miRNA display CGI


Results 1 - 20 of 37 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
19293 3' -58.7 NC_004685.1 + 18411 0.77 0.13423
Target:  5'- aGUCGgaccuGCUGGUCAGCUacgcccagaucGACCGGGC-Ca -3'
miRNA:   3'- gCAGC-----UGACCAGUCGA-----------CUGGCCCGcG- -5'
19293 3' -58.7 NC_004685.1 + 37295 0.66 0.643548
Target:  5'- gGUCGGC-GGccgagCAGUUGGagcagUGGGCGCa -3'
miRNA:   3'- gCAGCUGaCCa----GUCGACUg----GCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 3936 0.66 0.643548
Target:  5'- aGgCGGcCUGGacccUCAGCggcucaGGCuCGGGCGCg -3'
miRNA:   3'- gCaGCU-GACC----AGUCGa-----CUG-GCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 8260 0.66 0.643548
Target:  5'- gGUCuACUGGgacaaaGGgUGGCgGGGCGUu -3'
miRNA:   3'- gCAGcUGACCag----UCgACUGgCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 9146 0.66 0.633057
Target:  5'- uCGUgGACUGGUUcaAGCaGAUcaugaCGGGUGUu -3'
miRNA:   3'- -GCAgCUGACCAG--UCGaCUG-----GCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 62474 0.66 0.598476
Target:  5'- uCGUCaaGCUGGUCGGgUGacaggaacgccacgGCCGGGCc- -3'
miRNA:   3'- -GCAGc-UGACCAGUCgAC--------------UGGCCCGcg -5'
19293 3' -58.7 NC_004685.1 + 37484 0.67 0.57038
Target:  5'- gCGUCGACUGGgagaacccgccCAGCccUGGCgaggUGuGGCGCg -3'
miRNA:   3'- -GCAGCUGACCa----------GUCG--ACUG----GC-CCGCG- -5'
19293 3' -58.7 NC_004685.1 + 37929 0.67 0.560051
Target:  5'- gCGggCGGgUGGUCggAGCUGGCCGGcaccuacacgGUGCc -3'
miRNA:   3'- -GCa-GCUgACCAG--UCGACUGGCC----------CGCG- -5'
19293 3' -58.7 NC_004685.1 + 10848 0.67 0.539558
Target:  5'- uCGUCGGauuGUCgAGUUGAuCCGGGCGa -3'
miRNA:   3'- -GCAGCUgacCAG-UCGACU-GGCCCGCg -5'
19293 3' -58.7 NC_004685.1 + 30774 0.67 0.529406
Target:  5'- cCGggUGACUccGGcuUCGGCaaGCCGGGCGCg -3'
miRNA:   3'- -GCa-GCUGA--CC--AGUCGacUGGCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 2739 0.68 0.520329
Target:  5'- aCGUCGAacaUGGcCAGCgucucgucgggcacgGuGCCGcGGCGCg -3'
miRNA:   3'- -GCAGCUg--ACCaGUCGa--------------C-UGGC-CCGCG- -5'
19293 3' -58.7 NC_004685.1 + 44306 0.74 0.230769
Target:  5'- -aUCGAaUGGcccCAGCUGGgCGGGCGCa -3'
miRNA:   3'- gcAGCUgACCa--GUCGACUgGCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 15999 0.73 0.254152
Target:  5'- gCGUCGucccgccgugGCUGGUCaacgucgAGCUGAagaaGGGCGCg -3'
miRNA:   3'- -GCAGC----------UGACCAG-------UCGACUgg--CCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 41836 0.71 0.32371
Target:  5'- aGUCGACcuccgUGGUgcaCGGC-GGCCGGGUGUu -3'
miRNA:   3'- gCAGCUG-----ACCA---GUCGaCUGGCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 10211 0.71 0.363066
Target:  5'- gGagGACUGG-CGGCUGGCCGGucuggcCGCc -3'
miRNA:   3'- gCagCUGACCaGUCGACUGGCCc-----GCG- -5'
19293 3' -58.7 NC_004685.1 + 59453 0.7 0.396859
Target:  5'- aGUCGAUgacGGUCAGCUcGCCguuggacagcucGGGCGg -3'
miRNA:   3'- gCAGCUGa--CCAGUCGAcUGG------------CCCGCg -5'
19293 3' -58.7 NC_004685.1 + 12448 0.7 0.405618
Target:  5'- cCGcCGAgCgcccGGUCAGCUGACCagucgacguuGGCGCg -3'
miRNA:   3'- -GCaGCU-Ga---CCAGUCGACUGGc---------CCGCG- -5'
19293 3' -58.7 NC_004685.1 + 8104 0.69 0.423496
Target:  5'- gGUCGG-UGGUCAacgcGCUGGCCGaGGC-Cg -3'
miRNA:   3'- gCAGCUgACCAGU----CGACUGGC-CCGcG- -5'
19293 3' -58.7 NC_004685.1 + 57228 1.11 0.00048
Target:  5'- aCGUCGACUGGUCAGCUGACCGGGCGCu -3'
miRNA:   3'- -GCAGCUGACCAGUCGACUGGCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 16509 0.66 0.633057
Target:  5'- gCGUCGugcaguacacccGCUGGg-GGCgcaaccGGCUGGGCGUg -3'
miRNA:   3'- -GCAGC------------UGACCagUCGa-----CUGGCCCGCG- -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.