miRNA display CGI


Results 1 - 20 of 36 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
23236 3' -56.1 NC_005259.1 + 8470 0.66 0.722797
Target:  5'- aGAgCUGCACgAGCACCGcGCuG-UCGGc -3'
miRNA:   3'- -CUaGACGUGgUCGUGGC-UGuCgAGCC- -5'
23236 3' -56.1 NC_005259.1 + 57357 0.66 0.722797
Target:  5'- aGAUgaGagaACgGGCACCGugGGCagucUCGGg -3'
miRNA:   3'- -CUAgaCg--UGgUCGUGGCugUCG----AGCC- -5'
23236 3' -56.1 NC_005259.1 + 12141 0.66 0.710201
Target:  5'- gGGUCUGCuuucuugAUCAcCGCCGACGGCaccgcccUCGGu -3'
miRNA:   3'- -CUAGACG-------UGGUcGUGGCUGUCG-------AGCC- -5'
23236 3' -56.1 NC_005259.1 + 58952 0.66 0.701743
Target:  5'- cGUCgGCcuugGCCAGCAgguCgGGCAGCUCGu -3'
miRNA:   3'- cUAGaCG----UGGUCGU---GgCUGUCGAGCc -5'
23236 3' -56.1 NC_005259.1 + 36862 0.67 0.695372
Target:  5'- --gCUGCGCCGuugcuggcaccgcccGCGCCGACGacGC-CGGu -3'
miRNA:   3'- cuaGACGUGGU---------------CGUGGCUGU--CGaGCC- -5'
23236 3' -56.1 NC_005259.1 + 30124 0.67 0.691113
Target:  5'- --aUUGCcguCCGGCugCGAUAcCUCGGg -3'
miRNA:   3'- cuaGACGu--GGUCGugGCUGUcGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 33612 0.67 0.657856
Target:  5'- cGAgCUGCAaCCGGcCACCGAaacuguugcgaauCGcGCUCGGg -3'
miRNA:   3'- -CUaGACGU-GGUC-GUGGCU-------------GU-CGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 19949 0.67 0.648147
Target:  5'- cGUgUGCGuCC-GCAaCGGCGGCUCGGc -3'
miRNA:   3'- cUAgACGU-GGuCGUgGCUGUCGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 2024 0.67 0.637345
Target:  5'- ----cGCACCGGCACCu-CAGUgCGGu -3'
miRNA:   3'- cuagaCGUGGUCGUGGcuGUCGaGCC- -5'
23236 3' -56.1 NC_005259.1 + 44716 0.67 0.637345
Target:  5'- cGAUCUGCAac-GCAcCCGGCAGCgCGc -3'
miRNA:   3'- -CUAGACGUgguCGU-GGCUGUCGaGCc -5'
23236 3' -56.1 NC_005259.1 + 15194 0.67 0.637345
Target:  5'- aAUCgUGCACCgcaugaugcuguGGCGCuCGGC-GCUCGGc -3'
miRNA:   3'- cUAG-ACGUGG------------UCGUG-GCUGuCGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 42537 0.68 0.626538
Target:  5'- cGAUggGCACCgaGGUgGCgGGCAGCUCGGc -3'
miRNA:   3'- -CUAgaCGUGG--UCG-UGgCUGUCGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 63727 0.68 0.626538
Target:  5'- --cCUGCgcaGCCGGUAgCGACAuCUCGGc -3'
miRNA:   3'- cuaGACG---UGGUCGUgGCUGUcGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 60554 0.68 0.626538
Target:  5'- cGUCgGCAugcCCGGUGCCGACGGUcaggCGGc -3'
miRNA:   3'- cUAGaCGU---GGUCGUGGCUGUCGa---GCC- -5'
23236 3' -56.1 NC_005259.1 + 52593 0.68 0.615737
Target:  5'- cGUCgccgaGCACCAGCGCCGuACGGUggccaacuacgUCGa -3'
miRNA:   3'- cUAGa----CGUGGUCGUGGC-UGUCG-----------AGCc -5'
23236 3' -56.1 NC_005259.1 + 35447 0.68 0.604949
Target:  5'- uAUCUGUccgcgcccACCGGCACCGcCAGCaccgccCGGu -3'
miRNA:   3'- cUAGACG--------UGGUCGUGGCuGUCGa-----GCC- -5'
23236 3' -56.1 NC_005259.1 + 56992 0.68 0.604949
Target:  5'- gGAUCUGagcuGCCcgugcgAGCACCucagcGCGGCUCGGc -3'
miRNA:   3'- -CUAGACg---UGG------UCGUGGc----UGUCGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 16365 0.68 0.594184
Target:  5'- aGAUCgUGCguGCCGcuGCGCCGACgAGCUCc- -3'
miRNA:   3'- -CUAG-ACG--UGGU--CGUGGCUG-UCGAGcc -5'
23236 3' -56.1 NC_005259.1 + 61994 0.68 0.594184
Target:  5'- -cUCUGCACCaugGGCACCGuGCGguguacccGCUCGc -3'
miRNA:   3'- cuAGACGUGG---UCGUGGC-UGU--------CGAGCc -5'
23236 3' -56.1 NC_005259.1 + 33254 0.68 0.58345
Target:  5'- aGAUCUGCcCgCAGCGCCGAU-GCUgCGc -3'
miRNA:   3'- -CUAGACGuG-GUCGUGGCUGuCGA-GCc -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.