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 + 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 + 42925 0.66 0.778922
Target:  5'- cGCGUCGUCGuccGGCGCGc-GCGucGUa -3'
miRNA:   3'- cCGCAGUAGU---UCGCGCcaCGCuuCGa -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 + 14016 0.66 0.768932
Target:  5'- gGGCGUCc---GGCGCGGcagcgGcCGGAGCc -3'
miRNA:   3'- -CCGCAGuaguUCGCGCCa----C-GCUUCGa -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 + 31165 0.66 0.768932
Target:  5'- cGCGcaAUCGccauacGGCGUGGUGCGcuGCUg -3'
miRNA:   3'- cCGCagUAGU------UCGCGCCACGCuuCGA- -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 + 10577 0.66 0.758802
Target:  5'- aGCGUaCcgCGgagcAGCGCGGcGCGAgcGGCUu -3'
miRNA:   3'- cCGCA-GuaGU----UCGCGCCaCGCU--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 + 33816 0.66 0.73817
Target:  5'- uGGCGUCGUC---CGUGGUGCcaGAuuuGGCa -3'
miRNA:   3'- -CCGCAGUAGuucGCGCCACG--CU---UCGa -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 + 21829 0.66 0.73817
Target:  5'- cGGUGUCAggcaaCAGGCGCGGcacaagGCGcGGg- -3'
miRNA:   3'- -CCGCAGUa----GUUCGCGCCa-----CGCuUCga -5'
23875 3' -55.1 NC_005262.1 + 22668 0.66 0.72769
Target:  5'- cGUGUCGUcCGAGCGCGccGUGAcGCg -3'
miRNA:   3'- cCGCAGUA-GUUCGCGCcaCGCUuCGa -5'
23875 3' -55.1 NC_005262.1 + 56254 0.66 0.72769
Target:  5'- aGGaUGUCGUCGAGCGCGccgacGCGccGCc -3'
miRNA:   3'- -CC-GCAGUAGUUCGCGCca---CGCuuCGa -5'
23875 3' -55.1 NC_005262.1 + 30768 0.66 0.72769
Target:  5'- gGGCGguacgucagCAUCAGGCGCaGcuugGCGuuGGCUg -3'
miRNA:   3'- -CCGCa--------GUAGUUCGCGcCa---CGCu-UCGA- -5'
23875 3' -55.1 NC_005262.1 + 14448 0.66 0.72769
Target:  5'- aGuCGUCAgCGAGCGCGGcGCGcgccuGCUc -3'
miRNA:   3'- cC-GCAGUaGUUCGCGCCaCGCuu---CGA- -5'
23875 3' -55.1 NC_005262.1 + 39993 0.66 0.72769
Target:  5'- cGCGUCGUCucgauCGUGGUGCGcuucGCa -3'
miRNA:   3'- cCGCAGUAGuuc--GCGCCACGCuu--CGa -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 + 46720 0.67 0.717116
Target:  5'- cGCGUCGaCGGGCGCGccuaucggcgccGUGCGcgcgacGAGCUc -3'
miRNA:   3'- cCGCAGUaGUUCGCGC------------CACGC------UUCGA- -5'
23875 3' -55.1 NC_005262.1 + 961 0.67 0.713927
Target:  5'- uGCGUCAUCcgucagccccugccGAGUggcgaccuGCGGgGCGggGCg -3'
miRNA:   3'- cCGCAGUAG--------------UUCG--------CGCCaCGCuuCGa -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.