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
28084 3' -60.1 NC_005887.1 + 6709 1.08 0.000278
Target:  5'- gCGUCGAGCUCGCACCGCUCAGCCCGAg -3'
miRNA:   3'- -GCAGCUCGAGCGUGGCGAGUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 34460 0.77 0.071686
Target:  5'- aGUCGucuucGUUCGCGCgGCUCGcGCCCGAg -3'
miRNA:   3'- gCAGCu----CGAGCGUGgCGAGU-CGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 13432 0.77 0.073746
Target:  5'- aCGaCGAGCggCGCACCGCUCAGCaCGu -3'
miRNA:   3'- -GCaGCUCGa-GCGUGGCGAGUCGgGCu -5'
28084 3' -60.1 NC_005887.1 + 6289 0.77 0.073746
Target:  5'- aCGUCG-GUUCGCACCGgUCuGCCCa- -3'
miRNA:   3'- -GCAGCuCGAGCGUGGCgAGuCGGGcu -5'
28084 3' -60.1 NC_005887.1 + 40356 0.73 0.128884
Target:  5'- cCGUCGAGCgcggcCGUGCCGCUCGucgcGCgCGAg -3'
miRNA:   3'- -GCAGCUCGa----GCGUGGCGAGU----CGgGCU- -5'
28084 3' -60.1 NC_005887.1 + 28460 0.73 0.139906
Target:  5'- uCGUCG-GCUUGUugccggGCCGCuUCAGCUCGAc -3'
miRNA:   3'- -GCAGCuCGAGCG------UGGCG-AGUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 28189 0.73 0.143767
Target:  5'- -aUCGGGCUgUGCGCCGCaUCAGCgCCGc -3'
miRNA:   3'- gcAGCUCGA-GCGUGGCG-AGUCG-GGCu -5'
28084 3' -60.1 NC_005887.1 + 8459 0.72 0.164572
Target:  5'- gCGaUCGAGCgcccggCGCaACCGCUCGGCgaCGAc -3'
miRNA:   3'- -GC-AGCUCGa-----GCG-UGGCGAGUCGg-GCU- -5'
28084 3' -60.1 NC_005887.1 + 18778 0.72 0.173627
Target:  5'- aGUCGcGUUCGCACUGC-CGGCCggCGAu -3'
miRNA:   3'- gCAGCuCGAGCGUGGCGaGUCGG--GCU- -5'
28084 3' -60.1 NC_005887.1 + 4242 0.71 0.1769
Target:  5'- gCGcCGAcGCUCgGCcgcacgcagucugaACUGCUCGGCCCGAu -3'
miRNA:   3'- -GCaGCU-CGAG-CG--------------UGGCGAGUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 30721 0.71 0.185078
Target:  5'- gCGUCGAGCUCggcauuGCGCaCGCUCugcaccugcgugucgAGCgCCGAu -3'
miRNA:   3'- -GCAGCUCGAG------CGUG-GCGAG---------------UCG-GGCU- -5'
28084 3' -60.1 NC_005887.1 + 31292 0.71 0.198229
Target:  5'- uCGUCGAGCUCG-ACCGgcaUCGGCgcaCCGGu -3'
miRNA:   3'- -GCAGCUCGAGCgUGGCg--AGUCG---GGCU- -5'
28084 3' -60.1 NC_005887.1 + 15671 0.71 0.198229
Target:  5'- gCGcCGAGCUCGaccagcucacCGCCGCgCGGCCgGAu -3'
miRNA:   3'- -GCaGCUCGAGC----------GUGGCGaGUCGGgCU- -5'
28084 3' -60.1 NC_005887.1 + 30367 0.71 0.203501
Target:  5'- uGcCGAGCUCgguGUACCGCUCGGCgucgCCGu -3'
miRNA:   3'- gCaGCUCGAG---CGUGGCGAGUCG----GGCu -5'
28084 3' -60.1 NC_005887.1 + 23915 0.7 0.208894
Target:  5'- gCGUCGAGaUCGCGCCGaUCAGCgUCGu -3'
miRNA:   3'- -GCAGCUCgAGCGUGGCgAGUCG-GGCu -5'
28084 3' -60.1 NC_005887.1 + 25383 0.7 0.21948
Target:  5'- aGUCGAGCUCGCcgacauuGCCGC-CcGCgCGGu -3'
miRNA:   3'- gCAGCUCGAGCG-------UGGCGaGuCGgGCU- -5'
28084 3' -60.1 NC_005887.1 + 38869 0.7 0.22005
Target:  5'- aCGUCGuGCUCGaucauCAgCGCgccaGGCCCGAa -3'
miRNA:   3'- -GCAGCuCGAGC-----GUgGCGag--UCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 36716 0.7 0.23171
Target:  5'- -uUCGAGCUCGCguaucgccuucACCGCgUC-GCCCGc -3'
miRNA:   3'- gcAGCUCGAGCG-----------UGGCG-AGuCGGGCu -5'
28084 3' -60.1 NC_005887.1 + 36987 0.7 0.23171
Target:  5'- gGUCGAGCUCGCcggcgaGCaCGCgCAGgCCGu -3'
miRNA:   3'- gCAGCUCGAGCG------UG-GCGaGUCgGGCu -5'
28084 3' -60.1 NC_005887.1 + 6307 0.7 0.237733
Target:  5'- gCGUCGAGgcCUUGCGCCucGC-CGGCgCCGAg -3'
miRNA:   3'- -GCAGCUC--GAGCGUGG--CGaGUCG-GGCU- -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.