miRNA display CGI


Results 1 - 20 of 51 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
18691 3' -56.1 NC_004682.1 + 420 0.68 0.500103
Target:  5'- cUUGGGGGC-GGCUCcUCGGaggGCCgAGCc -3'
miRNA:   3'- -AGCCUCCGuUCGAGuAGCUg--CGG-UCG- -5'
18691 3' -56.1 NC_004682.1 + 593 0.7 0.392651
Target:  5'- aCGGAGaCAGguGCUCcgUGACGCgGGCu -3'
miRNA:   3'- aGCCUCcGUU--CGAGuaGCUGCGgUCG- -5'
18691 3' -56.1 NC_004682.1 + 1420 0.7 0.43002
Target:  5'- gCGGucGCGAcuucaaguggacGUUCGagaaucUCGACGCCAGCg -3'
miRNA:   3'- aGCCucCGUU------------CGAGU------AGCUGCGGUCG- -5'
18691 3' -56.1 NC_004682.1 + 2215 0.69 0.439684
Target:  5'- cCGGuAGGUcccuGCUCGccuUCGGgGCCGGCu -3'
miRNA:   3'- aGCC-UCCGuu--CGAGU---AGCUgCGGUCG- -5'
18691 3' -56.1 NC_004682.1 + 3051 0.7 0.43002
Target:  5'- gUCGGAcaaGGCAGGC-CGUCcaacggaacgGGCGCgAGCc -3'
miRNA:   3'- -AGCCU---CCGUUCGaGUAG----------CUGCGgUCG- -5'
18691 3' -56.1 NC_004682.1 + 3167 0.66 0.629687
Target:  5'- cUCGGGcaccacGGCGGGC-CAg-GGCGCgGGCa -3'
miRNA:   3'- -AGCCU------CCGUUCGaGUagCUGCGgUCG- -5'
18691 3' -56.1 NC_004682.1 + 4619 0.68 0.521059
Target:  5'- cCGGAGGCcacGCUCGcugccgagaUCGAgGCCAu- -3'
miRNA:   3'- aGCCUCCGuu-CGAGU---------AGCUgCGGUcg -5'
18691 3' -56.1 NC_004682.1 + 4918 0.66 0.651725
Target:  5'- aCGGAGGCGcgacccAGUUCAUgaCcACGCCguAGCc -3'
miRNA:   3'- aGCCUCCGU------UCGAGUA--GcUGCGG--UCG- -5'
18691 3' -56.1 NC_004682.1 + 5164 0.67 0.571524
Target:  5'- aCGGGGGUcggugcgggugcggGAGCagcCGgugCGGCGUCGGCg -3'
miRNA:   3'- aGCCUCCG--------------UUCGa--GUa--GCUGCGGUCG- -5'
18691 3' -56.1 NC_004682.1 + 5339 0.67 0.58571
Target:  5'- cUCGGuGGCccggAAGUcgUCGgacUCGugGCCGGUc -3'
miRNA:   3'- -AGCCuCCG----UUCG--AGU---AGCugCGGUCG- -5'
18691 3' -56.1 NC_004682.1 + 6671 0.68 0.542349
Target:  5'- cCGGuGGCAGGCccagacUCGuacggcauccUCGAUGaCCGGCu -3'
miRNA:   3'- aGCCuCCGUUCG------AGU----------AGCUGC-GGUCG- -5'
18691 3' -56.1 NC_004682.1 + 7095 0.66 0.662723
Target:  5'- aUCGGgccuacguGGGCAcGCacuGUCGACGgCGGCu -3'
miRNA:   3'- -AGCC--------UCCGUuCGag-UAGCUGCgGUCG- -5'
18691 3' -56.1 NC_004682.1 + 7570 0.68 0.510536
Target:  5'- -aGGccGGCGGGCgCAUCGAgGCC-GCa -3'
miRNA:   3'- agCCu-CCGUUCGaGUAGCUgCGGuCG- -5'
18691 3' -56.1 NC_004682.1 + 9247 0.69 0.439684
Target:  5'- -aGGaAGGCAacgAGgUCAUCGGgGCCAcGCu -3'
miRNA:   3'- agCC-UCCGU---UCgAGUAGCUgCGGU-CG- -5'
18691 3' -56.1 NC_004682.1 + 11967 0.69 0.439684
Target:  5'- aUCGccGAGGCAucgcGCUCAaguUCGACG-CGGCu -3'
miRNA:   3'- -AGC--CUCCGUu---CGAGU---AGCUGCgGUCG- -5'
18691 3' -56.1 NC_004682.1 + 12848 0.68 0.500103
Target:  5'- -gGGAGGCcGGUUUcggGGCGUCAGCg -3'
miRNA:   3'- agCCUCCGuUCGAGuagCUGCGGUCG- -5'
18691 3' -56.1 NC_004682.1 + 13257 1.13 0.000387
Target:  5'- aUCGGAGGCAAGCUCAUCGACGCCAGCa -3'
miRNA:   3'- -AGCCUCCGUUCGAGUAGCUGCGGUCG- -5'
18691 3' -56.1 NC_004682.1 + 15443 0.73 0.270406
Target:  5'- aCGaGGGCAAGCagCGcgaagaggacgaccUCGACGCCAGUg -3'
miRNA:   3'- aGCcUCCGUUCGa-GU--------------AGCUGCGGUCG- -5'
18691 3' -56.1 NC_004682.1 + 15639 0.7 0.382751
Target:  5'- aCGcGAGGUcgucgcgGAGUUCAUCGACcaaCCGGCu -3'
miRNA:   3'- aGC-CUCCG-------UUCGAGUAGCUGc--GGUCG- -5'
18691 3' -56.1 NC_004682.1 + 16527 0.73 0.286635
Target:  5'- aCGGAcucaGCAGGCUUggCuGCGCCAGCa -3'
miRNA:   3'- aGCCUc---CGUUCGAGuaGcUGCGGUCG- -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.