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
6113 3' -65.3 NC_001826.1 + 21695 0.66 0.445789
Target:  5'- gUCUCCCugauuuugaaugacAACGaUgUCAGGGCGGCCGc -3'
miRNA:   3'- aGGAGGG--------------UUGCcGgGGUCCCGCCGGU- -5'
6113 3' -65.3 NC_001826.1 + 28085 0.66 0.439698
Target:  5'- aCCUCCC--CGGCCCCcucccgagcuGGGGCccGGUUc -3'
miRNA:   3'- aGGAGGGuuGCCGGGG----------UCCCG--CCGGu -5'
6113 3' -65.3 NC_001826.1 + 28126 0.66 0.439698
Target:  5'- aCCUCCC--CGGCCCCcucccgagcuGGGGCccGGUUc -3'
miRNA:   3'- aGGAGGGuuGCCGGGG----------UCCCG--CCGGu -5'
6113 3' -65.3 NC_001826.1 + 20618 0.66 0.431079
Target:  5'- aCUUUUCAaggaGgGGCCCaCAGGGCgGGCUAa -3'
miRNA:   3'- aGGAGGGU----UgCCGGG-GUCCCG-CCGGU- -5'
6113 3' -65.3 NC_001826.1 + 118451 0.66 0.414144
Target:  5'- cUCC-CCCGACcccaGCCCCcucGGCGGCUc -3'
miRNA:   3'- -AGGaGGGUUGc---CGGGGuc-CCGCCGGu -5'
6113 3' -65.3 NC_001826.1 + 118765 0.66 0.397624
Target:  5'- aCC-CCCGGCgaacccGGCCCCGGGGacgcgggggaGGCUu -3'
miRNA:   3'- aGGaGGGUUG------CCGGGGUCCCg---------CCGGu -5'
6113 3' -65.3 NC_001826.1 + 118947 0.67 0.381533
Target:  5'- cCCggCCCGccGCGGCCCguccuCAGGcccgggcgguaGCGGCCGc -3'
miRNA:   3'- aGGa-GGGU--UGCCGGG-----GUCC-----------CGCCGGU- -5'
6113 3' -65.3 NC_001826.1 + 4624 0.67 0.381533
Target:  5'- aCCgUCCCAGCGaGCCCUGGaucuuaGGCCAa -3'
miRNA:   3'- aGG-AGGGUUGC-CGGGGUCccg---CCGGU- -5'
6113 3' -65.3 NC_001826.1 + 31585 0.67 0.381533
Target:  5'- uUCUUCUCuguuACcugCCCAGGGCGGCCu -3'
miRNA:   3'- -AGGAGGGu---UGccgGGGUCCCGCCGGu -5'
6113 3' -65.3 NC_001826.1 + 114876 0.67 0.365882
Target:  5'- aCUUUCC-AUGGCCCCAGGGa-GCUc -3'
miRNA:   3'- aGGAGGGuUGCCGGGGUCCCgcCGGu -5'
6113 3' -65.3 NC_001826.1 + 34008 0.67 0.365882
Target:  5'- -aCUCagCAGCaGCCuCCAGGGCGGUg- -3'
miRNA:   3'- agGAGg-GUUGcCGG-GGUCCCGCCGgu -5'
6113 3' -65.3 NC_001826.1 + 118948 0.68 0.321642
Target:  5'- cCCUCCC--CGGgCCCGGGGCccCCAc -3'
miRNA:   3'- aGGAGGGuuGCCgGGGUCCCGccGGU- -5'
6113 3' -65.3 NC_001826.1 + 2552 0.68 0.301068
Target:  5'- gCCagguuggCCCAGUGGCguuUCCAGGGCcGGCCAg -3'
miRNA:   3'- aGGa------GGGUUGCCG---GGGUCCCG-CCGGU- -5'
6113 3' -65.3 NC_001826.1 + 118921 0.69 0.281525
Target:  5'- gCCUCCCccGCGuCCCCGGGGCcggguucGCCGg -3'
miRNA:   3'- aGGAGGGu-UGCcGGGGUCCCGc------CGGU- -5'
6113 3' -65.3 NC_001826.1 + 119394 0.69 0.273373
Target:  5'- cUCCUCCUGGCGcccccuacuguuguGUCCaggggCAGGGUGGCCGc -3'
miRNA:   3'- -AGGAGGGUUGC--------------CGGG-----GUCCCGCCGGU- -5'
6113 3' -65.3 NC_001826.1 + 119133 0.7 0.24548
Target:  5'- -gCgggCgCAugGcGCCCCAGGcGCGGCCGc -3'
miRNA:   3'- agGa--GgGUugC-CGGGGUCC-CGCCGGU- -5'
6113 3' -65.3 NC_001826.1 + 37471 0.7 0.228939
Target:  5'- aCCUCCCAGUGGCuCCCgAGGuGCuaGGCCc -3'
miRNA:   3'- aGGAGGGUUGCCG-GGG-UCC-CG--CCGGu -5'
6113 3' -65.3 NC_001826.1 + 69480 0.71 0.21335
Target:  5'- ---gCCCGggGCGGCCCUuGGuGCGGCCGa -3'
miRNA:   3'- aggaGGGU--UGCCGGGGuCC-CGCCGGU- -5'
6113 3' -65.3 NC_001826.1 + 101988 0.71 0.203471
Target:  5'- cCCUCCCcACcgaaCCCCGGGGCGGUUu -3'
miRNA:   3'- aGGAGGGuUGcc--GGGGUCCCGCCGGu -5'
6113 3' -65.3 NC_001826.1 + 119179 0.72 0.184899
Target:  5'- gCC-CCCAGCcccgGGUCuCCAGGGCGcGCCGc -3'
miRNA:   3'- aGGaGGGUUG----CCGG-GGUCCCGC-CGGU- -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.