miRNA display CGI


Results 1 - 20 of 48 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
18542 5' -55.5 NC_004682.1 + 417 0.68 0.540172
Target:  5'- -gGCCuucgaGGGCCGGucauacuugacauAGAACCGGCCuCCAg -3'
miRNA:   3'- gaUGG-----CUCGGCUu------------UCUUGGUCGG-GGU- -5'
18542 5' -55.5 NC_004682.1 + 1637 0.69 0.460797
Target:  5'- -aACgGAGCgGAGAcauGGCCAGCCUCAa -3'
miRNA:   3'- gaUGgCUCGgCUUUc--UUGGUCGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 2124 0.66 0.672403
Target:  5'- -cACCGgagaAGCCGGccccgaaggcgagcAGGGACCuaccgguccacaaGGCCCCAa -3'
miRNA:   3'- gaUGGC----UCGGCU--------------UUCUUGG-------------UCGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 2314 0.66 0.68671
Target:  5'- --uCCGGGCCGAAgggcgacaaAGGcgacaagggcgauACCGGCCCa- -3'
miRNA:   3'- gauGGCUCGGCUU---------UCU-------------UGGUCGGGgu -5'
18542 5' -55.5 NC_004682.1 + 2439 0.68 0.521954
Target:  5'- -cACCGGGCCGcAAGGucccaagggugauACCGGUgCCAc -3'
miRNA:   3'- gaUGGCUCGGCuUUCU-------------UGGUCGgGGU- -5'
18542 5' -55.5 NC_004682.1 + 2731 0.68 0.55969
Target:  5'- -cGCCGAGUCGAccGAgugaugcucgccgucACCGGCCUg- -3'
miRNA:   3'- gaUGGCUCGGCUuuCU---------------UGGUCGGGgu -5'
18542 5' -55.5 NC_004682.1 + 3414 0.67 0.599251
Target:  5'- --uUCGAGaCGAAGGGACUgagguucgacGGCCCCGg -3'
miRNA:   3'- gauGGCUCgGCUUUCUUGG----------UCGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 3480 0.69 0.501881
Target:  5'- cCUGCUGGGCCGGGAgcggacgguGAACC--CCCCGc -3'
miRNA:   3'- -GAUGGCUCGGCUUU---------CUUGGucGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 5272 0.66 0.685612
Target:  5'- -cGCCGcGCUGggGcugcugcucacGCCGGCCCCGg -3'
miRNA:   3'- gaUGGCuCGGCuuUcu---------UGGUCGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 6023 0.7 0.450804
Target:  5'- cCUGCuUGAGCCGuacggGGAGAACUgauGCCCCu -3'
miRNA:   3'- -GAUG-GCUCGGC-----UUUCUUGGu--CGGGGu -5'
18542 5' -55.5 NC_004682.1 + 11317 0.66 0.673506
Target:  5'- aCUGCguGGCCGAGGGAAUCaccaccaagcgaaaGGCUCCAc -3'
miRNA:   3'- -GAUGgcUCGGCUUUCUUGG--------------UCGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 12631 0.66 0.654707
Target:  5'- ---aCGGGCCG--GGGGCCuagAGCCCCc -3'
miRNA:   3'- gaugGCUCGGCuuUCUUGG---UCGGGGu -5'
18542 5' -55.5 NC_004682.1 + 13819 0.72 0.324819
Target:  5'- aUGCCGAGgCGAAGGAGCgAGgCCgGa -3'
miRNA:   3'- gAUGGCUCgGCUUUCUUGgUCgGGgU- -5'
18542 5' -55.5 NC_004682.1 + 15923 0.66 0.665776
Target:  5'- --gUCGaAGCCGAAGccGCCAGaCCCCu -3'
miRNA:   3'- gauGGC-UCGGCUUUcuUGGUC-GGGGu -5'
18542 5' -55.5 NC_004682.1 + 17913 0.68 0.523019
Target:  5'- -gACCGAGCUGGAGcGucACCGGCaCCUg -3'
miRNA:   3'- gaUGGCUCGGCUUU-Cu-UGGUCG-GGGu -5'
18542 5' -55.5 NC_004682.1 + 18618 0.69 0.460797
Target:  5'- -cGCCGAGCUGAAGcGAaaGCUGGCCgCGc -3'
miRNA:   3'- gaUGGCUCGGCUUU-CU--UGGUCGGgGU- -5'
18542 5' -55.5 NC_004682.1 + 22552 0.71 0.366662
Target:  5'- -cGuuGGGUguCGAAGGAcacGCCGGCCCCGa -3'
miRNA:   3'- gaUggCUCG--GCUUUCU---UGGUCGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 23288 0.71 0.375464
Target:  5'- -cAUCGAGCggauCGAAGGAGaCCGGCUCCGc -3'
miRNA:   3'- gaUGGCUCG----GCUUUCUU-GGUCGGGGU- -5'
18542 5' -55.5 NC_004682.1 + 25233 0.67 0.609215
Target:  5'- -gGCgCGAGCCGGA--GACCGGCaagguagCCCAc -3'
miRNA:   3'- gaUG-GCUCGGCUUucUUGGUCG-------GGGU- -5'
18542 5' -55.5 NC_004682.1 + 25335 0.73 0.286633
Target:  5'- -aGCCGAcGCUGGAcuGGGACCugaucuacAGCCCCAa -3'
miRNA:   3'- gaUGGCU-CGGCUU--UCUUGG--------UCGGGGU- -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.