miRNA display CGI


Results 1 - 20 of 64 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
13291 3' -52.5 NC_003409.1 + 103019 0.66 0.968864
Target:  5'- uAGGCUcuggCUAGCGGgcgcCugGCAGGgauGAGCc -3'
miRNA:   3'- -UCCGAa---GGUCGUC----GugCGUUUu--CUCG- -5'
13291 3' -52.5 NC_003409.1 + 60122 0.66 0.968864
Target:  5'- cGGuCUUUUuaacuuucgccaGGCGGCGCugcgGCGGGAGAGCc -3'
miRNA:   3'- uCC-GAAGG------------UCGUCGUG----CGUUUUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 87498 0.66 0.9656
Target:  5'- cGGUUUcCCGGCGGggaagcCACGCGc--GAGCa -3'
miRNA:   3'- uCCGAA-GGUCGUC------GUGCGUuuuCUCG- -5'
13291 3' -52.5 NC_003409.1 + 95599 0.66 0.954386
Target:  5'- gAGGCguccUCCAGCGGC-C-CAAAGGGa- -3'
miRNA:   3'- -UCCGa---AGGUCGUCGuGcGUUUUCUcg -5'
13291 3' -52.5 NC_003409.1 + 112428 0.66 0.962104
Target:  5'- cGGuGCUUUaauagGGCAGCcuCGCAGucGGGCg -3'
miRNA:   3'- -UC-CGAAGg----UCGUCGu-GCGUUuuCUCG- -5'
13291 3' -52.5 NC_003409.1 + 107800 0.66 0.953974
Target:  5'- aGGGCggcgCCugaaaaGGCuGCGCGUcgggcagAAAGGAGCg -3'
miRNA:   3'- -UCCGaa--GG------UCGuCGUGCG-------UUUUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 107028 0.66 0.954386
Target:  5'- aGGGCgUCCAG-GGCAucuCGCAGcAGGGUu -3'
miRNA:   3'- -UCCGaAGGUCgUCGU---GCGUUuUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 46846 0.66 0.954386
Target:  5'- uAGGCcUCCuGCAGCAUaugGCAA---GGCu -3'
miRNA:   3'- -UCCGaAGGuCGUCGUG---CGUUuucUCG- -5'
13291 3' -52.5 NC_003409.1 + 101534 0.66 0.954386
Target:  5'- cAGGCgUCCAagAGCGCGCGcugccucaAGGGGGUc -3'
miRNA:   3'- -UCCGaAGGUcgUCGUGCGU--------UUUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 120006 0.66 0.968864
Target:  5'- -cGCUUUUgucuguuggaAGCAGCuagGCGCGAcugaGAGAGCa -3'
miRNA:   3'- ucCGAAGG----------UCGUCG---UGCGUU----UUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 43639 0.66 0.958367
Target:  5'- cGGUaUCCucgcacaccgcGGcCAGCAUGUcgGAGAGCa -3'
miRNA:   3'- uCCGaAGG-----------UC-GUCGUGCGuuUUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 83067 0.66 0.962104
Target:  5'- cAGGCcUCCGGCGGC-UGCGGuuucucGAcGGCa -3'
miRNA:   3'- -UCCGaAGGUCGUCGuGCGUU------UUcUCG- -5'
13291 3' -52.5 NC_003409.1 + 24300 0.67 0.935927
Target:  5'- cAGGagccCCGGCAGCAC-CccAGGAGCc -3'
miRNA:   3'- -UCCgaa-GGUCGUCGUGcGuuUUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 24260 0.67 0.930664
Target:  5'- gAGGagccCCGGCAGCAC-CccAGGAGCc -3'
miRNA:   3'- -UCCgaa-GGUCGUCGUGcGuuUUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 132468 0.67 0.930664
Target:  5'- -uGCUUCCAGU-GCcaGCGUGGAGGGGUc -3'
miRNA:   3'- ucCGAAGGUCGuCG--UGCGUUUUCUCG- -5'
13291 3' -52.5 NC_003409.1 + 74067 0.67 0.930664
Target:  5'- gAGGCUUCUGGUugGGCgaGCGCcgGGAGGAacGCg -3'
miRNA:   3'- -UCCGAAGGUCG--UCG--UGCG--UUUUCU--CG- -5'
13291 3' -52.5 NC_003409.1 + 125152 0.67 0.935927
Target:  5'- cAGGaugagCAGCAGCA-GCAGGAuGAGCa -3'
miRNA:   3'- -UCCgaag-GUCGUCGUgCGUUUU-CUCG- -5'
13291 3' -52.5 NC_003409.1 + 125116 0.67 0.935927
Target:  5'- cAGGaugagCAGCAGCA-GCAGGAuGAGCa -3'
miRNA:   3'- -UCCgaag-GUCGUCGUgCGUUUU-CUCG- -5'
13291 3' -52.5 NC_003409.1 + 109162 0.67 0.935927
Target:  5'- uGGCcgCCGGCuGGgACGCAGGccGGGCg -3'
miRNA:   3'- uCCGaaGGUCG-UCgUGCGUUUu-CUCG- -5'
13291 3' -52.5 NC_003409.1 + 47132 0.67 0.936439
Target:  5'- uGGCaaucUCCgagcGGCAGUACGCucccuauuuuugacuGAAGGGCg -3'
miRNA:   3'- uCCGa---AGG----UCGUCGUGCGu--------------UUUCUCG- -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.