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
11530 3' -59.2 NC_003085.1 + 14041 0.66 0.430468
Target:  5'- aGCUACUgcgcgacgGCGUGUCcgUCGaGGCCAu -3'
miRNA:   3'- aCGAUGGa-------CGCGCGGa-AGCaCCGGUu -5'
11530 3' -59.2 NC_003085.1 + 26974 0.66 0.420898
Target:  5'- aGCUcgGCCUGCGCaGCCggcugGGCUAc -3'
miRNA:   3'- aCGA--UGGACGCG-CGGaagcaCCGGUu -5'
11530 3' -59.2 NC_003085.1 + 42835 0.66 0.401228
Target:  5'- cGCUGgCggcGCGCGUCUUCGUcuccccaccucccGGCCc- -3'
miRNA:   3'- aCGAUgGa--CGCGCGGAAGCA-------------CCGGuu -5'
11530 3' -59.2 NC_003085.1 + 35985 0.66 0.392978
Target:  5'- ---cGCCUGCGCGgCUggcCGUGGCa-- -3'
miRNA:   3'- acgaUGGACGCGCgGAa--GCACCGguu -5'
11530 3' -59.2 NC_003085.1 + 34797 0.66 0.392978
Target:  5'- aUGCcaucgguaUGCCa-CGCGCCgcCGUGGCCAu -3'
miRNA:   3'- -ACG--------AUGGacGCGCGGaaGCACCGGUu -5'
11530 3' -59.2 NC_003085.1 + 42524 0.66 0.392978
Target:  5'- cGCcACCUGCGUgGCCUcccgcuUCGccucGGCCAGc -3'
miRNA:   3'- aCGaUGGACGCG-CGGA------AGCa---CCGGUU- -5'
11530 3' -59.2 NC_003085.1 + 19764 0.67 0.383942
Target:  5'- aUGCcGCC-GCGCGCCUccagGGCCGc -3'
miRNA:   3'- -ACGaUGGaCGCGCGGAagcaCCGGUu -5'
11530 3' -59.2 NC_003085.1 + 12030 0.67 0.375046
Target:  5'- -cCUGCCggugcUGCGCGaCUUCGUGcGCCGc -3'
miRNA:   3'- acGAUGG-----ACGCGCgGAAGCAC-CGGUu -5'
11530 3' -59.2 NC_003085.1 + 11527 0.67 0.375046
Target:  5'- gGUUACCgGcCGCGCgUUCGUcgagcgccggGGCCAu -3'
miRNA:   3'- aCGAUGGaC-GCGCGgAAGCA----------CCGGUu -5'
11530 3' -59.2 NC_003085.1 + 11634 0.67 0.340876
Target:  5'- cUGCUACCaGCGCGCgCggagggCauugcgccggGUGGCCGAg -3'
miRNA:   3'- -ACGAUGGaCGCGCG-Gaa----G----------CACCGGUU- -5'
11530 3' -59.2 NC_003085.1 + 35032 0.68 0.332693
Target:  5'- gGCUuCCUGUgagGCGCCUcCGccGGCCAGc -3'
miRNA:   3'- aCGAuGGACG---CGCGGAaGCa-CCGGUU- -5'
11530 3' -59.2 NC_003085.1 + 40369 0.68 0.332693
Target:  5'- cUGCUGCCcgcgGCGCugacGCCUcuggCGcUGGCCGg -3'
miRNA:   3'- -ACGAUGGa---CGCG----CGGAa---GC-ACCGGUu -5'
11530 3' -59.2 NC_003085.1 + 31002 0.68 0.331883
Target:  5'- gGCUGCCUGuCGCaCCUucUCGUaugcgacGGCCGc -3'
miRNA:   3'- aCGAUGGAC-GCGcGGA--AGCA-------CCGGUu -5'
11530 3' -59.2 NC_003085.1 + 774 0.68 0.324655
Target:  5'- aGUUGCUUGCG-GCCUgcugcUGUGGCCc- -3'
miRNA:   3'- aCGAUGGACGCgCGGAa----GCACCGGuu -5'
11530 3' -59.2 NC_003085.1 + 11878 0.68 0.293958
Target:  5'- aUGCaucGCCUgaGCGCGCCgaguUCaUGGCCAGg -3'
miRNA:   3'- -ACGa--UGGA--CGCGCGGa---AGcACCGGUU- -5'
11530 3' -59.2 NC_003085.1 + 18974 0.69 0.28448
Target:  5'- cGCUuCCUGCGCagcaacGCCUUCGUccggugcaucgucgGGCCc- -3'
miRNA:   3'- aCGAuGGACGCG------CGGAAGCA--------------CCGGuu -5'
11530 3' -59.2 NC_003085.1 + 29724 0.69 0.279478
Target:  5'- cGCUACCUcgGCGuCGUCgcccaggaCGUGGCCGc -3'
miRNA:   3'- aCGAUGGA--CGC-GCGGaa------GCACCGGUu -5'
11530 3' -59.2 NC_003085.1 + 37856 0.69 0.272453
Target:  5'- cGCUGCCUGCGCugGCC-----GGCCAGa -3'
miRNA:   3'- aCGAUGGACGCG--CGGaagcaCCGGUU- -5'
11530 3' -59.2 NC_003085.1 + 16771 0.7 0.221289
Target:  5'- cGCUACCagacGaCGCGCCagcaGUGGCCAu -3'
miRNA:   3'- aCGAUGGa---C-GCGCGGaag-CACCGGUu -5'
11530 3' -59.2 NC_003085.1 + 26827 0.71 0.209846
Target:  5'- aUGCc-CCUGCGCGCCaggCGUGuGCCc- -3'
miRNA:   3'- -ACGauGGACGCGCGGaa-GCAC-CGGuu -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.