---------------GCAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 21476 0.71 0.578736
Target:  5'- -gGUCGGguuucucGACCUAUCUCGcaUCG-CCGCc -3'
miRNA:   3'- gaCAGCU-------UUGGAUGGAGC--AGCuGGCG- -5'
28057 3' -52.2 NC_005887.1 + 39226 0.7 0.591054
Target:  5'- -cGUCGuu-CCacacgGCCUCGUaCGACUGCc -3'
miRNA:   3'- gaCAGCuuuGGa----UGGAGCA-GCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 13125 0.7 0.602292
Target:  5'- -gGUCGAcACCUcgagcgugccggGCCUCGUCucgucgcuuGCCGCg -3'
miRNA:   3'- gaCAGCUuUGGA------------UGGAGCAGc--------UGGCG- -5'
28057 3' -52.2 NC_005887.1 + 5812 0.7 0.618068
Target:  5'- cCUGcCGGAauucgcgaaauACCUGCCgccgcccgaugcugCgGUCGACCGCa -3'
miRNA:   3'- -GACaGCUU-----------UGGAUGGa-------------G-CAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 10892 0.7 0.621452
Target:  5'- cCUGUCGGugcACCUGCagccggcgcagaugaCGUCGGCCGg -3'
miRNA:   3'- -GACAGCUu--UGGAUGga-------------GCAGCUGGCg -5'
28057 3' -52.2 NC_005887.1 + 7183 0.7 0.624838
Target:  5'- -gGUCGAGGCCgagAUCgugcagCGUgaCGGCCGCc -3'
miRNA:   3'- gaCAGCUUUGGa--UGGa-----GCA--GCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 29160 0.69 0.65868
Target:  5'- -cGUCG--GCCggcgGCCUgcUCGACCGCu -3'
miRNA:   3'- gaCAGCuuUGGa---UGGAgcAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 7952 0.69 0.65868
Target:  5'- aCUGaUUGcAGGCCggGCCUCGcgccCGGCCGCc -3'
miRNA:   3'- -GAC-AGC-UUUGGa-UGGAGCa---GCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 6558 0.69 0.65868
Target:  5'- gCUGUCGccGCgCUACaaCUCGUUGAgCGCc -3'
miRNA:   3'- -GACAGCuuUG-GAUG--GAGCAGCUgGCG- -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.