miRNA display CGI


Results 1 - 20 of 39 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
23617 3' -59.8 NC_005261.1 + 6233 0.66 0.75213
Target:  5'- cCAGGUGCG-C-CCGGGgagggccugcCCGCCCcGCGg -3'
miRNA:   3'- -GUCCAUGCaGaGGUCC----------GGCGGGcUGU- -5'
23617 3' -59.8 NC_005261.1 + 40856 0.66 0.75213
Target:  5'- aGGGcGCGUCcgCgaAGGCCGCCCcgaacaggguucGACAg -3'
miRNA:   3'- gUCCaUGCAGa-Gg-UCCGGCGGG------------CUGU- -5'
23617 3' -59.8 NC_005261.1 + 115841 0.66 0.736923
Target:  5'- uGGGcGCGUUggcCCgcgcggcccccgccgAGGCgCGCCCGGCAa -3'
miRNA:   3'- gUCCaUGCAGa--GG---------------UCCG-GCGGGCUGU- -5'
23617 3' -59.8 NC_005261.1 + 101986 0.66 0.7244
Target:  5'- cCAGGUACGUCacggcgucguaguggCgCAGcucgccGCCGCCCGAg- -3'
miRNA:   3'- -GUCCAUGCAGa--------------G-GUC------CGGCGGGCUgu -5'
23617 3' -59.8 NC_005261.1 + 99831 0.66 0.703907
Target:  5'- cCGGGU-CGUCcgCCccGCCGCCCaGCGg -3'
miRNA:   3'- -GUCCAuGCAGa-GGucCGGCGGGcUGU- -5'
23617 3' -59.8 NC_005261.1 + 15352 0.66 0.703907
Target:  5'- cCAGGggaaagACGUC-CCGGcGgCGCUCGGCGc -3'
miRNA:   3'- -GUCCa-----UGCAGaGGUC-CgGCGGGCUGU- -5'
23617 3' -59.8 NC_005261.1 + 29979 0.66 0.703907
Target:  5'- -cGGUGCGcCgCC-GGCgCGUCCGGCAg -3'
miRNA:   3'- guCCAUGCaGaGGuCCG-GCGGGCUGU- -5'
23617 3' -59.8 NC_005261.1 + 64691 0.67 0.694054
Target:  5'- cCGGGcGCGUCcCgGGGCCGCCgCcGCGc -3'
miRNA:   3'- -GUCCaUGCAGaGgUCCGGCGG-GcUGU- -5'
23617 3' -59.8 NC_005261.1 + 35950 0.67 0.68415
Target:  5'- cCAGGccCGagcccggCCAGGCCGCUCGGCc -3'
miRNA:   3'- -GUCCauGCaga----GGUCCGGCGGGCUGu -5'
23617 3' -59.8 NC_005261.1 + 42900 0.67 0.68415
Target:  5'- -cGGcACGUgacccggcgCUCCgGGGCCGCCgGGCGa -3'
miRNA:   3'- guCCaUGCA---------GAGG-UCCGGCGGgCUGU- -5'
23617 3' -59.8 NC_005261.1 + 48743 0.67 0.68415
Target:  5'- gCAGGcacUGCGcguagUCgcgccccCCGGGCgGCCCGACGa -3'
miRNA:   3'- -GUCC---AUGC-----AGa------GGUCCGgCGGGCUGU- -5'
23617 3' -59.8 NC_005261.1 + 46677 0.67 0.674206
Target:  5'- -uGGccGCGcgCUCCAcggcGGCCGCCaCGGCAu -3'
miRNA:   3'- guCCa-UGCa-GAGGU----CCGGCGG-GCUGU- -5'
23617 3' -59.8 NC_005261.1 + 33917 0.67 0.674206
Target:  5'- gCGGGgccGCGUCUCUuGuGUCGCCCaGCAg -3'
miRNA:   3'- -GUCCa--UGCAGAGGuC-CGGCGGGcUGU- -5'
23617 3' -59.8 NC_005261.1 + 106837 0.67 0.664228
Target:  5'- -uGGUgcGCGUCgUCCAGcccGCCGCCUGGgGg -3'
miRNA:   3'- guCCA--UGCAG-AGGUC---CGGCGGGCUgU- -5'
23617 3' -59.8 NC_005261.1 + 19357 0.67 0.664228
Target:  5'- gGGGgaguuCGUCUCCAGGgUGCCagccaGGCc -3'
miRNA:   3'- gUCCau---GCAGAGGUCCgGCGGg----CUGu -5'
23617 3' -59.8 NC_005261.1 + 58366 0.67 0.654225
Target:  5'- cCAGGUgugcggcgACGUCggccUCCAGGgcgaacCCGCCCGGgAa -3'
miRNA:   3'- -GUCCA--------UGCAG----AGGUCC------GGCGGGCUgU- -5'
23617 3' -59.8 NC_005261.1 + 95369 0.67 0.644206
Target:  5'- gGGGUACuUCUCgC-GGCCcCCCGGCGc -3'
miRNA:   3'- gUCCAUGcAGAG-GuCCGGcGGGCUGU- -5'
23617 3' -59.8 NC_005261.1 + 31428 0.67 0.644206
Target:  5'- cCGGGgagGCG-CUggCGGcGCCGCCCGGCGa -3'
miRNA:   3'- -GUCCa--UGCaGAg-GUC-CGGCGGGCUGU- -5'
23617 3' -59.8 NC_005261.1 + 127583 0.68 0.634178
Target:  5'- cCAGGgcgcccuggGCGUCUUCgGGGCCGCgCUGAa- -3'
miRNA:   3'- -GUCCa--------UGCAGAGG-UCCGGCG-GGCUgu -5'
23617 3' -59.8 NC_005261.1 + 122332 0.68 0.614123
Target:  5'- uCAGGUgGCG-CUCgCAGaGCuCGCCUGGCGg -3'
miRNA:   3'- -GUCCA-UGCaGAG-GUC-CG-GCGGGCUGU- -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.