miRNA display CGI


Results 1 - 20 of 21 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
7244 3' -56.6 NC_001900.1 + 32170 0.66 0.659199
Target:  5'- aGCGGCGCGgcgAUGGCGACGaucCcGACg -3'
miRNA:   3'- gUGCUGCGCa--UGCUGCUGCcc-GaCUG- -5'
7244 3' -56.6 NC_001900.1 + 13971 0.66 0.61567
Target:  5'- uCGCGACGaGgaccACGACGACuacGCUGACc -3'
miRNA:   3'- -GUGCUGCgCa---UGCUGCUGcc-CGACUG- -5'
7244 3' -56.6 NC_001900.1 + 14151 0.66 0.614583
Target:  5'- cUACGACGUGUcccGCGuccggGCGGCGGGUcgcaagcUGAa -3'
miRNA:   3'- -GUGCUGCGCA---UGC-----UGCUGCCCG-------ACUg -5'
7244 3' -56.6 NC_001900.1 + 8897 0.67 0.598288
Target:  5'- uCGCGGCGCGUcacccgcacagagucGCGGCaGCGGuccuGCUGgACg -3'
miRNA:   3'- -GUGCUGCGCA---------------UGCUGcUGCC----CGAC-UG- -5'
7244 3' -56.6 NC_001900.1 + 36297 0.67 0.593952
Target:  5'- cCACGACGUGgucgcugAgGAUggucgGACGGGC-GACg -3'
miRNA:   3'- -GUGCUGCGCa------UgCUG-----CUGCCCGaCUG- -5'
7244 3' -56.6 NC_001900.1 + 19370 0.67 0.583136
Target:  5'- cCGCGAaGCagguCGugGACGGGUUcGACa -3'
miRNA:   3'- -GUGCUgCGcau-GCugCUGCCCGA-CUG- -5'
7244 3' -56.6 NC_001900.1 + 22205 0.67 0.582057
Target:  5'- aGCGAUGCucgcacaGUACGAacgaGACGGGUgGAUc -3'
miRNA:   3'- gUGCUGCG-------CAUGCUg---CUGCCCGaCUG- -5'
7244 3' -56.6 NC_001900.1 + 23605 0.67 0.550959
Target:  5'- gGCGGCucagGCcgGUGCGACGACcaaGGaGCUGAUg -3'
miRNA:   3'- gUGCUG----CG--CAUGCUGCUG---CC-CGACUG- -5'
7244 3' -56.6 NC_001900.1 + 10927 0.68 0.519345
Target:  5'- gACGACGCuggggucgaGUACGACGugGucgacCUGACg -3'
miRNA:   3'- gUGCUGCG---------CAUGCUGCugCcc---GACUG- -5'
7244 3' -56.6 NC_001900.1 + 1333 0.68 0.508964
Target:  5'- cCGCGcagaaGCGUGCGGCGuucaACGcGCUGGCg -3'
miRNA:   3'- -GUGCug---CGCAUGCUGC----UGCcCGACUG- -5'
7244 3' -56.6 NC_001900.1 + 1245 0.68 0.498671
Target:  5'- --gGugGCG-GCGGCaGCGGaGCUGGCg -3'
miRNA:   3'- gugCugCGCaUGCUGcUGCC-CGACUG- -5'
7244 3' -56.6 NC_001900.1 + 2731 0.69 0.458487
Target:  5'- gCGCGGCaacccguccGCGUGgGACGACGaGGUcggUGACc -3'
miRNA:   3'- -GUGCUG---------CGCAUgCUGCUGC-CCG---ACUG- -5'
7244 3' -56.6 NC_001900.1 + 12457 0.7 0.410806
Target:  5'- uCGCGAUgGCGUuCGACGGCGcGGC-GAUg -3'
miRNA:   3'- -GUGCUG-CGCAuGCUGCUGC-CCGaCUG- -5'
7244 3' -56.6 NC_001900.1 + 13010 0.7 0.410806
Target:  5'- aACGugGUcaGCGGCGGCggcgaGGGCUGAg -3'
miRNA:   3'- gUGCugCGcaUGCUGCUG-----CCCGACUg -5'
7244 3' -56.6 NC_001900.1 + 20498 0.7 0.401645
Target:  5'- cCACGACgGCGa--GugGGCGuGGCUGAa -3'
miRNA:   3'- -GUGCUG-CGCaugCugCUGC-CCGACUg -5'
7244 3' -56.6 NC_001900.1 + 8153 0.71 0.375824
Target:  5'- cUACGGCGCGaaguuggucgagucCGAgGACGGGCUG-Ca -3'
miRNA:   3'- -GUGCUGCGCau------------GCUgCUGCCCGACuG- -5'
7244 3' -56.6 NC_001900.1 + 8302 0.71 0.341279
Target:  5'- cCugGugGUGguucacgGCGGCGcucGCGGcGCUGACg -3'
miRNA:   3'- -GugCugCGCa------UGCUGC---UGCC-CGACUG- -5'
7244 3' -56.6 NC_001900.1 + 47065 0.72 0.309845
Target:  5'- aCGCGcccACGC-UGCGACGuagguCGGGCUGAa -3'
miRNA:   3'- -GUGC---UGCGcAUGCUGCu----GCCCGACUg -5'
7244 3' -56.6 NC_001900.1 + 29450 0.73 0.253712
Target:  5'- aCGCGACGaucuCGU-CGugGAUGGGCaGACg -3'
miRNA:   3'- -GUGCUGC----GCAuGCugCUGCCCGaCUG- -5'
7244 3' -56.6 NC_001900.1 + 43632 0.75 0.185474
Target:  5'- uGCGGCGCGUACGGCGAcuucagcuuCGGGUcguUGGg -3'
miRNA:   3'- gUGCUGCGCAUGCUGCU---------GCCCG---ACUg -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.