miRNA display CGI


Results 1 - 20 of 58 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
21336 3' -64.8 NC_004778.3 + 35139 0.67 0.425751
Target:  5'- uGCuGCCGGCCGaCGCaaauUGCGCgUugcacaCCGUGc -3'
miRNA:   3'- -CG-CGGCCGGC-GCG----ACGCGgA------GGCACc -5'
21336 3' -64.8 NC_004778.3 + 10721 0.69 0.347166
Target:  5'- -gGuuGGaCCGCuguucGCUGCGCgCUCCGcGGg -3'
miRNA:   3'- cgCggCC-GGCG-----CGACGCG-GAGGCaCC- -5'
21336 3' -64.8 NC_004778.3 + 98721 0.69 0.354542
Target:  5'- gGCaGCCGGCCGCggccGCaGCGUgCUUCGUGu -3'
miRNA:   3'- -CG-CGGCCGGCG----CGaCGCG-GAGGCACc -5'
21336 3' -64.8 NC_004778.3 + 32276 0.68 0.385135
Target:  5'- aCGCUGGCCG-GCgGCGCCgugUCG-GGc -3'
miRNA:   3'- cGCGGCCGGCgCGaCGCGGa--GGCaCC- -5'
21336 3' -64.8 NC_004778.3 + 34161 0.68 0.398656
Target:  5'- uCGCCGGCgGCgacaaGCUGCGCagcaugcaggacgugCUGUGGc -3'
miRNA:   3'- cGCGGCCGgCG-----CGACGCGga-------------GGCACC- -5'
21336 3' -64.8 NC_004778.3 + 81773 0.68 0.401073
Target:  5'- uGCGCCGGUagGUGC-GCGgCCUgCCG-GGg -3'
miRNA:   3'- -CGCGGCCGg-CGCGaCGC-GGA-GGCaCC- -5'
21336 3' -64.8 NC_004778.3 + 38141 0.68 0.409198
Target:  5'- aGCGCaGGCC-CGCUGCGCCgCuCGa-- -3'
miRNA:   3'- -CGCGgCCGGcGCGACGCGGaG-GCacc -5'
21336 3' -64.8 NC_004778.3 + 49389 0.68 0.409198
Target:  5'- gGgGCCGGCCaGCGCcGCGUaCUCgGUa- -3'
miRNA:   3'- -CgCGGCCGG-CGCGaCGCG-GAGgCAcc -5'
21336 3' -64.8 NC_004778.3 + 48638 0.68 0.409198
Target:  5'- cGCGaCCGGCCGuUGCcGCGUCUauaaccgcgaUUGUGGu -3'
miRNA:   3'- -CGC-GGCCGGC-GCGaCGCGGA----------GGCACC- -5'
21336 3' -64.8 NC_004778.3 + 14542 0.69 0.332037
Target:  5'- cGUGCCGGacgaCCGCGCguccaugUGCGCCagcaUUGUGGa -3'
miRNA:   3'- -CGCGGCC----GGCGCG-------ACGCGGa---GGCACC- -5'
21336 3' -64.8 NC_004778.3 + 51138 0.69 0.325704
Target:  5'- aCGCCGGCgCGCgGCUGaagcacuuugcCGCCUUCGUa- -3'
miRNA:   3'- cGCGGCCG-GCG-CGAC-----------GCGGAGGCAcc -5'
21336 3' -64.8 NC_004778.3 + 77393 0.69 0.318771
Target:  5'- cGCGCCGGCCGCGU--CGCU--UGUGa -3'
miRNA:   3'- -CGCGGCCGGCGCGacGCGGagGCACc -5'
21336 3' -64.8 NC_004778.3 + 125985 0.73 0.189136
Target:  5'- aGCGCaugaaGGCCGCGCaUGaCGCUg-CGUGGg -3'
miRNA:   3'- -CGCGg----CCGGCGCG-AC-GCGGagGCACC- -5'
21336 3' -64.8 NC_004778.3 + 38610 0.72 0.212676
Target:  5'- aGCGCCGGCCGuCGCaaaaaUG-GCUUCCauuGUGGc -3'
miRNA:   3'- -CGCGGCCGGC-GCG-----ACgCGGAGG---CACC- -5'
21336 3' -64.8 NC_004778.3 + 121429 0.72 0.212676
Target:  5'- cGCGUCGGCCGUGU--CGCCgCCGUcGGc -3'
miRNA:   3'- -CGCGGCCGGCGCGacGCGGaGGCA-CC- -5'
21336 3' -64.8 NC_004778.3 + 61715 0.71 0.244202
Target:  5'- -aGuuGGCCGuCGUUGCGCCUCaCGa-- -3'
miRNA:   3'- cgCggCCGGC-GCGACGCGGAG-GCacc -5'
21336 3' -64.8 NC_004778.3 + 120967 0.71 0.244202
Target:  5'- gGCGCgGGCCGCGCccGCuGCC-CCGg-- -3'
miRNA:   3'- -CGCGgCCGGCGCGa-CG-CGGaGGCacc -5'
21336 3' -64.8 NC_004778.3 + 64161 0.7 0.285781
Target:  5'- cGCGCCcguGGCCGCcgaGCuUGaCGCgUUCGUGGu -3'
miRNA:   3'- -CGCGG---CCGGCG---CG-AC-GCGgAGGCACC- -5'
21336 3' -64.8 NC_004778.3 + 17096 0.7 0.304577
Target:  5'- -gGCCGuGUugcugugCGCGCggcGCGCCUaCCGUGGc -3'
miRNA:   3'- cgCGGC-CG-------GCGCGa--CGCGGA-GGCACC- -5'
21336 3' -64.8 NC_004778.3 + 9035 0.7 0.314666
Target:  5'- gGCGCCGucgcacaaguuaaccGCCGCGCUcgaGCGCCggcucaaugagUCCGUcgacGGa -3'
miRNA:   3'- -CGCGGC---------------CGGCGCGA---CGCGG-----------AGGCA----CC- -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.