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
19142 5' -53.1 NC_004684.1 + 40323 0.66 0.823376
Target:  5'- --cGGCAgGCACG-ACCUcGGCGCUgGg -3'
miRNA:   3'- aaaCCGU-CGUGCaUGGA-CUGUGAgUu -5'
19142 5' -53.1 NC_004684.1 + 19601 0.66 0.823376
Target:  5'- --cGGCGGCcgAgGUGCUggcggUGACGCUCGg -3'
miRNA:   3'- aaaCCGUCG--UgCAUGG-----ACUGUGAGUu -5'
19142 5' -53.1 NC_004684.1 + 64754 0.66 0.813804
Target:  5'- -cUGGCcgAGCugGUGCCaggcgucggucUGGCugUCGg -3'
miRNA:   3'- aaACCG--UCGugCAUGG-----------ACUGugAGUu -5'
19142 5' -53.1 NC_004684.1 + 62242 0.66 0.813804
Target:  5'- --gGGUAGCGCGgcugguCCUGccCGCUCAu -3'
miRNA:   3'- aaaCCGUCGUGCau----GGACu-GUGAGUu -5'
19142 5' -53.1 NC_004684.1 + 44675 0.66 0.784936
Target:  5'- --cGGCGGCGCGaUGCCgaugucgcuggcgucGACugUCAc -3'
miRNA:   3'- aaaCCGUCGUGC-AUGGa--------------CUGugAGUu -5'
19142 5' -53.1 NC_004684.1 + 31002 0.67 0.741763
Target:  5'- -aUGGCgcAGCugG-GCCUGACGC-CGAc -3'
miRNA:   3'- aaACCG--UCGugCaUGGACUGUGaGUU- -5'
19142 5' -53.1 NC_004684.1 + 55465 0.67 0.730898
Target:  5'- -aUGGcCAGCggACGgcCCUGGCugUCGGu -3'
miRNA:   3'- aaACC-GUCG--UGCauGGACUGugAGUU- -5'
19142 5' -53.1 NC_004684.1 + 45213 0.68 0.708864
Target:  5'- --cGGCAGCGCGU-CCaugcGGCGCUUg- -3'
miRNA:   3'- aaaCCGUCGUGCAuGGa---CUGUGAGuu -5'
19142 5' -53.1 NC_004684.1 + 45333 0.68 0.708864
Target:  5'- --cGGUAGCcagACuGUGCCUGGCGCUg-- -3'
miRNA:   3'- aaaCCGUCG---UG-CAUGGACUGUGAguu -5'
19142 5' -53.1 NC_004684.1 + 30260 0.68 0.660531
Target:  5'- -cUGGCGGCGCaGUGCgCUGGCGgcacgccagcccucCUCAAc -3'
miRNA:   3'- aaACCGUCGUG-CAUG-GACUGU--------------GAGUU- -5'
19142 5' -53.1 NC_004684.1 + 41065 0.69 0.652589
Target:  5'- --aGGCAGCugG-ACCgagGACAaCUCGGu -3'
miRNA:   3'- aaaCCGUCGugCaUGGa--CUGU-GAGUU- -5'
19142 5' -53.1 NC_004684.1 + 36319 0.69 0.652589
Target:  5'- --cGGCGGCACGUuCCUGGaucCACgCAAu -3'
miRNA:   3'- aaaCCGUCGUGCAuGGACU---GUGaGUU- -5'
19142 5' -53.1 NC_004684.1 + 38825 0.69 0.651453
Target:  5'- -cUGGCGGUGCccgacggccugguGgcCCUGGCGCUCAAc -3'
miRNA:   3'- aaACCGUCGUG-------------CauGGACUGUGAGUU- -5'
19142 5' -53.1 NC_004684.1 + 51527 0.7 0.595796
Target:  5'- -cUGGCGGcCACGUGCUcgaUGAC-CUCGg -3'
miRNA:   3'- aaACCGUC-GUGCAUGG---ACUGuGAGUu -5'
19142 5' -53.1 NC_004684.1 + 58628 0.71 0.528805
Target:  5'- -gUGGCGGCugGUGCCgcgcugGGC-CUCu- -3'
miRNA:   3'- aaACCGUCGugCAUGGa-----CUGuGAGuu -5'
19142 5' -53.1 NC_004684.1 + 55171 0.73 0.414666
Target:  5'- --gGGCGGCACGUACCggaacccggUGAUGCUgGAa -3'
miRNA:   3'- aaaCCGUCGUGCAUGG---------ACUGUGAgUU- -5'
19142 5' -53.1 NC_004684.1 + 32292 0.73 0.414666
Target:  5'- aUUGGCgcucGGCGCuGUGCCUGACGC-CGGu -3'
miRNA:   3'- aAACCG----UCGUG-CAUGGACUGUGaGUU- -5'
19142 5' -53.1 NC_004684.1 + 31816 0.73 0.408876
Target:  5'- -gUGGaCAGCAUGUACUcgaacgugcagaccuUGACGCUCAu -3'
miRNA:   3'- aaACC-GUCGUGCAUGG---------------ACUGUGAGUu -5'
19142 5' -53.1 NC_004684.1 + 11324 0.9 0.033617
Target:  5'- cUUUGGCGaCACGUACCUGACACUCAAc -3'
miRNA:   3'- -AAACCGUcGUGCAUGGACUGUGAGUU- -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.