miRNA display CGI


Results 21 - 39 of 39 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
11033 3' -54.8 NC_002794.1 + 123504 0.67 0.935565
Target:  5'- uGuGCAuCGCcgGGCUGC-CGGcCUGCAg -3'
miRNA:   3'- gCuCGUuGCGa-CCGACGaGCU-GAUGU- -5'
11033 3' -54.8 NC_002794.1 + 119447 0.67 0.935565
Target:  5'- -cGGCGGCGgUGGCgGCgUCGACUuCGa -3'
miRNA:   3'- gcUCGUUGCgACCGaCG-AGCUGAuGU- -5'
11033 3' -54.8 NC_002794.1 + 130457 0.67 0.930537
Target:  5'- uGGGCGgcgagGCGCUGGCgGCUUGcgUGCGc -3'
miRNA:   3'- gCUCGU-----UGCGACCGaCGAGCugAUGU- -5'
11033 3' -54.8 NC_002794.1 + 60319 0.67 0.93751
Target:  5'- uGGGCGACGUccucuacaaccUGGCgcaccgcgaccgcCUCGGCUACAa -3'
miRNA:   3'- gCUCGUUGCG-----------ACCGac-----------GAGCUGAUGU- -5'
11033 3' -54.8 NC_002794.1 + 92421 0.67 0.940356
Target:  5'- cCGAGCAcgggcgaggacACGCUGGCcgUGCggGGCcGCGc -3'
miRNA:   3'- -GCUCGU-----------UGCGACCG--ACGagCUGaUGU- -5'
11033 3' -54.8 NC_002794.1 + 179701 0.67 0.940356
Target:  5'- -cGGCGACGgUGGCgacGCcggCGGCUACc -3'
miRNA:   3'- gcUCGUUGCgACCGa--CGa--GCUGAUGu -5'
11033 3' -54.8 NC_002794.1 + 137990 0.68 0.901828
Target:  5'- --cGCAGCGCUGGUgcaGCUgGGCgcGCAg -3'
miRNA:   3'- gcuCGUUGCGACCGa--CGAgCUGa-UGU- -5'
11033 3' -54.8 NC_002794.1 + 184504 0.68 0.895381
Target:  5'- cCGGGCGGCGCgGGCcccGCgcgCGGCgcggGCGa -3'
miRNA:   3'- -GCUCGUUGCGaCCGa--CGa--GCUGa---UGU- -5'
11033 3' -54.8 NC_002794.1 + 15274 0.68 0.901828
Target:  5'- gCGAGCcGCGC-GGCUcccuccgcGCgagCGACUACu -3'
miRNA:   3'- -GCUCGuUGCGaCCGA--------CGa--GCUGAUGu -5'
11033 3' -54.8 NC_002794.1 + 148630 0.68 0.908042
Target:  5'- uGGGUcuccgauCGCggcGGCgUGCUCGGCUACGc -3'
miRNA:   3'- gCUCGuu-----GCGa--CCG-ACGAGCUGAUGU- -5'
11033 3' -54.8 NC_002794.1 + 30826 0.69 0.859791
Target:  5'- uCGAaCGACGuCUGGCUGgUCGGCggagGCu -3'
miRNA:   3'- -GCUcGUUGC-GACCGACgAGCUGa---UGu -5'
11033 3' -54.8 NC_002794.1 + 147413 0.69 0.87468
Target:  5'- aCGAGCGcuACGCguacccGCUGCUgcuggaCGGCUACGg -3'
miRNA:   3'- -GCUCGU--UGCGac----CGACGA------GCUGAUGU- -5'
11033 3' -54.8 NC_002794.1 + 15005 0.7 0.792588
Target:  5'- uCGGGCggUcucgGCUGGCUGCUCGuCg--- -3'
miRNA:   3'- -GCUCGuuG----CGACCGACGAGCuGaugu -5'
11033 3' -54.8 NC_002794.1 + 32252 0.7 0.835936
Target:  5'- --uGCAGCuGCUGGC-GCUCGACgGCc -3'
miRNA:   3'- gcuCGUUG-CGACCGaCGAGCUGaUGu -5'
11033 3' -54.8 NC_002794.1 + 92721 0.71 0.77418
Target:  5'- uCGAGCcugucGCGCUGGCUGCU--GCaGCAc -3'
miRNA:   3'- -GCUCGu----UGCGACCGACGAgcUGaUGU- -5'
11033 3' -54.8 NC_002794.1 + 90673 0.71 0.755266
Target:  5'- gGGGCcggcCGCgUGGCUGUUCGugUGCc -3'
miRNA:   3'- gCUCGuu--GCG-ACCGACGAGCugAUGu -5'
11033 3' -54.8 NC_002794.1 + 157650 0.71 0.745642
Target:  5'- cCGAGCAcgaucccgacGCGCUGGCggcuugggccGCUUGGCgUGCAc -3'
miRNA:   3'- -GCUCGU----------UGCGACCGa---------CGAGCUG-AUGU- -5'
11033 3' -54.8 NC_002794.1 + 124528 0.71 0.745642
Target:  5'- gGAGCcgccGACGCUGGC-GCUgCGGCUGa- -3'
miRNA:   3'- gCUCG----UUGCGACCGaCGA-GCUGAUgu -5'
11033 3' -54.8 NC_002794.1 + 150210 0.72 0.686135
Target:  5'- aCGAGCGGCuGCUGccgaGCUGCgugCGACgGCAg -3'
miRNA:   3'- -GCUCGUUG-CGAC----CGACGa--GCUGaUGU- -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.