miRNA display CGI


Results 1 - 20 of 35 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
11610 3' -57.4 NC_003085.1 + 8796 0.66 0.584147
Target:  5'- cGCcgGcGGCUCcgcgagguugCgCGgCGCAGCCAGCg -3'
miRNA:   3'- -UGuaC-CUGAGa---------GgGCaGCGUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 13535 0.7 0.332321
Target:  5'- uACGaGGGCaUCUUCCGccugCGCGGCUGGCc -3'
miRNA:   3'- -UGUaCCUG-AGAGGGCa---GCGUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 25794 0.68 0.409506
Target:  5'- uGCGUGGACgccugggcggcguUCgCCUG-CGCGGCCuGCu -3'
miRNA:   3'- -UGUACCUG-------------AGaGGGCaGCGUCGGuCG- -5'
11610 3' -57.4 NC_003085.1 + 26620 0.68 0.419794
Target:  5'- ---cGGACUCUCCU-UCGCuGCCgacguGGCa -3'
miRNA:   3'- uguaCCUGAGAGGGcAGCGuCGG-----UCG- -5'
11610 3' -57.4 NC_003085.1 + 16599 0.67 0.510405
Target:  5'- uGCGcUGGGC-CUCCCGggcggucccgcggcgCGCGGCCucucgGGCc -3'
miRNA:   3'- -UGU-ACCUGaGAGGGCa--------------GCGUCGG-----UCG- -5'
11610 3' -57.4 NC_003085.1 + 34158 0.66 0.551704
Target:  5'- cUAUGGGCUCgacgCCC--CG-GGCCAGCa -3'
miRNA:   3'- uGUACCUGAGa---GGGcaGCgUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 42690 0.71 0.308826
Target:  5'- aGCGgaaGGGCUCUCgCCGUCcGCcacGGCgCGGCa -3'
miRNA:   3'- -UGUa--CCUGAGAG-GGCAG-CG---UCG-GUCG- -5'
11610 3' -57.4 NC_003085.1 + 30426 0.69 0.383153
Target:  5'- ---cGGAaUCUCCaCGaCGCAGCCAGa -3'
miRNA:   3'- uguaCCUgAGAGG-GCaGCGUCGGUCg -5'
11610 3' -57.4 NC_003085.1 + 33170 0.67 0.498985
Target:  5'- uCAUGGcGCcugCUCCaguaGUCGC-GCCAGUa -3'
miRNA:   3'- uGUACC-UGa--GAGGg---CAGCGuCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 38969 0.66 0.561386
Target:  5'- ---cGGAUUCUCCaGUgCGCcgcgcagcaggucGGCCAGCc -3'
miRNA:   3'- uguaCCUGAGAGGgCA-GCG-------------UCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 27358 0.66 0.562465
Target:  5'- ---cGGGCUCUgCUGg-GCGGCCuGCu -3'
miRNA:   3'- uguaCCUGAGAgGGCagCGUCGGuCG- -5'
11610 3' -57.4 NC_003085.1 + 2342 0.66 0.562465
Target:  5'- -gGUGGGCcuugCUCCCGUC-CAGCgCgacgGGCu -3'
miRNA:   3'- ugUACCUGa---GAGGGCAGcGUCG-G----UCG- -5'
11610 3' -57.4 NC_003085.1 + 597 0.69 0.392112
Target:  5'- uGCGgcGACUgCaagCCCGUCGCGGCCuacGGCg -3'
miRNA:   3'- -UGUacCUGA-Ga--GGGCAGCGUCGG---UCG- -5'
11610 3' -57.4 NC_003085.1 + 6474 0.7 0.316514
Target:  5'- -gAUGGACUCggCCGaugaaGUGGCCAGCg -3'
miRNA:   3'- ugUACCUGAGagGGCag---CGUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 34414 0.67 0.498985
Target:  5'- gGCAUGGGgaUUCCgGccagccaaaacUCGgAGCCGGCg -3'
miRNA:   3'- -UGUACCUgaGAGGgC-----------AGCgUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 28077 0.67 0.478521
Target:  5'- -aGUGGAgUCUCCUGUCcGCcuucaccaacuuGGgCAGCg -3'
miRNA:   3'- ugUACCUgAGAGGGCAG-CG------------UCgGUCG- -5'
11610 3' -57.4 NC_003085.1 + 43805 0.68 0.438892
Target:  5'- aGCGUGucCgUCaUCuuGUCGUAGCCGGUg -3'
miRNA:   3'- -UGUACcuG-AG-AGggCAGCGUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 23784 0.68 0.438892
Target:  5'- gGCAUGGGCgaaUUCGUC-CGGCCGGUa -3'
miRNA:   3'- -UGUACCUGagaGGGCAGcGUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 24794 0.77 0.108972
Target:  5'- aACAUGGugccGCUCagCCCGUCGCGGCgcgCGGCu -3'
miRNA:   3'- -UGUACC----UGAGa-GGGCAGCGUCG---GUCG- -5'
11610 3' -57.4 NC_003085.1 + 9953 0.72 0.239732
Target:  5'- -uGUGGGaaugggCUCCCGgaagaaGCGGCCAGCu -3'
miRNA:   3'- ugUACCUga----GAGGGCag----CGUCGGUCG- -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.