miRNA display CGI


Results 1 - 20 of 28 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
18589 3' -52.8 NC_004682.1 + 23709 1.08 0.001531
Target:  5'- gUUCAAAGACCUCGAUGUCUCGGCCACg -3'
miRNA:   3'- -AAGUUUCUGGAGCUACAGAGCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 38799 0.75 0.288125
Target:  5'- -----cGACCUUGGUcGUCUCGGCCAg -3'
miRNA:   3'- aaguuuCUGGAGCUA-CAGAGCCGGUg -5'
18589 3' -52.8 NC_004682.1 + 13661 0.74 0.327612
Target:  5'- gUUCAu-GACCUCGGUgGUCaUgGGCCACa -3'
miRNA:   3'- -AAGUuuCUGGAGCUA-CAG-AgCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 45307 0.74 0.335975
Target:  5'- gUCGcGAGACCgucUCGAUGUCgcggCGGUCGCa -3'
miRNA:   3'- aAGU-UUCUGG---AGCUACAGa---GCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 27209 0.73 0.370966
Target:  5'- gUCAGGGugU-CGAUGaUCUUGGCCACc -3'
miRNA:   3'- aAGUUUCugGaGCUAC-AGAGCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 46207 0.71 0.479135
Target:  5'- cUCGAuGGCCUCGA--UCUCGGCaGCg -3'
miRNA:   3'- aAGUUuCUGGAGCUacAGAGCCGgUG- -5'
18589 3' -52.8 NC_004682.1 + 32599 0.71 0.479135
Target:  5'- gUCGAuaccGGCCUCGAUGcCUCGGgCGa -3'
miRNA:   3'- aAGUUu---CUGGAGCUACaGAGCCgGUg -5'
18589 3' -52.8 NC_004682.1 + 42519 0.7 0.533171
Target:  5'- aUC-AGGugCUCGAUGUacccgacguggCUCGGCgGCg -3'
miRNA:   3'- aAGuUUCugGAGCUACA-----------GAGCCGgUG- -5'
18589 3' -52.8 NC_004682.1 + 37297 0.7 0.555404
Target:  5'- cUCGAAGcCCUCGuUGUCcugcUCGGCC-Cg -3'
miRNA:   3'- aAGUUUCuGGAGCuACAG----AGCCGGuG- -5'
18589 3' -52.8 NC_004682.1 + 28025 0.7 0.555404
Target:  5'- cUCAGAucaccuCCUUGAggaUCUCGGCCACg -3'
miRNA:   3'- aAGUUUcu----GGAGCUac-AGAGCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 6598 0.7 0.563252
Target:  5'- -cCAGAGACCUagucgaugauccgaUGAUGUacUUCGGCCAa -3'
miRNA:   3'- aaGUUUCUGGA--------------GCUACA--GAGCCGGUg -5'
18589 3' -52.8 NC_004682.1 + 43434 0.69 0.610842
Target:  5'- aUCugcGGGGgCUCGAUgccguagGUCUCGGCCAg -3'
miRNA:   3'- aAGu--UUCUgGAGCUA-------CAGAGCCGGUg -5'
18589 3' -52.8 NC_004682.1 + 42370 0.68 0.646231
Target:  5'- gUCGAAGGCgaaUCGcuuUGUCU-GGCCGCg -3'
miRNA:   3'- aAGUUUCUGg--AGCu--ACAGAgCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 48907 0.68 0.656495
Target:  5'- aUCGGGGACCgaggUGGguagGUCgucguagUCGGCCACc -3'
miRNA:   3'- aAGUUUCUGGa---GCUa---CAG-------AGCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 36967 0.68 0.657634
Target:  5'- -----cGGCCUCGGUggaucggaaccGUCUCGGCCu- -3'
miRNA:   3'- aaguuuCUGGAGCUA-----------CAGAGCCGGug -5'
18589 3' -52.8 NC_004682.1 + 11718 0.68 0.680353
Target:  5'- aUCGAgaAGACCUCGAuUGUCcagCGGaUCGCc -3'
miRNA:   3'- aAGUU--UCUGGAGCU-ACAGa--GCC-GGUG- -5'
18589 3' -52.8 NC_004682.1 + 13962 0.68 0.691644
Target:  5'- cUCGAAGcGCCaaugCGAUGgccaucgagUUCGGCCACc -3'
miRNA:   3'- aAGUUUC-UGGa---GCUACa--------GAGCCGGUG- -5'
18589 3' -52.8 NC_004682.1 + 10715 0.67 0.702874
Target:  5'- -gCcuAGACCUCGAUGacgaCUCGGCaGCc -3'
miRNA:   3'- aaGuuUCUGGAGCUACa---GAGCCGgUG- -5'
18589 3' -52.8 NC_004682.1 + 25779 0.67 0.702874
Target:  5'- -aCAGucGGACCUCGggGUC-CGGCUu- -3'
miRNA:   3'- aaGUU--UCUGGAGCuaCAGaGCCGGug -5'
18589 3' -52.8 NC_004682.1 + 48686 0.67 0.702874
Target:  5'- cUUCGAGgaaccgugcGACCUCGAuguUGUCUCGauCCGCg -3'
miRNA:   3'- -AAGUUU---------CUGGAGCU---ACAGAGCc-GGUG- -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.