miRNA display CGI


Results 1 - 20 of 23 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
893 3' -55.2 NC_000899.1 + 28595 0.66 0.636575
Target:  5'- cAGACACCgGGUGGCuaucuguCAAGcuCUACGCg -3'
miRNA:   3'- -UUUGUGGaCCGCUGu------GUUCc-GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 17061 0.66 0.613956
Target:  5'- cAGgACCcGGUGACGgGucuGGUCACGCc -3'
miRNA:   3'- uUUgUGGaCCGCUGUgUu--CCGGUGCG- -5'
893 3' -55.2 NC_000899.1 + 16097 0.66 0.613956
Target:  5'- aGAACGCCUcgcgucGGCGGCAUGucAGGCUcCGg -3'
miRNA:   3'- -UUUGUGGA------CCGCUGUGU--UCCGGuGCg -5'
893 3' -55.2 NC_000899.1 + 38351 0.67 0.568998
Target:  5'- --cCACCUGGUGGCuguuAGGCgCaauGCGCa -3'
miRNA:   3'- uuuGUGGACCGCUGugu-UCCG-G---UGCG- -5'
893 3' -55.2 NC_000899.1 + 24051 0.67 0.557871
Target:  5'- --uCACCgcuuucGCGGCAUccgagAAGGCCAUGCc -3'
miRNA:   3'- uuuGUGGac----CGCUGUG-----UUCCGGUGCG- -5'
893 3' -55.2 NC_000899.1 + 13821 0.67 0.535814
Target:  5'- ---gGCCgGGCGuuucaaGCucGGCCGCGCg -3'
miRNA:   3'- uuugUGGaCCGCug----UGuuCCGGUGCG- -5'
893 3' -55.2 NC_000899.1 + 23766 0.69 0.461429
Target:  5'- -uGCGCUUGGCGGCuuuccGCGAuggaucuacGCCACGCu -3'
miRNA:   3'- uuUGUGGACCGCUG-----UGUUc--------CGGUGCG- -5'
893 3' -55.2 NC_000899.1 + 38713 0.69 0.461429
Target:  5'- aGAGCGCCcccUGGCGGC-CGuuGGCCGCcacuGCa -3'
miRNA:   3'- -UUUGUGG---ACCGCUGuGUu-CCGGUG----CG- -5'
893 3' -55.2 NC_000899.1 + 27373 0.69 0.431242
Target:  5'- uGGACACCUcGGUGACGCua-GUCAgCGCg -3'
miRNA:   3'- -UUUGUGGA-CCGCUGUGuucCGGU-GCG- -5'
893 3' -55.2 NC_000899.1 + 40331 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 40466 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 38848 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 40196 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 40061 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 39926 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 39792 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 39657 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 39522 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 39387 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -5'
893 3' -55.2 NC_000899.1 + 39252 0.71 0.330426
Target:  5'- gGAGCucccCCUGGCGGC-CGAGGgccgccacugcacCCGCGCc -3'
miRNA:   3'- -UUUGu---GGACCGCUGuGUUCC-------------GGUGCG- -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.