miRNA display CGI


Results 1 - 20 of 21 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
13270 3' -57.8 NC_003401.1 + 107676 0.66 0.799045
Target:  5'- aAUGGGGCCCgcuggagaUCGUAGUaaagcuauuugACCCgAGGGUg -3'
miRNA:   3'- gUAUUCCGGG--------GGUAUCG-----------UGGG-UCCCA- -5'
13270 3' -57.8 NC_003401.1 + 132457 0.66 0.788984
Target:  5'- --gGAGGCCggcggcgCCCGgcGCgcggGCCCGGGGg -3'
miRNA:   3'- guaUUCCGG-------GGGUauCG----UGGGUCCCa -5'
13270 3' -57.8 NC_003401.1 + 115249 0.66 0.788984
Target:  5'- gGUGcAGGuCCCCCGgugggAGCGgcucggcUCCGGGGUg -3'
miRNA:   3'- gUAU-UCC-GGGGGUa----UCGU-------GGGUCCCA- -5'
13270 3' -57.8 NC_003401.1 + 125697 0.66 0.771204
Target:  5'- --gAAGGCggCCAUcAGCGCCCuGGGa -3'
miRNA:   3'- guaUUCCGggGGUA-UCGUGGGuCCCa -5'
13270 3' -57.8 NC_003401.1 + 117959 0.66 0.771204
Target:  5'- ----cGGUgCCCAUcGCACCCAuGGUg -3'
miRNA:   3'- guauuCCGgGGGUAuCGUGGGUcCCA- -5'
13270 3' -57.8 NC_003401.1 + 128367 0.66 0.761657
Target:  5'- --cAGGGCggCCAaGGUGCCCGGGGg -3'
miRNA:   3'- guaUUCCGggGGUaUCGUGGGUCCCa -5'
13270 3' -57.8 NC_003401.1 + 132832 0.67 0.722397
Target:  5'- ---cGGGCCCcgCCGaGGCGCCCcGGGc -3'
miRNA:   3'- guauUCCGGG--GGUaUCGUGGGuCCCa -5'
13270 3' -57.8 NC_003401.1 + 126167 0.67 0.722397
Target:  5'- ---cGGGCCaCCGUgugcGGCACCguGGGUc -3'
miRNA:   3'- guauUCCGGgGGUA----UCGUGGguCCCA- -5'
13270 3' -57.8 NC_003401.1 + 7648 0.67 0.71236
Target:  5'- aCGUAGGGgUCCCu--GCGCUgAGGGg -3'
miRNA:   3'- -GUAUUCCgGGGGuauCGUGGgUCCCa -5'
13270 3' -57.8 NC_003401.1 + 127342 0.67 0.692087
Target:  5'- gCGUGcGGCCCUCcugAUGGCAUCCAacGGGc -3'
miRNA:   3'- -GUAUuCCGGGGG---UAUCGUGGGU--CCCa -5'
13270 3' -57.8 NC_003401.1 + 68524 0.68 0.658225
Target:  5'- --cGGGGCCgccaccuguaacguCCCGUGcgcagaauGCGCCCAGGGc -3'
miRNA:   3'- guaUUCCGG--------------GGGUAU--------CGUGGGUCCCa -5'
13270 3' -57.8 NC_003401.1 + 41487 0.68 0.640669
Target:  5'- ----cGGCaCCCCAUGGUACUCauaggcgacgaGGGGUa -3'
miRNA:   3'- guauuCCG-GGGGUAUCGUGGG-----------UCCCA- -5'
13270 3' -57.8 NC_003401.1 + 118291 0.69 0.619994
Target:  5'- cCGUccGGUgCCCAUGGggcggcuuuugcCGCCCGGGGUc -3'
miRNA:   3'- -GUAuuCCGgGGGUAUC------------GUGGGUCCCA- -5'
13270 3' -57.8 NC_003401.1 + 118531 0.69 0.619994
Target:  5'- ----uGGCCCCC-UGGCcCaCCGGGGa -3'
miRNA:   3'- guauuCCGGGGGuAUCGuG-GGUCCCa -5'
13270 3' -57.8 NC_003401.1 + 132607 0.69 0.58907
Target:  5'- ---cGGGCCCggCGgagcGGCACCCGGGGg -3'
miRNA:   3'- guauUCCGGGg-GUa---UCGUGGGUCCCa -5'
13270 3' -57.8 NC_003401.1 + 125565 0.7 0.558432
Target:  5'- gCAUcGGGCCCCCAcgUAGCugucuucgauGCCCAcGGUu -3'
miRNA:   3'- -GUAuUCCGGGGGU--AUCG----------UGGGUcCCA- -5'
13270 3' -57.8 NC_003401.1 + 132686 0.7 0.52826
Target:  5'- uGUGGGGCCCCgG----GCCCGGGGg -3'
miRNA:   3'- gUAUUCCGGGGgUaucgUGGGUCCCa -5'
13270 3' -57.8 NC_003401.1 + 132249 0.72 0.423929
Target:  5'- ----cGGCCgCCAUcuuGCGCCCGGGGc -3'
miRNA:   3'- guauuCCGGgGGUAu--CGUGGGUCCCa -5'
13270 3' -57.8 NC_003401.1 + 72376 0.75 0.276269
Target:  5'- uCGUGAGGCCCaauauuccggCCAUAGC-CCaCAGGGg -3'
miRNA:   3'- -GUAUUCCGGG----------GGUAUCGuGG-GUCCCa -5'
13270 3' -57.8 NC_003401.1 + 107105 0.8 0.144188
Target:  5'- aCGUGAGGCUCCCGUGGC-CCCucuucgagguguGGGGUg -3'
miRNA:   3'- -GUAUUCCGGGGGUAUCGuGGG------------UCCCA- -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.