miRNA display CGI


Results 1 - 20 of 30 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
11438 3' -58.4 NC_003085.1 + 33534 1.08 0.000521
Target:  5'- cCGAGCCUGUCACACGCCGUCCACGCAc -3'
miRNA:   3'- -GCUCGGACAGUGUGCGGCAGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 24864 0.74 0.177283
Target:  5'- gGAGCgaGUUGgagUACGUCGUCCACGCGu -3'
miRNA:   3'- gCUCGgaCAGU---GUGCGGCAGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 31450 0.72 0.236541
Target:  5'- gCGAGCCU--UGgGCGCCaGUCCGCGCu -3'
miRNA:   3'- -GCUCGGAcaGUgUGCGG-CAGGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 45845 0.71 0.268576
Target:  5'- -cAGCCaGUCGCgGCGCaCGUCCAgGCGg -3'
miRNA:   3'- gcUCGGaCAGUG-UGCG-GCAGGUgCGU- -5'
11438 3' -58.4 NC_003085.1 + 42217 0.71 0.275389
Target:  5'- aGAGCCUGUCccCGgGCUGUCCguaggggcaGCGCu -3'
miRNA:   3'- gCUCGGACAGu-GUgCGGCAGG---------UGCGu -5'
11438 3' -58.4 NC_003085.1 + 16381 0.71 0.282339
Target:  5'- uGAGCCUc-CGCGgGCaCGUCCugGCGa -3'
miRNA:   3'- gCUCGGAcaGUGUgCG-GCAGGugCGU- -5'
11438 3' -58.4 NC_003085.1 + 32890 0.7 0.289428
Target:  5'- cCGGGUC-GUCGCAgugGCCGggcgCCACGCAg -3'
miRNA:   3'- -GCUCGGaCAGUGUg--CGGCa---GGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 1018 0.7 0.311529
Target:  5'- -uGGCCUaugcUCGCGgccuCGCCGUCCAUGCGg -3'
miRNA:   3'- gcUCGGAc---AGUGU----GCGGCAGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 581 0.7 0.319175
Target:  5'- gCGAGCCcccgccgcagggUGUcucgaCugGCGCCGUCCuggGCGCGc -3'
miRNA:   3'- -GCUCGG------------ACA-----GugUGCGGCAGG---UGCGU- -5'
11438 3' -58.4 NC_003085.1 + 39517 0.7 0.319175
Target:  5'- --cGCCUcGUCGCugGCauCGUCCugGCc -3'
miRNA:   3'- gcuCGGA-CAGUGugCG--GCAGGugCGu -5'
11438 3' -58.4 NC_003085.1 + 38339 0.69 0.342955
Target:  5'- uCGGGCCUGgCACGCGCaacuUCCugGgCAc -3'
miRNA:   3'- -GCUCGGACaGUGUGCGgc--AGGugC-GU- -5'
11438 3' -58.4 NC_003085.1 + 5558 0.69 0.376602
Target:  5'- aGGGCCUGgCGCcgcgaacgguGCGCCacGUCUACGCc -3'
miRNA:   3'- gCUCGGACaGUG----------UGCGG--CAGGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 36699 0.69 0.376602
Target:  5'- cCGGGCCUGacugCACAUa--GUCCACGCc -3'
miRNA:   3'- -GCUCGGACa---GUGUGcggCAGGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 1178 0.68 0.394241
Target:  5'- gGAGCC---CACGCGCUGcUCUGCGCGu -3'
miRNA:   3'- gCUCGGacaGUGUGCGGC-AGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 40613 0.68 0.402351
Target:  5'- gGGGCCUGUgCugACggccgcuGCCGUCCucguCGCc -3'
miRNA:   3'- gCUCGGACA-GugUG-------CGGCAGGu---GCGu -5'
11438 3' -58.4 NC_003085.1 + 4671 0.68 0.403259
Target:  5'- gCGAGCCUuUCACgGCGCCGagUUGCGCc -3'
miRNA:   3'- -GCUCGGAcAGUG-UGCGGCa-GGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 19931 0.68 0.403259
Target:  5'- -uGGCCUGcCACugGCCcauGUUCGCGUu -3'
miRNA:   3'- gcUCGGACaGUGugCGG---CAGGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 22994 0.68 0.403259
Target:  5'- aGcAGCCagagGUgCGCGCGCCGcagUCCugGCGc -3'
miRNA:   3'- gC-UCGGa---CA-GUGUGCGGC---AGGugCGU- -5'
11438 3' -58.4 NC_003085.1 + 15192 0.67 0.431079
Target:  5'- uGAGCCgGUgCGCcaGCGCCGcgCCGCGgAa -3'
miRNA:   3'- gCUCGGaCA-GUG--UGCGGCa-GGUGCgU- -5'
11438 3' -58.4 NC_003085.1 + 12376 0.67 0.440599
Target:  5'- gGAGCgacu-GCGCGCCGUCCACcuGCAu -3'
miRNA:   3'- gCUCGgacagUGUGCGGCAGGUG--CGU- -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.