miRNA display CGI


Results 1 - 20 of 40 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
23875 3' -55.1 NC_005262.1 + 5181 0.79 0.158318
Target:  5'- cGGCGUCG-CGGGCGCGG-GCGcGGCc -3'
miRNA:   3'- -CCGCAGUaGUUCGCGCCaCGCuUCGa -5'
23875 3' -55.1 NC_005262.1 + 42925 0.66 0.778922
Target:  5'- cGCGUCGUCGuccGGCGCGc-GCGucGUa -3'
miRNA:   3'- cCGCAGUAGU---UCGCGCcaCGCuuCGa -5'
23875 3' -55.1 NC_005262.1 + 15150 0.66 0.778922
Target:  5'- cGGCGUCgaGUC-GGCGCGGaUGUugGAcGGCa -3'
miRNA:   3'- -CCGCAG--UAGuUCGCGCC-ACG--CU-UCGa -5'
23875 3' -55.1 NC_005262.1 + 34594 0.66 0.77793
Target:  5'- cGGCGcCGUgauccaCGAGaucgaGCGGUGCGAcuacaacGGCa -3'
miRNA:   3'- -CCGCaGUA------GUUCg----CGCCACGCU-------UCGa -5'
23875 3' -55.1 NC_005262.1 + 10577 0.66 0.758802
Target:  5'- aGCGUaCcgCGgagcAGCGCGGcGCGAgcGGCUu -3'
miRNA:   3'- cCGCA-GuaGU----UCGCGCCaCGCU--UCGA- -5'
23875 3' -55.1 NC_005262.1 + 24993 0.67 0.721356
Target:  5'- aGGCGgCAuUCGAGCGCGGUcuggaaaccuaaccaGUGguGCg -3'
miRNA:   3'- -CCGCaGU-AGUUCGCGCCA---------------CGCuuCGa -5'
23875 3' -55.1 NC_005262.1 + 961 0.67 0.713927
Target:  5'- uGCGUCAUCcgucagccccugccGAGUggcgaccuGCGGgGCGggGCg -3'
miRNA:   3'- cCGCAGUAG--------------UUCG--------CGCCaCGCuuCGa -5'
23875 3' -55.1 NC_005262.1 + 7121 0.67 0.674102
Target:  5'- uGGUGUCGUauGGUGCGGUaugguGCGAcGCc -3'
miRNA:   3'- -CCGCAGUAguUCGCGCCA-----CGCUuCGa -5'
23875 3' -55.1 NC_005262.1 + 33906 0.68 0.652316
Target:  5'- cGGCGgcccgAUCGguAGCgGCGGUGCcGAGCUc -3'
miRNA:   3'- -CCGCag---UAGU--UCG-CGCCACGcUUCGA- -5'
23875 3' -55.1 NC_005262.1 + 12567 0.68 0.608604
Target:  5'- cGGCGcUCGUCGAGCuGCuGcugccgccgGCGAGGCg -3'
miRNA:   3'- -CCGC-AGUAGUUCG-CGcCa--------CGCUUCGa -5'
23875 3' -55.1 NC_005262.1 + 36464 0.69 0.58683
Target:  5'- uGGCG-CAU-GGGCGCGc-GCGAGGCUg -3'
miRNA:   3'- -CCGCaGUAgUUCGCGCcaCGCUUCGA- -5'
23875 3' -55.1 NC_005262.1 + 41296 0.71 0.481399
Target:  5'- gGGCGaCAUCAagguauGGCGCGGcGCGAuuGCc -3'
miRNA:   3'- -CCGCaGUAGU------UCGCGCCaCGCUu-CGa -5'
23875 3' -55.1 NC_005262.1 + 2523 0.71 0.471329
Target:  5'- cGGuCGUCAUC--GCGUGGcGUGAAGCc -3'
miRNA:   3'- -CC-GCAGUAGuuCGCGCCaCGCUUCGa -5'
23875 3' -55.1 NC_005262.1 + 14053 0.66 0.73817
Target:  5'- gGGCG-CcgCcGGCGuCGGUGCGGcuucGGCc -3'
miRNA:   3'- -CCGCaGuaGuUCGC-GCCACGCU----UCGa -5'
23875 3' -55.1 NC_005262.1 + 33816 0.66 0.73817
Target:  5'- uGGCGUCGUC---CGUGGUGCcaGAuuuGGCa -3'
miRNA:   3'- -CCGCAGUAGuucGCGCCACG--CU---UCGa -5'
23875 3' -55.1 NC_005262.1 + 57296 0.66 0.757782
Target:  5'- cGGCGcgcugaUCGUCGAGCG-GGuUGCGAacuucugGGCc -3'
miRNA:   3'- -CCGC------AGUAGUUCGCgCC-ACGCU-------UCGa -5'
23875 3' -55.1 NC_005262.1 + 14016 0.66 0.768932
Target:  5'- gGGCGUCc---GGCGCGGcagcgGcCGGAGCc -3'
miRNA:   3'- -CCGCAGuaguUCGCGCCa----C-GCUUCGa -5'
23875 3' -55.1 NC_005262.1 + 59957 0.66 0.768932
Target:  5'- aGCGgcaCGUCAcGCGCGGgGCGcucGGCa -3'
miRNA:   3'- cCGCa--GUAGUuCGCGCCaCGCu--UCGa -5'
23875 3' -55.1 NC_005262.1 + 17342 0.66 0.768932
Target:  5'- cGGCGcggCAuUCGgguccGGCGCGG-GCGgcGCg -3'
miRNA:   3'- -CCGCa--GU-AGU-----UCGCGCCaCGCuuCGa -5'
23875 3' -55.1 NC_005262.1 + 58459 1.09 0.001203
Target:  5'- gGGCGUCAUCAAGCGCGGUGCGAAGCUc -3'
miRNA:   3'- -CCGCAGUAGUUCGCGCCACGCUUCGA- -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.