miRNA display CGI


Results 1 - 20 of 26 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
30147 3' -55.5 NC_006273.1 + 187181 0.66 0.960327
Target:  5'- gAAGCGuGugUGGGCcggcccucggggUGCGGGUggcggGCUGc -3'
miRNA:   3'- -UUCGC-UugACCCG------------ACGCUCAa----CGACc -5'
30147 3' -55.5 NC_006273.1 + 60249 0.66 0.952844
Target:  5'- -cGCG-ACUGGGCacgGCGGGaccGCUGu -3'
miRNA:   3'- uuCGCuUGACCCGa--CGCUCaa-CGACc -5'
30147 3' -55.5 NC_006273.1 + 1950 0.66 0.952844
Target:  5'- -cGCGGugGCUGGGUUGCGcg--GCgGGg -3'
miRNA:   3'- uuCGCU--UGACCCGACGCucaaCGaCC- -5'
30147 3' -55.5 NC_006273.1 + 196842 0.66 0.952844
Target:  5'- -cGCGGugGCUGGGUUGCGcg--GCgGGg -3'
miRNA:   3'- uuCGCU--UGACCCGACGCucaaCGaCC- -5'
30147 3' -55.5 NC_006273.1 + 152850 0.67 0.939933
Target:  5'- uGAGCGGcCUGGGCgccGCGGGaaaggccGUUGGc -3'
miRNA:   3'- -UUCGCUuGACCCGa--CGCUCaa-----CGACC- -5'
30147 3' -55.5 NC_006273.1 + 99816 0.67 0.935168
Target:  5'- uAGUGcuGCUGuGGUUGCGAcGgugGCUGGg -3'
miRNA:   3'- uUCGCu-UGAC-CCGACGCU-Caa-CGACC- -5'
30147 3' -55.5 NC_006273.1 + 81755 0.67 0.935168
Target:  5'- -cGCgGAGCcGGGCUGCGAac-GCUGa -3'
miRNA:   3'- uuCG-CUUGaCCCGACGCUcaaCGACc -5'
30147 3' -55.5 NC_006273.1 + 145610 0.67 0.92494
Target:  5'- cGAGCGAcgguCUGGGCgGCGGucgUGgUGGu -3'
miRNA:   3'- -UUCGCUu---GACCCGaCGCUca-ACgACC- -5'
30147 3' -55.5 NC_006273.1 + 189888 0.67 0.919474
Target:  5'- uGGCGcAGCUGGGCcGUGAaaaccaGCUGGu -3'
miRNA:   3'- uUCGC-UUGACCCGaCGCUcaa---CGACC- -5'
30147 3' -55.5 NC_006273.1 + 69083 0.68 0.901057
Target:  5'- cAGGCGAcgacuucGCUGGGCgccuuuacacGCGGGUUGaacgcaCUGGa -3'
miRNA:   3'- -UUCGCU-------UGACCCGa---------CGCUCAAC------GACC- -5'
30147 3' -55.5 NC_006273.1 + 18808 0.68 0.881849
Target:  5'- -cGCGGAUUGcGCgGCGAGUgucgGUUGGa -3'
miRNA:   3'- uuCGCUUGACcCGaCGCUCAa---CGACC- -5'
30147 3' -55.5 NC_006273.1 + 81132 0.69 0.867534
Target:  5'- cGGCGuACgagGGGUUGCGGauGgaGCUGGg -3'
miRNA:   3'- uUCGCuUGa--CCCGACGCU--CaaCGACC- -5'
30147 3' -55.5 NC_006273.1 + 22431 0.69 0.836469
Target:  5'- aAGGCGGACauUGGGCUGUGGuucauGUUuCUGGu -3'
miRNA:   3'- -UUCGCUUG--ACCCGACGCU-----CAAcGACC- -5'
30147 3' -55.5 NC_006273.1 + 193638 0.7 0.819819
Target:  5'- cAGCGAGuCUGGGCgucGaugGAG-UGCUGGg -3'
miRNA:   3'- uUCGCUU-GACCCGa--Cg--CUCaACGACC- -5'
30147 3' -55.5 NC_006273.1 + 179779 0.7 0.81124
Target:  5'- cGGCGAcgUGGGUcGCGAGUucaUGUUGGc -3'
miRNA:   3'- uUCGCUugACCCGaCGCUCA---ACGACC- -5'
30147 3' -55.5 NC_006273.1 + 84299 0.7 0.81124
Target:  5'- cGGCGAcaaGCUGuGGCUGCacacggagcacGGGcUGCUGGu -3'
miRNA:   3'- uUCGCU---UGAC-CCGACG-----------CUCaACGACC- -5'
30147 3' -55.5 NC_006273.1 + 40899 0.7 0.793614
Target:  5'- cGGGCGuGCUGGGCgccgGCccgguaacggGAGUUacGCUGGg -3'
miRNA:   3'- -UUCGCuUGACCCGa---CG----------CUCAA--CGACC- -5'
30147 3' -55.5 NC_006273.1 + 198688 0.7 0.788212
Target:  5'- -cGCGGccgcuaccuacguucGCUGcuGGCUuuccGCGAGUUGCUGGc -3'
miRNA:   3'- uuCGCU---------------UGAC--CCGA----CGCUCAACGACC- -5'
30147 3' -55.5 NC_006273.1 + 26882 0.71 0.737592
Target:  5'- cAGCGGAUUGGGUaG-GGGUUGCUGcGg -3'
miRNA:   3'- uUCGCUUGACCCGaCgCUCAACGAC-C- -5'
30147 3' -55.5 NC_006273.1 + 55652 0.72 0.727888
Target:  5'- cGAGCuaGGCUGGGCUGCGuGUcGCgacUGGg -3'
miRNA:   3'- -UUCGc-UUGACCCGACGCuCAaCG---ACC- -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.