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
10857 3' -55.9 NC_002794.1 + 146927 0.66 0.933102
Target:  5'- gGCCGGaCGga-GAGCGCUCGgucuGGCg- -3'
miRNA:   3'- aUGGUCaGCaugCUCGCGAGC----UCGaa -5'
10857 3' -55.9 NC_002794.1 + 14589 0.66 0.922547
Target:  5'- aGCgGGcCGUgGCGAGCGCgcCGGGCa- -3'
miRNA:   3'- aUGgUCaGCA-UGCUCGCGa-GCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 60952 0.66 0.922547
Target:  5'- cGCCuGcUCG-ACGAGCGC-CGGGCc- -3'
miRNA:   3'- aUGGuC-AGCaUGCUCGCGaGCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 34841 0.66 0.922547
Target:  5'- cGCCGGagcgggCGUcggaGCGGGCGCcgCGGGCg- -3'
miRNA:   3'- aUGGUCa-----GCA----UGCUCGCGa-GCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 161101 0.66 0.91691
Target:  5'- cUACCAGUCgGUGCGcGUuaUCGAGUc- -3'
miRNA:   3'- -AUGGUCAG-CAUGCuCGcgAGCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 96553 0.66 0.911035
Target:  5'- aACCGGUCG-ACGAGgaGCggGAGCg- -3'
miRNA:   3'- aUGGUCAGCaUGCUCg-CGagCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 101615 0.66 0.903044
Target:  5'- cGCCGGgcgggggugccguuUCGUccGCGAGCGUgggCGGGCg- -3'
miRNA:   3'- aUGGUC--------------AGCA--UGCUCGCGa--GCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 112617 0.67 0.898577
Target:  5'- cACCugcgcGUCGUccACGGGCGgcuuCUCGAGCa- -3'
miRNA:   3'- aUGGu----CAGCA--UGCUCGC----GAGCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 176863 0.67 0.898577
Target:  5'- gAUCAGUacggaGUGCGAGCGuCUCGAucauggGCUc -3'
miRNA:   3'- aUGGUCAg----CAUGCUCGC-GAGCU------CGAa -5'
10857 3' -55.9 NC_002794.1 + 38404 0.67 0.891999
Target:  5'- -cCCGGUCacccgGCGAGCGCUCGccgacuccauGGCg- -3'
miRNA:   3'- auGGUCAGca---UGCUCGCGAGC----------UCGaa -5'
10857 3' -55.9 NC_002794.1 + 32909 0.67 0.871645
Target:  5'- aACCAGUCGggcggcagcaggucgGCGggaAGCGCUCG-GCg- -3'
miRNA:   3'- aUGGUCAGCa--------------UGC---UCGCGAGCuCGaa -5'
10857 3' -55.9 NC_002794.1 + 186305 0.67 0.863445
Target:  5'- gGCCGGUCGccGCGGcGCGCUCGucCUc -3'
miRNA:   3'- aUGGUCAGCa-UGCU-CGCGAGCucGAa -5'
10857 3' -55.9 NC_002794.1 + 145316 0.68 0.83982
Target:  5'- aACCGGcgCGcgGCGggcGGCGCUCGGGCc- -3'
miRNA:   3'- aUGGUCa-GCa-UGC---UCGCGAGCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 90831 0.69 0.814496
Target:  5'- cAUCAGUCgGUACGAGgGCggCGuGCUg -3'
miRNA:   3'- aUGGUCAG-CAUGCUCgCGa-GCuCGAa -5'
10857 3' -55.9 NC_002794.1 + 135690 0.69 0.796771
Target:  5'- ---gAGUCGUgACGgucuccagguAGCGCUCGAGCUg -3'
miRNA:   3'- auggUCAGCA-UGC----------UCGCGAGCUCGAa -5'
10857 3' -55.9 NC_002794.1 + 182324 0.69 0.787681
Target:  5'- gGgCGGUCGgGCGGGCGggCGAGCg- -3'
miRNA:   3'- aUgGUCAGCaUGCUCGCgaGCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 146881 0.69 0.787681
Target:  5'- gGCgCGGUCGgcCGAugauuauaaaagGCGCUCGGGCg- -3'
miRNA:   3'- aUG-GUCAGCauGCU------------CGCGAGCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 99783 0.7 0.759605
Target:  5'- gUGCCGgcGUCGacUACGAGCGCgcgccgCGGGCg- -3'
miRNA:   3'- -AUGGU--CAGC--AUGCUCGCGa-----GCUCGaa -5'
10857 3' -55.9 NC_002794.1 + 125762 0.7 0.737378
Target:  5'- gGCCGG-CGgcucgccacccggcUGCGAGCGCUCaaGAGCUg -3'
miRNA:   3'- aUGGUCaGC--------------AUGCUCGCGAG--CUCGAa -5'
10857 3' -55.9 NC_002794.1 + 122684 0.71 0.69057
Target:  5'- gUGCCGGUCGcGCcAGCGC-CGGGCg- -3'
miRNA:   3'- -AUGGUCAGCaUGcUCGCGaGCUCGaa -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.