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
17005 3' -52.4 NC_004333.2 + 2891 0.66 0.835617
Target:  5'- gCGAGGCuGAuGuUGGCcgagacgugcUGCGCAGCGGu- -3'
miRNA:   3'- -GCUUCG-CUuC-ACCG----------ACGCGUUGCUug -5'
17005 3' -52.4 NC_004333.2 + 22908 0.66 0.835617
Target:  5'- aGAAGCGcGGUGcugccgcucgaGUUGUGCAGCGuAUa -3'
miRNA:   3'- gCUUCGCuUCAC-----------CGACGCGUUGCuUG- -5'
17005 3' -52.4 NC_004333.2 + 40315 0.66 0.820606
Target:  5'- uGggGCGAgcgcgagcuGGaaaUGGCcgGCGCAggccgcgucgaucugGCGAGCg -3'
miRNA:   3'- gCuuCGCU---------UC---ACCGa-CGCGU---------------UGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 41297 0.66 0.816767
Target:  5'- uCGccGCGAuccgcucgaUGGCUGCGCAAUGcaguGCg -3'
miRNA:   3'- -GCuuCGCUuc-------ACCGACGCGUUGCu---UG- -5'
17005 3' -52.4 NC_004333.2 + 36603 0.66 0.816767
Target:  5'- uCGAcaaucAGCGcauGUGGCaaucgcgucUGCGCAacGCGGGCu -3'
miRNA:   3'- -GCU-----UCGCuu-CACCG---------ACGCGU--UGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 21022 0.66 0.816767
Target:  5'- aCGGGcGaCGAAGUGGCcGCGCAgugcugcuccuGgGGACu -3'
miRNA:   3'- -GCUU-C-GCUUCACCGaCGCGU-----------UgCUUG- -5'
17005 3' -52.4 NC_004333.2 + 17862 0.66 0.807024
Target:  5'- gCGuauGGCG-GGUGGUgucgcagGCGCGACGGc- -3'
miRNA:   3'- -GCu--UCGCuUCACCGa------CGCGUUGCUug -5'
17005 3' -52.4 NC_004333.2 + 38967 0.67 0.776661
Target:  5'- gGAuGCGAAGUcGG-UGCGCAccGCGAu- -3'
miRNA:   3'- gCUuCGCUUCA-CCgACGCGU--UGCUug -5'
17005 3' -52.4 NC_004333.2 + 27552 0.67 0.766203
Target:  5'- cCGggGCGAAu---CUGCGCAuUGAACa -3'
miRNA:   3'- -GCuuCGCUUcaccGACGCGUuGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 45101 0.67 0.764093
Target:  5'- gCGAGGCGAuacucgacgccUGuCUGCGCGGCGAucGCg -3'
miRNA:   3'- -GCUUCGCUuc---------ACcGACGCGUUGCU--UG- -5'
17005 3' -52.4 NC_004333.2 + 41588 0.67 0.755596
Target:  5'- gCGgcGCGccGUGGCgGCGauGCGGGCu -3'
miRNA:   3'- -GCuuCGCuuCACCGaCGCguUGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 29768 0.67 0.73399
Target:  5'- cCGAucGCGAGGc-GUUGCGCuuCGGACg -3'
miRNA:   3'- -GCUu-CGCUUCacCGACGCGuuGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 2427 0.68 0.711945
Target:  5'- gCGGcAGCGugccuUGGUacgGCGCGGCGAACa -3'
miRNA:   3'- -GCU-UCGCuuc--ACCGa--CGCGUUGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 38594 0.68 0.700789
Target:  5'- cCGGcuGGCGcugaAGGUGGCg--GCAACGAACu -3'
miRNA:   3'- -GCU--UCGC----UUCACCGacgCGUUGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 26287 0.68 0.689562
Target:  5'- aGAacGGCGcccaauuGG-GGCuaUGCGCAGCGAACc -3'
miRNA:   3'- gCU--UCGCu------UCaCCG--ACGCGUUGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 6301 0.69 0.666942
Target:  5'- aCGAGcGCGcuGGUgaaaGGCUGCGCAGCcgugaGGACg -3'
miRNA:   3'- -GCUU-CGCu-UCA----CCGACGCGUUG-----CUUG- -5'
17005 3' -52.4 NC_004333.2 + 41305 0.69 0.655573
Target:  5'- aCGAGGCcGAGcucgcccGGC-GCGCGAUGGACg -3'
miRNA:   3'- -GCUUCGcUUCa------CCGaCGCGUUGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 29882 0.7 0.564707
Target:  5'- uCGucGGCGAAGc-GCUGCGCGAuCGGGCc -3'
miRNA:   3'- -GCu-UCGCUUCacCGACGCGUU-GCUUG- -5'
17005 3' -52.4 NC_004333.2 + 39478 0.7 0.564707
Target:  5'- -aAGGCGAAGaUGGaagcgcgcgGCGUAACGGACg -3'
miRNA:   3'- gcUUCGCUUC-ACCga-------CGCGUUGCUUG- -5'
17005 3' -52.4 NC_004333.2 + 8900 0.7 0.553513
Target:  5'- uGAucuuGGCGAGGuUGGCgucgaUGCGCGACGcGGCu -3'
miRNA:   3'- gCU----UCGCUUC-ACCG-----ACGCGUUGC-UUG- -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.