miRNA display CGI


Results 1 - 20 of 23 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
4181 5' -49.9 NC_001664.1 + 156064 0.66 0.997388
Target:  5'- aGCAGccAGUCgaagcgGGCAcGGgCUCGCGCg -3'
miRNA:   3'- gCGUUuuUCAGa-----CCGU-UUgGGGUGCG- -5'
4181 5' -49.9 NC_001664.1 + 4982 0.66 0.997388
Target:  5'- aGCAGccAGUCgaagcgGGCAcGGgCUCGCGCg -3'
miRNA:   3'- gCGUUuuUCAGa-----CCGU-UUgGGGUGCG- -5'
4181 5' -49.9 NC_001664.1 + 154390 0.66 0.997388
Target:  5'- gCGCAGGcgcGUCgacgGGCAGuCCCUcggACGCc -3'
miRNA:   3'- -GCGUUUuu-CAGa---CCGUUuGGGG---UGCG- -5'
4181 5' -49.9 NC_001664.1 + 3308 0.66 0.997388
Target:  5'- gCGCAGGcgcGUCgacgGGCAGuCCCUcggACGCc -3'
miRNA:   3'- -GCGUUUuu-CAGa---CCGUUuGGGG---UGCG- -5'
4181 5' -49.9 NC_001664.1 + 142601 0.66 0.995714
Target:  5'- aGCGGAGAauaaagCUGGCAGACCCUc--- -3'
miRNA:   3'- gCGUUUUUca----GACCGUUUGGGGugcg -5'
4181 5' -49.9 NC_001664.1 + 152511 0.67 0.994992
Target:  5'- uGCGGAGAGggcggaUGGCuu-CCCUuCGCg -3'
miRNA:   3'- gCGUUUUUCag----ACCGuuuGGGGuGCG- -5'
4181 5' -49.9 NC_001664.1 + 1429 0.67 0.994992
Target:  5'- uGCGGAGAGggcggaUGGCuu-CCCUuCGCg -3'
miRNA:   3'- gCGUUUUUCag----ACCGuuuGGGGuGCG- -5'
4181 5' -49.9 NC_001664.1 + 119434 0.67 0.992217
Target:  5'- uGUAuAAGAGUCUGcauCAAGCUUCACGUg -3'
miRNA:   3'- gCGU-UUUUCAGACc--GUUUGGGGUGCG- -5'
4181 5' -49.9 NC_001664.1 + 155109 0.67 0.991059
Target:  5'- uCGCGAcgGGcCgGcGCAGACCCUGcCGCg -3'
miRNA:   3'- -GCGUUuuUCaGaC-CGUUUGGGGU-GCG- -5'
4181 5' -49.9 NC_001664.1 + 4027 0.67 0.991059
Target:  5'- uCGCGAcgGGcCgGcGCAGACCCUGcCGCg -3'
miRNA:   3'- -GCGUUuuUCaGaC-CGUUUGGGGU-GCG- -5'
4181 5' -49.9 NC_001664.1 + 157596 0.68 0.985018
Target:  5'- gGCAAGAucugucGUCUGGCAAACUcguuuuCCACc- -3'
miRNA:   3'- gCGUUUUu-----CAGACCGUUUGG------GGUGcg -5'
4181 5' -49.9 NC_001664.1 + 6514 0.68 0.985018
Target:  5'- gGCAAGAucugucGUCUGGCAAACUcguuuuCCACc- -3'
miRNA:   3'- gCGUUUUu-----CAGACCGUUUGG------GGUGcg -5'
4181 5' -49.9 NC_001664.1 + 5171 0.69 0.980801
Target:  5'- aCGCAucuGGGUCucacgugcgucgcUGGCcAACCCCA-GCg -3'
miRNA:   3'- -GCGUuu-UUCAG-------------ACCGuUUGGGGUgCG- -5'
4181 5' -49.9 NC_001664.1 + 156253 0.69 0.980801
Target:  5'- aCGCAucuGGGUCucacgugcgucgcUGGCcAACCCCA-GCg -3'
miRNA:   3'- -GCGUuu-UUCAG-------------ACCGuUUGGGGUgCG- -5'
4181 5' -49.9 NC_001664.1 + 155834 0.69 0.971891
Target:  5'- aCGCAucucGGUCcGGCGcaacgaggcgagacuGGCCCaCGCGCg -3'
miRNA:   3'- -GCGUuuu-UCAGaCCGU---------------UUGGG-GUGCG- -5'
4181 5' -49.9 NC_001664.1 + 4753 0.69 0.971891
Target:  5'- aCGCAucucGGUCcGGCGcaacgaggcgagacuGGCCCaCGCGCg -3'
miRNA:   3'- -GCGUuuu-UCAGaCCGU---------------UUGGG-GUGCG- -5'
4181 5' -49.9 NC_001664.1 + 2920 0.7 0.964269
Target:  5'- aGCAGcAGAGUCcGGCGcACgCaCACGCg -3'
miRNA:   3'- gCGUU-UUUCAGaCCGUuUGgG-GUGCG- -5'
4181 5' -49.9 NC_001664.1 + 154001 0.7 0.964269
Target:  5'- aGCAGcAGAGUCcGGCGcACgCaCACGCg -3'
miRNA:   3'- gCGUU-UUUCAGaCCGUuUGgG-GUGCG- -5'
4181 5' -49.9 NC_001664.1 + 3143 0.73 0.881453
Target:  5'- gGCGGucgauGUCUGGCGuguugucgugcguGCUCCGCGCg -3'
miRNA:   3'- gCGUUuuu--CAGACCGUu------------UGGGGUGCG- -5'
4181 5' -49.9 NC_001664.1 + 154225 0.73 0.881453
Target:  5'- gGCGGucgauGUCUGGCGuguugucgugcguGCUCCGCGCg -3'
miRNA:   3'- gCGUUuuu--CAGACCGUu------------UGGGGUGCG- -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.