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
19048 3' -54.5 NC_004684.1 + 9211 0.66 0.813196
Target:  5'- gGGCGCGuGACCG-GGUGgGCCa---- -3'
miRNA:   3'- -UCGCGUuCUGGCaCCACaUGGacagu -5'
19048 3' -54.5 NC_004684.1 + 46121 0.66 0.80375
Target:  5'- gGGCGCGcGuGCCGgGGUGguugACCUGgcgCAc -3'
miRNA:   3'- -UCGCGUuC-UGGCaCCACa---UGGACa--GU- -5'
19048 3' -54.5 NC_004684.1 + 20922 0.66 0.794125
Target:  5'- cAGCgGCAAG-CgCGUGGUGgcCCUGg-- -3'
miRNA:   3'- -UCG-CGUUCuG-GCACCACauGGACagu -5'
19048 3' -54.5 NC_004684.1 + 20395 0.66 0.794124
Target:  5'- cGCGCAcgAGGCCGaGGUcaGCCUGg-- -3'
miRNA:   3'- uCGCGU--UCUGGCaCCAcaUGGACagu -5'
19048 3' -54.5 NC_004684.1 + 46804 0.66 0.784331
Target:  5'- uGGCGguAGuccCCGUGGcGUGCgcacaCUGUCGg -3'
miRNA:   3'- -UCGCguUCu--GGCACCaCAUG-----GACAGU- -5'
19048 3' -54.5 NC_004684.1 + 15633 0.66 0.774381
Target:  5'- cGCGCGAGGCCGg---GUugCUGg-- -3'
miRNA:   3'- uCGCGUUCUGGCaccaCAugGACagu -5'
19048 3' -54.5 NC_004684.1 + 62508 0.66 0.774381
Target:  5'- uAGCgGCGGGACU-UGGUGUcCCaGUCAg -3'
miRNA:   3'- -UCG-CGUUCUGGcACCACAuGGaCAGU- -5'
19048 3' -54.5 NC_004684.1 + 5776 0.67 0.754052
Target:  5'- uGGCcCAAGugCGUGGUGUGCggG-CGg -3'
miRNA:   3'- -UCGcGUUCugGCACCACAUGgaCaGU- -5'
19048 3' -54.5 NC_004684.1 + 11355 0.67 0.720534
Target:  5'- gAGCGCGAGACCcgcgaggugccgGUGGUGgcguccaucgugGCCUcGUUc -3'
miRNA:   3'- -UCGCGUUCUGG------------CACCACa-----------UGGA-CAGu -5'
19048 3' -54.5 NC_004684.1 + 29343 0.67 0.712001
Target:  5'- aAGCGCuggGAGGCgGUGG---ACCUGUCc -3'
miRNA:   3'- -UCGCG---UUCUGgCACCacaUGGACAGu -5'
19048 3' -54.5 NC_004684.1 + 33620 0.68 0.701264
Target:  5'- cAGCGCcGGAUCGUcGGgcgGcUACCUcGUCAg -3'
miRNA:   3'- -UCGCGuUCUGGCA-CCa--C-AUGGA-CAGU- -5'
19048 3' -54.5 NC_004684.1 + 34445 0.68 0.690461
Target:  5'- cAGCGCGAGcGCC-UGGaGUGCCUcaaggGUCAu -3'
miRNA:   3'- -UCGCGUUC-UGGcACCaCAUGGA-----CAGU- -5'
19048 3' -54.5 NC_004684.1 + 18837 0.69 0.602914
Target:  5'- cGGCGCGcAGGCCGaGGUGUGgCaggagGUCGg -3'
miRNA:   3'- -UCGCGU-UCUGGCaCCACAUgGa----CAGU- -5'
19048 3' -54.5 NC_004684.1 + 56708 0.69 0.591982
Target:  5'- cGCGUcccGACCGUugaggcguucGGUGUGCCgGUCGa -3'
miRNA:   3'- uCGCGuu-CUGGCA----------CCACAUGGaCAGU- -5'
19048 3' -54.5 NC_004684.1 + 2076 0.7 0.548676
Target:  5'- uGGCGCu-GGCCGUGGUGcacagcgagGCCgccGUCGc -3'
miRNA:   3'- -UCGCGuuCUGGCACCACa--------UGGa--CAGU- -5'
19048 3' -54.5 NC_004684.1 + 21780 0.7 0.537994
Target:  5'- --gGCAAGACCGacgcgcUGGUGcuggACCUGUCc -3'
miRNA:   3'- ucgCGUUCUGGC------ACCACa---UGGACAGu -5'
19048 3' -54.5 NC_004684.1 + 43724 0.72 0.455654
Target:  5'- gGGC-CGaccAGGCCGUcGGUGUACCcgGUCAg -3'
miRNA:   3'- -UCGcGU---UCUGGCA-CCACAUGGa-CAGU- -5'
19048 3' -54.5 NC_004684.1 + 696 0.77 0.231794
Target:  5'- cAGCGCAAGACCGccgccgGGUGggaagACCUGggCAc -3'
miRNA:   3'- -UCGCGUUCUGGCa-----CCACa----UGGACa-GU- -5'
19048 3' -54.5 NC_004684.1 + 27912 1.08 0.001601
Target:  5'- cAGCGCAAGACCGUGGUGUACCUGUCAc -3'
miRNA:   3'- -UCGCGUUCUGGCACCACAUGGACAGU- -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.