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
14302 5' -51.4 NC_003521.1 + 13895 0.66 0.997514
Target:  5'- cGCcgGGGGGCCcGGcgcgGAGGGGGccgcgGAGg -3'
miRNA:   3'- cUGuaCCCUCGGuCCa---CUUUCCU-----UUC- -5'
14302 5' -51.4 NC_003521.1 + 129869 0.66 0.997514
Target:  5'- cGACgaGUGGGugacGGCCGGG-GAgGAGGAGGa -3'
miRNA:   3'- -CUG--UACCC----UCGGUCCaCU-UUCCUUUc -5'
14302 5' -51.4 NC_003521.1 + 107797 0.66 0.996547
Target:  5'- ---cUGGGAGCCGacGGUGAuuAGGGu-- -3'
miRNA:   3'- cuguACCCUCGGU--CCACUu-UCCUuuc -5'
14302 5' -51.4 NC_003521.1 + 48553 0.66 0.995958
Target:  5'- cGGCGUGGaGAcGCCGcuGGUGAAGGuGAcGGc -3'
miRNA:   3'- -CUGUACC-CU-CGGU--CCACUUUC-CUuUC- -5'
14302 5' -51.4 NC_003521.1 + 5651 0.66 0.995958
Target:  5'- cACAUGGcGGCggaGGGUGggGGGucGAGa -3'
miRNA:   3'- cUGUACCcUCGg--UCCACuuUCCu-UUC- -5'
14302 5' -51.4 NC_003521.1 + 108118 0.66 0.995958
Target:  5'- gGGCAUGGGGGCUAcGGUcacguuguuGAGGAu-- -3'
miRNA:   3'- -CUGUACCCUCGGU-CCAcu-------UUCCUuuc -5'
14302 5' -51.4 NC_003521.1 + 96851 0.66 0.99529
Target:  5'- cGGCAUGGGgcggaaGGCCGGGUGguAGc---- -3'
miRNA:   3'- -CUGUACCC------UCGGUCCACuuUCcuuuc -5'
14302 5' -51.4 NC_003521.1 + 34393 0.67 0.994534
Target:  5'- gGugGUGGcgcucGGGCCAGGUGA--GGAu-- -3'
miRNA:   3'- -CugUACC-----CUCGGUCCACUuuCCUuuc -5'
14302 5' -51.4 NC_003521.1 + 44828 0.67 0.994534
Target:  5'- cGACAcgccacagcuccUGGG-GCU-GGUGAcAGGAAAGg -3'
miRNA:   3'- -CUGU------------ACCCuCGGuCCACUuUCCUUUC- -5'
14302 5' -51.4 NC_003521.1 + 136917 0.68 0.989164
Target:  5'- uGAUGUGGGAccaggggcGCCAGcGUGAcuGGGAGu -3'
miRNA:   3'- -CUGUACCCU--------CGGUC-CACUuuCCUUUc -5'
14302 5' -51.4 NC_003521.1 + 78413 0.68 0.989164
Target:  5'- cGCGUGGGAGCCAaGGaaacGAcGGGGu-- -3'
miRNA:   3'- cUGUACCCUCGGU-CCa---CUuUCCUuuc -5'
14302 5' -51.4 NC_003521.1 + 204643 0.68 0.989025
Target:  5'- cACAcGGGGGUuuauucaCAGGgGAAGGGGAAGa -3'
miRNA:   3'- cUGUaCCCUCG-------GUCCaCUUUCCUUUC- -5'
14302 5' -51.4 NC_003521.1 + 27380 0.68 0.986116
Target:  5'- aGCcgGGGGGCCAGGccacGGGGAu- -3'
miRNA:   3'- cUGuaCCCUCGGUCCacuuUCCUUuc -5'
14302 5' -51.4 NC_003521.1 + 123372 0.68 0.984364
Target:  5'- aGGCGgcGGGGGCU-GGUGAGaauacGGGGAGGg -3'
miRNA:   3'- -CUGUa-CCCUCGGuCCACUU-----UCCUUUC- -5'
14302 5' -51.4 NC_003521.1 + 49354 0.69 0.9781
Target:  5'- cGCGUGuGGuGGCCGGGUGA--GGAAGc -3'
miRNA:   3'- cUGUAC-CC-UCGGUCCACUuuCCUUUc -5'
14302 5' -51.4 NC_003521.1 + 28058 0.69 0.975648
Target:  5'- aGGCggGGGAGagaCAGGaGggGGGAGGa -3'
miRNA:   3'- -CUGuaCCCUCg--GUCCaCuuUCCUUUc -5'
14302 5' -51.4 NC_003521.1 + 148663 0.69 0.970152
Target:  5'- cGACccccgGGcGAGCC-GGUGGAAGGAGc- -3'
miRNA:   3'- -CUGua---CC-CUCGGuCCACUUUCCUUuc -5'
14302 5' -51.4 NC_003521.1 + 99184 0.7 0.967094
Target:  5'- cGGCcUGGGGGCUgaAGGUGgcGGcGGAGGa -3'
miRNA:   3'- -CUGuACCCUCGG--UCCACuuUC-CUUUC- -5'
14302 5' -51.4 NC_003521.1 + 19425 0.7 0.967094
Target:  5'- gGACGUGGGuacggaGGGUGAgaAAGGggGGa -3'
miRNA:   3'- -CUGUACCCucgg--UCCACU--UUCCuuUC- -5'
14302 5' -51.4 NC_003521.1 + 204697 0.7 0.960327
Target:  5'- cGACGaGGGcAGCgAGGUGAccaccacggcGGGGAGGGu -3'
miRNA:   3'- -CUGUaCCC-UCGgUCCACU----------UUCCUUUC- -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.