miRNA display CGI


Results 1 - 19 of 19 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
17608 5' -53.2 NC_004466.2 + 33918 0.66 0.735996
Target:  5'- -gGAGAuacuuCCAcGAGGGUGguGUACCCUUc -3'
miRNA:   3'- aaUUCU-----GGU-CUCCUAUguCGUGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 17340 0.66 0.713861
Target:  5'- ---uGGCCAGcaacaAGGAUGCAGCagGCUcagCCCa -3'
miRNA:   3'- aauuCUGGUC-----UCCUAUGUCG--UGG---GGG- -5'
17608 5' -53.2 NC_004466.2 + 40699 0.67 0.702655
Target:  5'- --uGGcCCAGGGGuUGCuGGUACuCCCCa -3'
miRNA:   3'- aauUCuGGUCUCCuAUG-UCGUG-GGGG- -5'
17608 5' -53.2 NC_004466.2 + 44614 0.67 0.668643
Target:  5'- -cGGGugcGCCAGGGGuguGUACuaugacGCGCCCCUg -3'
miRNA:   3'- aaUUC---UGGUCUCC---UAUGu-----CGUGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 16488 0.67 0.668643
Target:  5'- -gAAGuaaccCCGGAGGuuGUACcugaAGCugCCCCa -3'
miRNA:   3'- aaUUCu----GGUCUCC--UAUG----UCGugGGGG- -5'
17608 5' -53.2 NC_004466.2 + 25421 0.67 0.657215
Target:  5'- aUGAGGCgGGGGuAUGCccuuugGGCugCCCCu -3'
miRNA:   3'- aAUUCUGgUCUCcUAUG------UCGugGGGG- -5'
17608 5' -53.2 NC_004466.2 + 31686 0.68 0.634294
Target:  5'- -cAAGGCCguAGAGGAUGaguuGCGCCUgCu -3'
miRNA:   3'- aaUUCUGG--UCUCCUAUgu--CGUGGGgG- -5'
17608 5' -53.2 NC_004466.2 + 41913 0.68 0.634294
Target:  5'- ----aGCCAGAgcGGGUuCAGCAUCCUCg -3'
miRNA:   3'- aauucUGGUCU--CCUAuGUCGUGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 18029 0.68 0.634293
Target:  5'- -gGGGAcgguuugcCCAGAGuGAUGCAGUACCUa- -3'
miRNA:   3'- aaUUCU--------GGUCUC-CUAUGUCGUGGGgg -5'
17608 5' -53.2 NC_004466.2 + 15102 0.68 0.593072
Target:  5'- --uAGGCCAGAGGGcagcucagaaggccACAGgagGCCCCCa -3'
miRNA:   3'- aauUCUGGUCUCCUa-------------UGUCg--UGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 12986 0.68 0.588512
Target:  5'- -gGAGucaccACUAGGGGAUAaguaaacGUACCCCCg -3'
miRNA:   3'- aaUUC-----UGGUCUCCUAUgu-----CGUGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 125 0.68 0.588512
Target:  5'- -aGGGGCgAGuGGAUACGaagACCCCCg -3'
miRNA:   3'- aaUUCUGgUCuCCUAUGUcg-UGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 35317 0.71 0.467491
Target:  5'- -gGAGAaacUCAGAGGAguUGCGGCugCCgCa -3'
miRNA:   3'- aaUUCU---GGUCUCCU--AUGUCGugGGgG- -5'
17608 5' -53.2 NC_004466.2 + 34584 0.71 0.436667
Target:  5'- --cAGACCAG-GGcaGCAGCACCCg- -3'
miRNA:   3'- aauUCUGGUCuCCuaUGUCGUGGGgg -5'
17608 5' -53.2 NC_004466.2 + 986 0.72 0.369572
Target:  5'- -aGGGGCUAGGGGcAUACcccuggggauaGGcCACCCCCa -3'
miRNA:   3'- aaUUCUGGUCUCC-UAUG-----------UC-GUGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 44529 0.73 0.351741
Target:  5'- --uAGACCAGGGGcgcgucauaGUACA-CACCCCUg -3'
miRNA:   3'- aauUCUGGUCUCC---------UAUGUcGUGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 43218 0.77 0.184914
Target:  5'- ---cGACCgGGAGGAaggagcuguuugcUACAGCACCUCCa -3'
miRNA:   3'- aauuCUGG-UCUCCU-------------AUGUCGUGGGGG- -5'
17608 5' -53.2 NC_004466.2 + 2503 0.8 0.120572
Target:  5'- --uGGACCGGAGGAUACGGcCACCuacagcguCCCg -3'
miRNA:   3'- aauUCUGGUCUCCUAUGUC-GUGG--------GGG- -5'
17608 5' -53.2 NC_004466.2 + 17380 1.11 0.000822
Target:  5'- gUUAAGACCAGAGGAUACAGCACCCCCa -3'
miRNA:   3'- -AAUUCUGGUCUCCUAUGUCGUGGGGG- -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.