miRNA display CGI


Results 1 - 20 of 22 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
7259 5' -56.6 NC_001900.1 + 37040 0.66 0.626967
Target:  5'- cCGGCaaGGCaUCAAGCCCcacaccuGGGGCuacgGAg -3'
miRNA:   3'- -GCUG--CCGcAGUUCGGGu------UCCCGua--CU- -5'
7259 5' -56.6 NC_001900.1 + 46006 0.66 0.626967
Target:  5'- aGGCGGUGUCu--UCCAGGGGUucAUGc -3'
miRNA:   3'- gCUGCCGCAGuucGGGUUCCCG--UACu -5'
7259 5' -56.6 NC_001900.1 + 33727 0.66 0.625865
Target:  5'- -cACGGCcaacGUCGAcccggacGCCUacGAGGGCGUGGa -3'
miRNA:   3'- gcUGCCG----CAGUU-------CGGG--UUCCCGUACU- -5'
7259 5' -56.6 NC_001900.1 + 11585 0.66 0.572121
Target:  5'- -uGCGGUGUCGGacauguguuuucGCCUccuGGGCAUGGu -3'
miRNA:   3'- gcUGCCGCAGUU------------CGGGuu-CCCGUACU- -5'
7259 5' -56.6 NC_001900.1 + 33553 0.67 0.561265
Target:  5'- uGACGGUGUCGAugaagaguGCgCCAAcGGcGCAUGc -3'
miRNA:   3'- gCUGCCGCAGUU--------CG-GGUU-CC-CGUACu -5'
7259 5' -56.6 NC_001900.1 + 9555 0.67 0.550467
Target:  5'- gGACGuaaGCGUCGguguAGCCCAgcGGGGCcucGAu -3'
miRNA:   3'- gCUGC---CGCAGU----UCGGGU--UCCCGua-CU- -5'
7259 5' -56.6 NC_001900.1 + 2573 0.67 0.550467
Target:  5'- uGAgGGCGU--AGCCCGAcGGCggGAa -3'
miRNA:   3'- gCUgCCGCAguUCGGGUUcCCGuaCU- -5'
7259 5' -56.6 NC_001900.1 + 21134 0.67 0.539733
Target:  5'- aCGACGuGCG--GAGCCCucGGGC-UGGu -3'
miRNA:   3'- -GCUGC-CGCagUUCGGGuuCCCGuACU- -5'
7259 5' -56.6 NC_001900.1 + 6721 0.67 0.529071
Target:  5'- uCGGCaGGCagGcCAGGCCCGAGGGgAUcGGg -3'
miRNA:   3'- -GCUG-CCG--CaGUUCGGGUUCCCgUA-CU- -5'
7259 5' -56.6 NC_001900.1 + 25782 0.67 0.518488
Target:  5'- uCGuCGGCaacaccaagaccGUCAGGUCCAAGcGGCcgGUGAc -3'
miRNA:   3'- -GCuGCCG------------CAGUUCGGGUUC-CCG--UACU- -5'
7259 5' -56.6 NC_001900.1 + 36271 0.68 0.497582
Target:  5'- aCGACGGCGUCGu-CCCGgagAGGGguUc- -3'
miRNA:   3'- -GCUGCCGCAGUucGGGU---UCCCguAcu -5'
7259 5' -56.6 NC_001900.1 + 15173 0.68 0.487271
Target:  5'- gGGCGGCGauucCGAGgUCAAGGGCuccUGGc -3'
miRNA:   3'- gCUGCCGCa---GUUCgGGUUCCCGu--ACU- -5'
7259 5' -56.6 NC_001900.1 + 32317 0.69 0.447096
Target:  5'- cCGAUGGuCGUCAcgGGCaaCCAccGGGCGUGGc -3'
miRNA:   3'- -GCUGCC-GCAGU--UCG--GGUu-CCCGUACU- -5'
7259 5' -56.6 NC_001900.1 + 28260 0.69 0.437341
Target:  5'- uCGACGGa-UCAGGUCCGggAGGGCuccGUGGa -3'
miRNA:   3'- -GCUGCCgcAGUUCGGGU--UCCCG---UACU- -5'
7259 5' -56.6 NC_001900.1 + 35942 0.69 0.424845
Target:  5'- uCGGCGGCucguagagguacucGUCGcgcAGCCCGGGGugcucgaccaGCAUGAu -3'
miRNA:   3'- -GCUGCCG--------------CAGU---UCGGGUUCC----------CGUACU- -5'
7259 5' -56.6 NC_001900.1 + 36887 0.69 0.418206
Target:  5'- uGACGGCaaccacGUCAAGCCCGAGcuGGUuccGAu -3'
miRNA:   3'- gCUGCCG------CAGUUCGGGUUC--CCGua-CU- -5'
7259 5' -56.6 NC_001900.1 + 15468 0.69 0.40883
Target:  5'- uGugGGCGUgGuGgCCAAGGcGCAUGu -3'
miRNA:   3'- gCugCCGCAgUuCgGGUUCC-CGUACu -5'
7259 5' -56.6 NC_001900.1 + 14532 0.7 0.361403
Target:  5'- aGGCGGUuucguGUCGGuGCCCGcgaagaacccggacGGGGCGUGGc -3'
miRNA:   3'- gCUGCCG-----CAGUU-CGGGU--------------UCCCGUACU- -5'
7259 5' -56.6 NC_001900.1 + 10430 0.72 0.284937
Target:  5'- uGGCGGCGUC-AGCCUucGcGGCGUa- -3'
miRNA:   3'- gCUGCCGCAGuUCGGGuuC-CCGUAcu -5'
7259 5' -56.6 NC_001900.1 + 1744 0.72 0.26879
Target:  5'- uGuACGGCaGcaccaagcucuaccUCAAGCCCGAGGuGCGUGAc -3'
miRNA:   3'- gC-UGCCG-C--------------AGUUCGGGUUCC-CGUACU- -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.