miRNA display CGI


Results 1 - 20 of 25 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
408 3' -55.6 AC_000011.1 + 17219 0.66 0.590258
Target:  5'- aGGCUGGcGGggaacgggaugcguCGCCACCACCaccGGCg- -3'
miRNA:   3'- -CCGGCCaUU--------------GCGGUGGUGGau-UCGag -5'
408 3' -55.6 AC_000011.1 + 15750 0.66 0.571137
Target:  5'- cGCCGGUAcgcccGCGCCAagaGCCggcGGCg- -3'
miRNA:   3'- cCGGCCAU-----UGCGGUgg-UGGau-UCGag -5'
408 3' -55.6 AC_000011.1 + 31693 0.66 0.571137
Target:  5'- aGGCaGGUGaacuucugGCGCUGCUGCagGAGCUCg -3'
miRNA:   3'- -CCGgCCAU--------UGCGGUGGUGgaUUCGAG- -5'
408 3' -55.6 AC_000011.1 + 5231 0.66 0.559959
Target:  5'- cGCCGGgcugGGCGCUugCgagggugcGCUUcAGGCUCa -3'
miRNA:   3'- cCGGCCa---UUGCGGugG--------UGGA-UUCGAG- -5'
408 3' -55.6 AC_000011.1 + 23644 0.66 0.558844
Target:  5'- aGGCUGGgcucgagcaUGACGgCGacuaccuCCACCUGAGCg- -3'
miRNA:   3'- -CCGGCC---------AUUGCgGU-------GGUGGAUUCGag -5'
408 3' -55.6 AC_000011.1 + 19753 0.66 0.537795
Target:  5'- cGGCCGGguggUGGCGCCcUCGCUgguGGaCUCc -3'
miRNA:   3'- -CCGGCC----AUUGCGGuGGUGGau-UC-GAG- -5'
408 3' -55.6 AC_000011.1 + 19858 0.67 0.526825
Target:  5'- uGCgGGgcuGCGCUACCGCUccauGCUCc -3'
miRNA:   3'- cCGgCCau-UGCGGUGGUGGauu-CGAG- -5'
408 3' -55.6 AC_000011.1 + 21459 0.67 0.526825
Target:  5'- uGCagGGUccGCGCUcgGCCGCCUGcgGGCUCu -3'
miRNA:   3'- cCGg-CCAu-UGCGG--UGGUGGAU--UCGAG- -5'
408 3' -55.6 AC_000011.1 + 26474 0.67 0.494452
Target:  5'- cGCCGGUGcCGCCcaggacuacuCCACCcgcaugaauuGGCUCa -3'
miRNA:   3'- cCGGCCAUuGCGGu---------GGUGGau--------UCGAG- -5'
408 3' -55.6 AC_000011.1 + 20847 0.67 0.494452
Target:  5'- cGCUGGUGACGgCGCUcuuGCCgaUGAGCg- -3'
miRNA:   3'- cCGGCCAUUGCgGUGG---UGG--AUUCGag -5'
408 3' -55.6 AC_000011.1 + 31578 0.67 0.473382
Target:  5'- -aCUGGUggAugGCCACCGcauCCUGcAGCUCc -3'
miRNA:   3'- ccGGCCA--UugCGGUGGU---GGAU-UCGAG- -5'
408 3' -55.6 AC_000011.1 + 33787 0.68 0.467148
Target:  5'- cGGCCGGUGgugucgcaucagGCcccgcagcagucgcuGCCGCCGCC---GCUCc -3'
miRNA:   3'- -CCGGCCAU------------UG---------------CGGUGGUGGauuCGAG- -5'
408 3' -55.6 AC_000011.1 + 35287 0.69 0.413081
Target:  5'- uGCCGGUGgaggGCGCuCugCGC--GAGCUCu -3'
miRNA:   3'- cCGGCCAU----UGCG-GugGUGgaUUCGAG- -5'
408 3' -55.6 AC_000011.1 + 13629 0.69 0.402547
Target:  5'- aGCCGGggcAGCGCCGCCcguaaacGCCgguGGCa- -3'
miRNA:   3'- cCGGCCa--UUGCGGUGG-------UGGau-UCGag -5'
408 3' -55.6 AC_000011.1 + 26806 0.69 0.39312
Target:  5'- gGGgCGGUGacgacacagggugGCGCCGCCcgccagcuggacACCUGAGUUa -3'
miRNA:   3'- -CCgGCCAU-------------UGCGGUGG------------UGGAUUCGAg -5'
408 3' -55.6 AC_000011.1 + 26737 0.69 0.38476
Target:  5'- uGGCgGGcGGCGCCACCcugugucgucACCgccccGCUCa -3'
miRNA:   3'- -CCGgCCaUUGCGGUGG----------UGGauu--CGAG- -5'
408 3' -55.6 AC_000011.1 + 18511 0.69 0.38476
Target:  5'- cGGUCGGUGgucacaucguGCGUgggCGCCACCgugGGGUUCc -3'
miRNA:   3'- -CCGGCCAU----------UGCG---GUGGUGGa--UUCGAG- -5'
408 3' -55.6 AC_000011.1 + 17092 0.7 0.340503
Target:  5'- uGCCGcGcgcGCGCUACCACCcGAGCaUCg -3'
miRNA:   3'- cCGGC-Cau-UGCGGUGGUGGaUUCG-AG- -5'
408 3' -55.6 AC_000011.1 + 11838 0.7 0.323862
Target:  5'- uGGUCGcucagcucGCGCCGCCugCUGGcGCUCa -3'
miRNA:   3'- -CCGGCcau-----UGCGGUGGugGAUU-CGAG- -5'
408 3' -55.6 AC_000011.1 + 20721 0.71 0.276891
Target:  5'- cGGCCuGGUaguccuuguaguuGACcucguCCACCACCUGgcGGCUCa -3'
miRNA:   3'- -CCGG-CCA-------------UUGc----GGUGGUGGAU--UCGAG- -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.