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 + 961 0.67 0.713927
Target:  5'- uGCGUCAUCcgucagccccugccGAGUggcgaccuGCGGgGCGggGCg -3'
miRNA:   3'- cCGCAGUAG--------------UUCG--------CGCCaCGCuuCGa -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 + 5181 0.79 0.158318
Target:  5'- cGGCGUCG-CGGGCGCGG-GCGcGGCc -3'
miRNA:   3'- -CCGCAGUaGUUCGCGCCaCGCuUCGa -5'
23875 3' -55.1 NC_005262.1 + 6867 0.67 0.710731
Target:  5'- cGGCGUgCGcuucUCGAGCGCGGccuugaucucgccgGCG-AGCg -3'
miRNA:   3'- -CCGCA-GU----AGUUCGCGCCa-------------CGCuUCGa -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 + 10441 0.7 0.491571
Target:  5'- uGGCGcCgAUCAGguucGCGCGGUcgGCGAGGUa -3'
miRNA:   3'- -CCGCaG-UAGUU----CGCGCCA--CGCUUCGa -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 + 12432 0.82 0.096013
Target:  5'- cGGCGUCG-CGgacGGCGCGGUGCcGAGCUg -3'
miRNA:   3'- -CCGCAGUaGU---UCGCGCCACGcUUCGA- -5'
23875 3' -55.1 NC_005262.1 + 12566 0.68 0.663223
Target:  5'- cGGCGcgCAUgagGAGCcCGGUGCGAucAGCa -3'
miRNA:   3'- -CCGCa-GUAg--UUCGcGCCACGCU--UCGa -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 + 13463 0.69 0.574914
Target:  5'- gGGCGcuUCGUCcuGCGCGGcgggcgcUGCGGccGGCUc -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 + 14053 0.66 0.73817
Target:  5'- gGGCG-CcgCcGGCGuCGGUGCGGcuucGGCc -3'
miRNA:   3'- -CCGCaGuaGuUCGC-GCCACGCU----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 + 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 + 16083 0.67 0.706459
Target:  5'- aGGCGgcgagCcgCcgcccGGCGCGGUGCuuGGCg -3'
miRNA:   3'- -CCGCa----GuaGu----UCGCGCCACGcuUCGa -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 + 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 + 24993 0.67 0.721356
Target:  5'- aGGCGgCAuUCGAGCGCGGUcuggaaaccuaaccaGUGguGCg -3'
miRNA:   3'- -CCGCaGU-AGUUCGCGCCA---------------CGCuuCGa -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.