miRNA display CGI


Results 1 - 16 of 16 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
31388 3' -57.9 NC_006623.1 + 136858 1.08 0.001854
Target:  5'- gGGCGCGUGCCCUCCGCAAAGCGCAAAa -3'
miRNA:   3'- -CCGCGCACGGGAGGCGUUUCGCGUUU- -5'
31388 3' -57.9 NC_006623.1 + 92005 0.75 0.31114
Target:  5'- uGCGCGUGUCCUCCGCGu-GC-CAGGu -3'
miRNA:   3'- cCGCGCACGGGAGGCGUuuCGcGUUU- -5'
31388 3' -57.9 NC_006623.1 + 144068 0.71 0.488161
Target:  5'- cGGUGCcgacGUGCCUcCCGCAcguAGCGCAc- -3'
miRNA:   3'- -CCGCG----CACGGGaGGCGUu--UCGCGUuu -5'
31388 3' -57.9 NC_006623.1 + 117 0.71 0.517239
Target:  5'- uGGCGCGUuugGCCCcCUGCc-AGCGCGGc -3'
miRNA:   3'- -CCGCGCA---CGGGaGGCGuuUCGCGUUu -5'
31388 3' -57.9 NC_006623.1 + 117544 0.71 0.488161
Target:  5'- cGGUGCcgacGUGCCUcCCGCAcguAGCGCAc- -3'
miRNA:   3'- -CCGCG----CACGGGaGGCGUu--UCGCGUuu -5'
31388 3' -57.9 NC_006623.1 + 145757 0.7 0.557024
Target:  5'- cGCGCGUacgccuacgcgGCCCUCUGCGGAcGUGCc-- -3'
miRNA:   3'- cCGCGCA-----------CGGGAGGCGUUU-CGCGuuu -5'
31388 3' -57.9 NC_006623.1 + 13883 0.7 0.567116
Target:  5'- uGCaGCGUGUugCCUCCGCAcuuAGuCGCAAAg -3'
miRNA:   3'- cCG-CGCACG--GGAGGCGUu--UC-GCGUUU- -5'
31388 3' -57.9 NC_006623.1 + 115854 0.7 0.557024
Target:  5'- cGCGCGUacgccuacgcgGCCCUCUGCGGAcGUGCc-- -3'
miRNA:   3'- cCGCGCA-----------CGGGAGGCGUUU-CGCGuuu -5'
31388 3' -57.9 NC_006623.1 + 116682 0.68 0.699853
Target:  5'- cGUGaCGUGCUCgCUGCcGGGCGCGGAa -3'
miRNA:   3'- cCGC-GCACGGGaGGCGuUUCGCGUUU- -5'
31388 3' -57.9 NC_006623.1 + 138736 0.68 0.699853
Target:  5'- cGGCGCGcaaggcgGCCagguaUUCGCGAcGGCGCAu- -3'
miRNA:   3'- -CCGCGCa------CGGg----AGGCGUU-UCGCGUuu -5'
31388 3' -57.9 NC_006623.1 + 122875 0.68 0.699853
Target:  5'- cGGCGCGcaaggcgGCCagguaUUCGCGAcGGCGCAu- -3'
miRNA:   3'- -CCGCGCa------CGGg----AGGCGUU-UCGCGUuu -5'
31388 3' -57.9 NC_006623.1 + 144930 0.68 0.699853
Target:  5'- cGUGaCGUGCUCgCUGCcGGGCGCGGAa -3'
miRNA:   3'- cCGC-GCACGGGaGGCGuUUCGCGUUU- -5'
31388 3' -57.9 NC_006623.1 + 6893 0.67 0.743524
Target:  5'- cGGgGCGUGCaauauuaaaUUCUGCAcucggggcugcaaugGAGCGCGGAg -3'
miRNA:   3'- -CCgCGCACGg--------GAGGCGU---------------UUCGCGUUU- -5'
31388 3' -57.9 NC_006623.1 + 137429 0.67 0.768489
Target:  5'- cGGCgaGCGgaagacacGCCCUCCGCAuacGAGC-CAGc -3'
miRNA:   3'- -CCG--CGCa-------CGGGAGGCGU---UUCGcGUUu -5'
31388 3' -57.9 NC_006623.1 + 125289 0.66 0.796259
Target:  5'- aGGCGCucgacGCCUUCCGCGGucgGCAAAa -3'
miRNA:   3'- -CCGCGca---CGGGAGGCGUUucgCGUUU- -5'
31388 3' -57.9 NC_006623.1 + 136426 0.66 0.78714
Target:  5'- uGCGCGggGCaCUUCUuuuuccccacaaGCAGAGCGCAu- -3'
miRNA:   3'- cCGCGCa-CG-GGAGG------------CGUUUCGCGUuu -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.