miRNA display CGI


Results 1 - 20 of 42 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
1645 3' -56.8 NC_001347.2 + 1203 0.7 0.81526
Target:  5'- gUGUgGCGCGCGGCGUUUUUGg---- -3'
miRNA:   3'- gGCAgCGCGUGCCGCGAAGACagacc -5'
1645 3' -56.8 NC_001347.2 + 2237 0.69 0.861888
Target:  5'- aCCGUgcCGCGCGCcaugcugguGGUGCUgCUGgacgagCUGGg -3'
miRNA:   3'- -GGCA--GCGCGUG---------CCGCGAaGACa-----GACC- -5'
1645 3' -56.8 NC_001347.2 + 2354 0.72 0.697857
Target:  5'- gCGggCGUGCugGGCGCg-CUGgcgCUGGg -3'
miRNA:   3'- gGCa-GCGCGugCCGCGaaGACa--GACC- -5'
1645 3' -56.8 NC_001347.2 + 2402 0.68 0.901792
Target:  5'- gCCGagGcCGCGCGGCGgCUgCUGcccgagCUGGa -3'
miRNA:   3'- -GGCagC-GCGUGCCGC-GAaGACa-----GACC- -5'
1645 3' -56.8 NC_001347.2 + 21629 0.68 0.885392
Target:  5'- gCCGUCGCcgcaggccuuugucgGCGCGGCuCUUCUcgccCUGGc -3'
miRNA:   3'- -GGCAGCG---------------CGUGCCGcGAAGAca--GACC- -5'
1645 3' -56.8 NC_001347.2 + 23364 0.72 0.714062
Target:  5'- aCCGUggcCGUGCAgGGCaccugcaccuucuuGC-UCUGUCUGGg -3'
miRNA:   3'- -GGCA---GCGCGUgCCG--------------CGaAGACAGACC- -5'
1645 3' -56.8 NC_001347.2 + 24480 0.69 0.854553
Target:  5'- -aGUCGCGUcCGG-GCUUUccuugucacguUGUCUGGg -3'
miRNA:   3'- ggCAGCGCGuGCCgCGAAG-----------ACAGACC- -5'
1645 3' -56.8 NC_001347.2 + 38368 0.69 0.869035
Target:  5'- cCCGcuaUCGCGCACGGCGCgUCcccgCcGGc -3'
miRNA:   3'- -GGC---AGCGCGUGCCGCGaAGaca-GaCC- -5'
1645 3' -56.8 NC_001347.2 + 38716 0.7 0.798441
Target:  5'- gCCGUCGC-CuccuCGGCGCgcagcaacgUCUGUC-GGa -3'
miRNA:   3'- -GGCAGCGcGu---GCCGCGa--------AGACAGaCC- -5'
1645 3' -56.8 NC_001347.2 + 39213 0.66 0.943209
Target:  5'- gCCG-CGCGCcacACGGCGCccaUGgcCUGGu -3'
miRNA:   3'- -GGCaGCGCG---UGCCGCGaagACa-GACC- -5'
1645 3' -56.8 NC_001347.2 + 39682 0.7 0.806922
Target:  5'- gCGaCGUGCACGGCGCg--UG-CUGGc -3'
miRNA:   3'- gGCaGCGCGUGCCGCGaagACaGACC- -5'
1645 3' -56.8 NC_001347.2 + 39981 0.66 0.945759
Target:  5'- gCGgCGCGCACGGCGaaaagaagacgCgUGUCUGu -3'
miRNA:   3'- gGCaGCGCGUGCCGCgaa--------G-ACAGACc -5'
1645 3' -56.8 NC_001347.2 + 41327 0.75 0.521511
Target:  5'- gCCGcggcacaggcuuUCGCGCacacgauuccgaggACGGCGUcUCUGUCUGGc -3'
miRNA:   3'- -GGC------------AGCGCG--------------UGCCGCGaAGACAGACC- -5'
1645 3' -56.8 NC_001347.2 + 73185 0.69 0.861888
Target:  5'- aCGUCGUGCGaGGCGCgcUUUcUCUGGc -3'
miRNA:   3'- gGCAGCGCGUgCCGCGa-AGAcAGACC- -5'
1645 3' -56.8 NC_001347.2 + 78687 0.66 0.962166
Target:  5'- gCG-CGCGaCGCGGCGCccUUCcGUCcgcUGGc -3'
miRNA:   3'- gGCaGCGC-GUGCCGCG--AAGaCAG---ACC- -5'
1645 3' -56.8 NC_001347.2 + 82446 0.67 0.934151
Target:  5'- aCG-CGCGCcaacACGGCGCUacgCUGcUCUaGGc -3'
miRNA:   3'- gGCaGCGCG----UGCCGCGAa--GAC-AGA-CC- -5'
1645 3' -56.8 NC_001347.2 + 88666 0.67 0.929298
Target:  5'- --uUCGCGCAuccacuggcgcCGGCGCgccCUG-CUGGg -3'
miRNA:   3'- ggcAGCGCGU-----------GCCGCGaa-GACaGACC- -5'
1645 3' -56.8 NC_001347.2 + 93432 0.73 0.649502
Target:  5'- cUCGUCGCGCACGGCGCgaaUCa------ -3'
miRNA:   3'- -GGCAGCGCGUGCCGCGa--AGacagacc -5'
1645 3' -56.8 NC_001347.2 + 93657 0.69 0.847795
Target:  5'- cUCGUCGCGguCGuGCGgaUCgguggcguacaugagGUCUGGa -3'
miRNA:   3'- -GGCAGCGCguGC-CGCgaAGa--------------CAGACC- -5'
1645 3' -56.8 NC_001347.2 + 106931 0.7 0.831476
Target:  5'- gCCG-CGCaucaCACGGCGUUacacgaCUGUCUGGc -3'
miRNA:   3'- -GGCaGCGc---GUGCCGCGAa-----GACAGACC- -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.