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
16439 3' -45.9 NC_004084.1 + 23415 0.66 0.997499
Target:  5'- aCUCGAGcCCagcugAUCGcuGACACGCAg- -3'
miRNA:   3'- aGAGUUCuGGaa---UAGU--UUGUGCGUgu -5'
16439 3' -45.9 NC_004084.1 + 15126 0.66 0.997499
Target:  5'- aCUCAGGGCCgcgaagCuAGCGgGUACAg -3'
miRNA:   3'- aGAGUUCUGGaaua--GuUUGUgCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 28004 0.66 0.996978
Target:  5'- gUCUCGAGGCCggggUAUUcgucgucgaaAAGCcCGUGCAg -3'
miRNA:   3'- -AGAGUUCUGGa---AUAG----------UUUGuGCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 25860 0.66 0.996978
Target:  5'- -aUCGAGACaccgUUGUucCAGGCGCGCugAa -3'
miRNA:   3'- agAGUUCUGg---AAUA--GUUUGUGCGugU- -5'
16439 3' -45.9 NC_004084.1 + 53014 0.66 0.995434
Target:  5'- --aCGAGACCUacuggAUCGAgcggaagaaguccgGCugGCACGg -3'
miRNA:   3'- agaGUUCUGGAa----UAGUU--------------UGugCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 53535 0.67 0.993922
Target:  5'- uUCUCGccucACCUUAUCAAACAucuaacccgguaUGCACc -3'
miRNA:   3'- -AGAGUuc--UGGAAUAGUUUGU------------GCGUGu -5'
16439 3' -45.9 NC_004084.1 + 57402 0.67 0.992859
Target:  5'- aCUCGAGucCCgcgAUCAggUACGC-CAg -3'
miRNA:   3'- aGAGUUCu-GGaa-UAGUuuGUGCGuGU- -5'
16439 3' -45.9 NC_004084.1 + 51165 0.67 0.992859
Target:  5'- -aUCGAGACg--GUCGccgAGCACGCGCc -3'
miRNA:   3'- agAGUUCUGgaaUAGU---UUGUGCGUGu -5'
16439 3' -45.9 NC_004084.1 + 39841 0.67 0.988761
Target:  5'- gCUCGAGuccaucggcgGCCgcggcgccGUCGAGCACGCugAg -3'
miRNA:   3'- aGAGUUC----------UGGaa------UAGUUUGUGCGugU- -5'
16439 3' -45.9 NC_004084.1 + 1046 0.69 0.972278
Target:  5'- gCUCGAGuucGCCgagGUCGAACAgccacucguCGCGCAu -3'
miRNA:   3'- aGAGUUC---UGGaa-UAGUUUGU---------GCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 51417 0.69 0.972278
Target:  5'- -gUCGAGGCCU--UCGagggcGACACGCugAu -3'
miRNA:   3'- agAGUUCUGGAauAGU-----UUGUGCGugU- -5'
16439 3' -45.9 NC_004084.1 + 12718 0.69 0.968955
Target:  5'- cCUCGAGGaguugCUUGUCuc-CGCGCACGa -3'
miRNA:   3'- aGAGUUCUg----GAAUAGuuuGUGCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 10820 0.7 0.961477
Target:  5'- cCUCGAGAUCUUGUgAGAguCGC-CAc -3'
miRNA:   3'- aGAGUUCUGGAAUAgUUUguGCGuGU- -5'
16439 3' -45.9 NC_004084.1 + 33541 0.71 0.925211
Target:  5'- uUCUggCAuGACCUUAUCAAACguuuagaGCGCAUg -3'
miRNA:   3'- -AGA--GUuCUGGAAUAGUUUG-------UGCGUGu -5'
16439 3' -45.9 NC_004084.1 + 28396 0.71 0.919482
Target:  5'- --gCGAGACCUcgAUCG-GCGCGUACAa -3'
miRNA:   3'- agaGUUCUGGAa-UAGUuUGUGCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 4842 0.72 0.883035
Target:  5'- -gUCAuGACCUUAUCAAACAuuagagggUGCAUAc -3'
miRNA:   3'- agAGUuCUGGAAUAGUUUGU--------GCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 24832 0.74 0.808865
Target:  5'- aCUCAcuacGACCUUAUCAaacagauuuauuaGACAUGCGCu -3'
miRNA:   3'- aGAGUu---CUGGAAUAGU-------------UUGUGCGUGu -5'
16439 3' -45.9 NC_004084.1 + 26611 0.83 0.349513
Target:  5'- gCUCGgcAGACCUUAUCAAACAcucuaauCGCACAc -3'
miRNA:   3'- aGAGU--UCUGGAAUAGUUUGU-------GCGUGU- -5'
16439 3' -45.9 NC_004084.1 + 37610 1.1 0.008041
Target:  5'- cUCUCAAGACCUUAUCAAACACGCACAc -3'
miRNA:   3'- -AGAGUUCUGGAAUAGUUUGUGCGUGU- -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.