miRNA display CGI


Results 1 - 15 of 15 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
16108 3' -57.7 NC_004065.1 + 116027 0.66 0.930077
Target:  5'- cUCUCUGccgacGGGUCUCGgUGUGUUCaagGAGa -3'
miRNA:   3'- -AGAGAU-----CCCGGAGCaGCACGAGg--CUC- -5'
16108 3' -57.7 NC_004065.1 + 158042 0.66 0.914193
Target:  5'- cCUCcAGGGCaugCGUCGc-CUCCGGGc -3'
miRNA:   3'- aGAGaUCCCGga-GCAGCacGAGGCUC- -5'
16108 3' -57.7 NC_004065.1 + 188965 0.67 0.896346
Target:  5'- gCUCUucGGCUUCGUCGccgcgcgGC-CCGAGc -3'
miRNA:   3'- aGAGAucCCGGAGCAGCa------CGaGGCUC- -5'
16108 3' -57.7 NC_004065.1 + 125746 0.67 0.883384
Target:  5'- cCUCagacAGGGCCcggCGUCGUGUaUCgCGGGg -3'
miRNA:   3'- aGAGa---UCCCGGa--GCAGCACG-AG-GCUC- -5'
16108 3' -57.7 NC_004065.1 + 102045 0.67 0.882714
Target:  5'- aUCUC-GGGGUCUCGUCG-GCggaccugUCUGAa -3'
miRNA:   3'- -AGAGaUCCCGGAGCAGCaCG-------AGGCUc -5'
16108 3' -57.7 NC_004065.1 + 35928 0.67 0.869603
Target:  5'- -gUCUGcgacGCCUCccuGUCGUGCUCCGAc -3'
miRNA:   3'- agAGAUcc--CGGAG---CAGCACGAGGCUc -5'
16108 3' -57.7 NC_004065.1 + 155927 0.68 0.823727
Target:  5'- cCUCUAGGaCCUguuucggcacCGUCGUGCUgCgCGAGu -3'
miRNA:   3'- aGAGAUCCcGGA----------GCAGCACGA-G-GCUC- -5'
16108 3' -57.7 NC_004065.1 + 78299 0.69 0.807083
Target:  5'- cUCUCgAGGGCCUCGgacugCGUggGCgacCCGAc -3'
miRNA:   3'- -AGAGaUCCCGGAGCa----GCA--CGa--GGCUc -5'
16108 3' -57.7 NC_004065.1 + 32793 0.7 0.731529
Target:  5'- gCUCgAGGGCCUCGUUGUcgucguccucguaGCcgucgggccgcucgUCCGAGa -3'
miRNA:   3'- aGAGaUCCCGGAGCAGCA-------------CG--------------AGGCUC- -5'
16108 3' -57.7 NC_004065.1 + 92073 0.71 0.687478
Target:  5'- gCUCggAGGGCCgcgCGUUGcgccagcaGCUCCGAGc -3'
miRNA:   3'- aGAGa-UCCCGGa--GCAGCa-------CGAGGCUC- -5'
16108 3' -57.7 NC_004065.1 + 207687 0.72 0.609162
Target:  5'- uUCUCaAGaucuuGGCCUCGUCGUGCgaCGGGg -3'
miRNA:   3'- -AGAGaUC-----CCGGAGCAGCACGagGCUC- -5'
16108 3' -57.7 NC_004065.1 + 192761 0.73 0.560491
Target:  5'- uUCUCUGGGGUggUCGUCGUG-UCCGGu -3'
miRNA:   3'- -AGAGAUCCCGg-AGCAGCACgAGGCUc -5'
16108 3' -57.7 NC_004065.1 + 7219 0.74 0.541302
Target:  5'- cUUCUcGGGCCUCGUCGUGUg-CGAc -3'
miRNA:   3'- aGAGAuCCCGGAGCAGCACGagGCUc -5'
16108 3' -57.7 NC_004065.1 + 123181 0.75 0.458244
Target:  5'- gCUCUccaucAGGGCCUgCGUCGUGC-CCGuGu -3'
miRNA:   3'- aGAGA-----UCCCGGA-GCAGCACGaGGCuC- -5'
16108 3' -57.7 NC_004065.1 + 120317 1.09 0.003102
Target:  5'- aUCUCUAGGGCCUCGUCGUGCUCCGAGa -3'
miRNA:   3'- -AGAGAUCCCGGAGCAGCACGAGGCUC- -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.