miRNA display CGI


Results 1 - 20 of 21 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
12006 3' -55.1 NC_003278.1 + 19505 0.66 0.555294
Target:  5'- uGAGCGCGCgggugggguugccgGCggCGGCCAuCUGCUGa- -3'
miRNA:   3'- -UUUGCGUG--------------CGa-GUCGGUuGACGACcu -5'
12006 3' -55.1 NC_003278.1 + 35458 0.66 0.547334
Target:  5'- cAGCGCcCGCcaAGCCuGCUgGCUGGGg -3'
miRNA:   3'- uUUGCGuGCGagUCGGuUGA-CGACCU- -5'
12006 3' -55.1 NC_003278.1 + 13988 0.66 0.547334
Target:  5'- cGACGUGCGCccagUCAGCCGACaccugacccGcCUGGAc -3'
miRNA:   3'- uUUGCGUGCG----AGUCGGUUGa--------C-GACCU- -5'
12006 3' -55.1 NC_003278.1 + 32894 0.66 0.547334
Target:  5'- -cGCGCGUGCUCAGCCgGACgaagGGAg -3'
miRNA:   3'- uuUGCGUGCGAGUCGG-UUGacgaCCU- -5'
12006 3' -55.1 NC_003278.1 + 29114 0.66 0.513669
Target:  5'- cGACGC-CGC-CGGCUuGCUGCaGGGc -3'
miRNA:   3'- uUUGCGuGCGaGUCGGuUGACGaCCU- -5'
12006 3' -55.1 NC_003278.1 + 28734 0.66 0.513669
Target:  5'- aGGGCGCGCGcCUCGGUCAcccACcGCcGGGu -3'
miRNA:   3'- -UUUGCGUGC-GAGUCGGU---UGaCGaCCU- -5'
12006 3' -55.1 NC_003278.1 + 35512 0.66 0.502633
Target:  5'- ---aGCAgGCUUGGCgGgcGCUGCUGGu -3'
miRNA:   3'- uuugCGUgCGAGUCGgU--UGACGACCu -5'
12006 3' -55.1 NC_003278.1 + 20182 0.66 0.502633
Target:  5'- --cCGCAUGCUCGGC-GACUcGCUGa- -3'
miRNA:   3'- uuuGCGUGCGAGUCGgUUGA-CGACcu -5'
12006 3' -55.1 NC_003278.1 + 13004 0.67 0.491702
Target:  5'- aAggUGC-CGCcCGuGCCGgaACUGCUGGAg -3'
miRNA:   3'- -UuuGCGuGCGaGU-CGGU--UGACGACCU- -5'
12006 3' -55.1 NC_003278.1 + 4360 0.67 0.470178
Target:  5'- gGGACGCGCGCgCGGCcCAGCaaucaaGCgGGAu -3'
miRNA:   3'- -UUUGCGUGCGaGUCG-GUUGa-----CGaCCU- -5'
12006 3' -55.1 NC_003278.1 + 20358 0.67 0.470178
Target:  5'- aGAGCGCAucgaggUGC-CGGCCAuGCUGCccUGGAc -3'
miRNA:   3'- -UUUGCGU------GCGaGUCGGU-UGACG--ACCU- -5'
12006 3' -55.1 NC_003278.1 + 14529 0.67 0.466991
Target:  5'- -uGCGCGCGCUCccgcucucgacgcuGGCCuugaaGCUGGGc -3'
miRNA:   3'- uuUGCGUGCGAG--------------UCGGuuga-CGACCU- -5'
12006 3' -55.1 NC_003278.1 + 13812 0.68 0.418601
Target:  5'- uGGCGCuucacACGCUcCGGCCAGgUGCUGu- -3'
miRNA:   3'- uUUGCG-----UGCGA-GUCGGUUgACGACcu -5'
12006 3' -55.1 NC_003278.1 + 23222 0.68 0.389352
Target:  5'- cAGCGcCACGCUCAGCUAcgcGCUcGCcagGGGc -3'
miRNA:   3'- uUUGC-GUGCGAGUCGGU---UGA-CGa--CCU- -5'
12006 3' -55.1 NC_003278.1 + 10349 0.69 0.379904
Target:  5'- cAGAUGCuCGCcaaCGGCgAGCUGCUGGc -3'
miRNA:   3'- -UUUGCGuGCGa--GUCGgUUGACGACCu -5'
12006 3' -55.1 NC_003278.1 + 22696 0.69 0.370611
Target:  5'- -cGCGCcCGCUCAGCgGAcCUGCgcaaGGGc -3'
miRNA:   3'- uuUGCGuGCGAGUCGgUU-GACGa---CCU- -5'
12006 3' -55.1 NC_003278.1 + 32057 0.69 0.343676
Target:  5'- -cGCGuCugGCgagccgCGGCCGGCaccUGCUGGAc -3'
miRNA:   3'- uuUGC-GugCGa-----GUCGGUUG---ACGACCU- -5'
12006 3' -55.1 NC_003278.1 + 19656 0.7 0.326518
Target:  5'- cAGGCGCAgCGCuuacgcaaccUCAGCCAGCaGCaGGAg -3'
miRNA:   3'- -UUUGCGU-GCG----------AGUCGGUUGaCGaCCU- -5'
12006 3' -55.1 NC_003278.1 + 10297 0.74 0.159468
Target:  5'- cGACGaCACGCUCGGUCAGUUGCaGGAc -3'
miRNA:   3'- uUUGC-GUGCGAGUCGGUUGACGaCCU- -5'
12006 3' -55.1 NC_003278.1 + 10115 0.75 0.13784
Target:  5'- --cCGC-UGCUCGGCUGGCUGCUGGu -3'
miRNA:   3'- uuuGCGuGCGAGUCGGUUGACGACCu -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.