miRNA display CGI


Results 1 - 20 of 34 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
19838 3' -54.2 NC_004687.1 + 77515 0.66 0.957846
Target:  5'- aGCgCUG-CACUGCcUGaCAG-GCCGCGc -3'
miRNA:   3'- -CG-GACuGUGACGaAC-GUCaUGGCGCu -5'
19838 3' -54.2 NC_004687.1 + 51684 0.66 0.957846
Target:  5'- aGCUgGACAgcucgcgcCUGCUgGCgaacccgcaggAGUACCGCGAc -3'
miRNA:   3'- -CGGaCUGU--------GACGAaCG-----------UCAUGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 154401 0.66 0.957846
Target:  5'- gGCCaGACGCagGUUcaUGCAGUACUGgGc -3'
miRNA:   3'- -CGGaCUGUGa-CGA--ACGUCAUGGCgCu -5'
19838 3' -54.2 NC_004687.1 + 120960 0.66 0.950257
Target:  5'- cGCCUGACgacgucggcgggccaACUGCggagGCgacccuugcggcggAGUGCCGCc- -3'
miRNA:   3'- -CGGACUG---------------UGACGaa--CG--------------UCAUGGCGcu -5'
19838 3' -54.2 NC_004687.1 + 91998 0.66 0.949834
Target:  5'- gGCCUGAUcgaGCUUGCGaccGUGCCG-GAu -3'
miRNA:   3'- -CGGACUGugaCGAACGU---CAUGGCgCU- -5'
19838 3' -54.2 NC_004687.1 + 100139 0.66 0.949408
Target:  5'- aGCCUGGCucagcguGCUGCUgUGCAGcgGCCagGCu- -3'
miRNA:   3'- -CGGACUG-------UGACGA-ACGUCa-UGG--CGcu -5'
19838 3' -54.2 NC_004687.1 + 44192 0.66 0.945471
Target:  5'- aGCCa---GCU-CUUGCGGUcGCCGCGAc -3'
miRNA:   3'- -CGGacugUGAcGAACGUCA-UGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 10322 0.66 0.940867
Target:  5'- aCCUGGuCACccGCaaccUGCAG-ACCGCGAu -3'
miRNA:   3'- cGGACU-GUGa-CGa---ACGUCaUGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 150886 0.66 0.936019
Target:  5'- cGCCUGACugUGgcUGC-GU-CCGCGc -3'
miRNA:   3'- -CGGACUGugACgaACGuCAuGGCGCu -5'
19838 3' -54.2 NC_004687.1 + 64864 0.66 0.936019
Target:  5'- gGCCUGGaGCUGCUcacgGCGGgcgacaucCCGCGc -3'
miRNA:   3'- -CGGACUgUGACGAa---CGUCau------GGCGCu -5'
19838 3' -54.2 NC_004687.1 + 109863 0.66 0.935521
Target:  5'- gGCCUcggcuccGGCGCUGC--GCuGgaagGCCGCGAc -3'
miRNA:   3'- -CGGA-------CUGUGACGaaCGuCa---UGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 133910 0.67 0.930925
Target:  5'- gGCCcgGACGCgGCg-GCGGgACCGCGc -3'
miRNA:   3'- -CGGa-CUGUGaCGaaCGUCaUGGCGCu -5'
19838 3' -54.2 NC_004687.1 + 101744 0.67 0.918273
Target:  5'- gGCCUGGCACaGCUcGgGGUGCUcagcccagaucuggGCGGc -3'
miRNA:   3'- -CGGACUGUGaCGAaCgUCAUGG--------------CGCU- -5'
19838 3' -54.2 NC_004687.1 + 69178 0.68 0.894534
Target:  5'- gGUCUGGCGCgGCUUGCGagccGUccagcuacuggucACCGUGGa -3'
miRNA:   3'- -CGGACUGUGaCGAACGU----CA-------------UGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 35056 0.68 0.888404
Target:  5'- aGCCgcaGGCGCgGCggGCAGUGCUG-GAg -3'
miRNA:   3'- -CGGa--CUGUGaCGaaCGUCAUGGCgCU- -5'
19838 3' -54.2 NC_004687.1 + 124427 0.68 0.888404
Target:  5'- cGCCgcgagGucuCGCUGCUgcagcgcGCGGU-CCGCGAc -3'
miRNA:   3'- -CGGa----Cu--GUGACGAa------CGUCAuGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 139341 0.68 0.874112
Target:  5'- aCCUcGGCACUGuCUUcGCug-GCCGCGAc -3'
miRNA:   3'- cGGA-CUGUGAC-GAA-CGucaUGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 124252 0.69 0.858928
Target:  5'- cGCCUccggGACGCUGCUg-----ACCGCGAu -3'
miRNA:   3'- -CGGA----CUGUGACGAacgucaUGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 142223 0.69 0.858928
Target:  5'- cGCCUGGCACguaGUggcGCAGcugccACCGUGAc -3'
miRNA:   3'- -CGGACUGUGa--CGaa-CGUCa----UGGCGCU- -5'
19838 3' -54.2 NC_004687.1 + 49950 0.69 0.851015
Target:  5'- gGCCUGACGgaGCUUuuccaGCAGcGCCG-GAu -3'
miRNA:   3'- -CGGACUGUgaCGAA-----CGUCaUGGCgCU- -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.