miRNA display CGI


Results 1 - 20 of 29 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
23349 3' -55.4 NC_005259.1 + 61741 0.68 0.663197
Target:  5'- gGUGuGCGUCcgGCGAGAucugugcggcggcaAUCaccgccgcauucugcACACCGGCGg -3'
miRNA:   3'- -CAC-CGUAG--CGCUCU--------------UAG---------------UGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 67985 0.66 0.776943
Target:  5'- cGUGGCcaccgcCGCGAGcGUCGacuugcccucCugCGGCGg -3'
miRNA:   3'- -CACCGua----GCGCUCuUAGU----------GugGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 5073 0.66 0.746761
Target:  5'- -gGGCcggGUCGaCGGGccGGUguCACCGGCGa -3'
miRNA:   3'- caCCG---UAGC-GCUC--UUAguGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 19860 0.66 0.736461
Target:  5'- uGUGGCGcUCGCGcccgccGGGAUCGCcgacGCCGcGCc -3'
miRNA:   3'- -CACCGU-AGCGC------UCUUAGUG----UGGC-CGc -5'
23349 3' -55.4 NC_005259.1 + 2010 0.66 0.736461
Target:  5'- -cGGcCAUCGgGuGg--CGCACCGGCa -3'
miRNA:   3'- caCC-GUAGCgCuCuuaGUGUGGCCGc -5'
23349 3' -55.4 NC_005259.1 + 55862 0.67 0.730231
Target:  5'- cGUGGUGaacucgccgagcgccUCGCcccgaccucGGGggUCGCGCCGGgGu -3'
miRNA:   3'- -CACCGU---------------AGCG---------CUCuuAGUGUGGCCgC- -5'
23349 3' -55.4 NC_005259.1 + 41551 0.67 0.715565
Target:  5'- -aGuCGUCGCGAGcGUUACACCGcCGg -3'
miRNA:   3'- caCcGUAGCGCUCuUAGUGUGGCcGC- -5'
23349 3' -55.4 NC_005259.1 + 14557 0.67 0.714511
Target:  5'- -cGGCAggccgaGCGGGGAccggcgaacaccaUCGCGCUGGCc -3'
miRNA:   3'- caCCGUag----CGCUCUU-------------AGUGUGGCCGc -5'
23349 3' -55.4 NC_005259.1 + 54088 0.67 0.704992
Target:  5'- gGUGGCGUCGCGcau----CACCGGgGu -3'
miRNA:   3'- -CACCGUAGCGCucuuaguGUGGCCgC- -5'
23349 3' -55.4 NC_005259.1 + 23706 0.68 0.672902
Target:  5'- --cGCGUCGUGA---UCGCGCCGGaCGg -3'
miRNA:   3'- cacCGUAGCGCUcuuAGUGUGGCC-GC- -5'
23349 3' -55.4 NC_005259.1 + 24076 0.68 0.672902
Target:  5'- -cGuGCAcCGCGAGAu---CACCGGCa -3'
miRNA:   3'- caC-CGUaGCGCUCUuaguGUGGCCGc -5'
23349 3' -55.4 NC_005259.1 + 717 1.09 0.001238
Target:  5'- gGUGGCAUCGCGAGAAUCACACCGGCGg -3'
miRNA:   3'- -CACCGUAGCGCUCUUAGUGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 65104 0.68 0.655632
Target:  5'- cGUGGCAcggucagUGCGucaccgucggCGCACCGGCGg -3'
miRNA:   3'- -CACCGUa------GCGCucuua-----GUGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 8383 0.68 0.651305
Target:  5'- -cGGCAUCgGCGAGA---GCcUCGGCGa -3'
miRNA:   3'- caCCGUAG-CGCUCUuagUGuGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 50967 0.68 0.650223
Target:  5'- cGUGGCuGUCccacgcgGCGAGcgguGUCGaguCACCGGCGa -3'
miRNA:   3'- -CACCG-UAG-------CGCUCu---UAGU---GUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 55058 0.68 0.618804
Target:  5'- gGUGGCAgucugCGCGAGAu---CAgCGGCu -3'
miRNA:   3'- -CACCGUa----GCGCUCUuaguGUgGCCGc -5'
23349 3' -55.4 NC_005259.1 + 9616 0.68 0.618804
Target:  5'- cGUGGCAUCGaacac--CGCGCCGGUGc -3'
miRNA:   3'- -CACCGUAGCgcucuuaGUGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 12197 0.69 0.607981
Target:  5'- cGUGGUcgUGUaGAGAu--GCACCGGCGc -3'
miRNA:   3'- -CACCGuaGCG-CUCUuagUGUGGCCGC- -5'
23349 3' -55.4 NC_005259.1 + 14157 0.7 0.522804
Target:  5'- -aGcGCGUCGUGuGGAUCuCGCCgGGCGg -3'
miRNA:   3'- caC-CGUAGCGCuCUUAGuGUGG-CCGC- -5'
23349 3' -55.4 NC_005259.1 + 61604 0.72 0.433073
Target:  5'- gGUGGgGUCgGCGGGGAacagCAgACCGGCa -3'
miRNA:   3'- -CACCgUAG-CGCUCUUa---GUgUGGCCGc -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.