miRNA display CGI


Results 1 - 20 of 64 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
17155 3' -50.3 NC_004333.2 + 38436 0.66 0.93347
Target:  5'- cCGACA-CGCGAcaGCGCGUcgaUCAGu--- -3'
miRNA:   3'- aGCUGUgGCGCU--CGCGCA---AGUUuuuc -5'
17155 3' -50.3 NC_004333.2 + 25638 0.66 0.93347
Target:  5'- gCGGCGUCGUcAGCGCGgUCGAAAGc -3'
miRNA:   3'- aGCUGUGGCGcUCGCGCaAGUUUUUc -5'
17155 3' -50.3 NC_004333.2 + 37729 0.66 0.93347
Target:  5'- gUCGGCaagcuGCCGCGccuGCGCGagaUCGAcGAGc -3'
miRNA:   3'- -AGCUG-----UGGCGCu--CGCGCa--AGUUuUUC- -5'
17155 3' -50.3 NC_004333.2 + 13598 0.66 0.93347
Target:  5'- gCGGCaacGCCGCGAGCaCG-UCGGAcGGc -3'
miRNA:   3'- aGCUG---UGGCGCUCGcGCaAGUUUuUC- -5'
17155 3' -50.3 NC_004333.2 + 37200 0.66 0.93347
Target:  5'- gUCGuGCGgCGUGAGCGC-UUCGAGc-- -3'
miRNA:   3'- -AGC-UGUgGCGCUCGCGcAAGUUUuuc -5'
17155 3' -50.3 NC_004333.2 + 30970 0.66 0.93347
Target:  5'- gUCGACGCgCuCGA-CGCGUUCAAc--- -3'
miRNA:   3'- -AGCUGUG-GcGCUcGCGCAAGUUuuuc -5'
17155 3' -50.3 NC_004333.2 + 18804 0.66 0.932907
Target:  5'- aUCGcGCgGCCGCaGGGCGCGUgcugcuaUCGAAGc- -3'
miRNA:   3'- -AGC-UG-UGGCG-CUCGCGCA-------AGUUUUuc -5'
17155 3' -50.3 NC_004333.2 + 41335 0.66 0.927706
Target:  5'- aCGugACgCGCGAGUGUGUacguguggcgcUCGAGc-- -3'
miRNA:   3'- aGCugUG-GCGCUCGCGCA-----------AGUUUuuc -5'
17155 3' -50.3 NC_004333.2 + 44470 0.66 0.927706
Target:  5'- -gGACACCGaGGGCGCGaagUgGAuGAAGg -3'
miRNA:   3'- agCUGUGGCgCUCGCGCa--AgUU-UUUC- -5'
17155 3' -50.3 NC_004333.2 + 3553 0.66 0.927706
Target:  5'- gCGGUGCCGCGcAGCGCG-UCGGc--- -3'
miRNA:   3'- aGCUGUGGCGC-UCGCGCaAGUUuuuc -5'
17155 3' -50.3 NC_004333.2 + 709 0.66 0.927706
Target:  5'- cCGcCGcCCGCGAGCGcCGUggCGAGGu- -3'
miRNA:   3'- aGCuGU-GGCGCUCGC-GCAa-GUUUUuc -5'
17155 3' -50.3 NC_004333.2 + 18490 0.66 0.927706
Target:  5'- gUCGACGCCGCcGAucgcgaggcguuGCGC-UUCGGAcGGc -3'
miRNA:   3'- -AGCUGUGGCG-CU------------CGCGcAAGUUUuUC- -5'
17155 3' -50.3 NC_004333.2 + 44838 0.66 0.921642
Target:  5'- aCGACgcugGCCGCGAGaCGC--UgAAGAAGa -3'
miRNA:   3'- aGCUG----UGGCGCUC-GCGcaAgUUUUUC- -5'
17155 3' -50.3 NC_004333.2 + 13081 0.66 0.915279
Target:  5'- cCGACACCGaCuGGCGUGUgcgCAGc--- -3'
miRNA:   3'- aGCUGUGGC-GcUCGCGCAa--GUUuuuc -5'
17155 3' -50.3 NC_004333.2 + 775 0.66 0.915279
Target:  5'- aCGGCGCuCGCGGGCgGCGgcaCGAu--- -3'
miRNA:   3'- aGCUGUG-GCGCUCG-CGCaa-GUUuuuc -5'
17155 3' -50.3 NC_004333.2 + 37404 0.66 0.915279
Target:  5'- gCGACGCagauuCGAGCGCG-UCGAGc-- -3'
miRNA:   3'- aGCUGUGgc---GCUCGCGCaAGUUUuuc -5'
17155 3' -50.3 NC_004333.2 + 25237 0.66 0.908618
Target:  5'- gCGGCGgCagGCGAGCGUGUcgaUCGGAGGc -3'
miRNA:   3'- aGCUGUgG--CGCUCGCGCA---AGUUUUUc -5'
17155 3' -50.3 NC_004333.2 + 18604 0.66 0.908618
Target:  5'- cCGGCGCgGCaGGCGCGggCGGc--- -3'
miRNA:   3'- aGCUGUGgCGcUCGCGCaaGUUuuuc -5'
17155 3' -50.3 NC_004333.2 + 19360 0.66 0.908618
Target:  5'- gUCGACAUCGCGcuCGagcaGUUCAAc--- -3'
miRNA:   3'- -AGCUGUGGCGCucGCg---CAAGUUuuuc -5'
17155 3' -50.3 NC_004333.2 + 25269 0.66 0.908618
Target:  5'- gUCGACGucgagUCGCGcAGCGaGUUCGAGAc- -3'
miRNA:   3'- -AGCUGU-----GGCGC-UCGCgCAAGUUUUuc -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.