miRNA display CGI


Results 1 - 20 of 40 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
23595 3' -57.3 NC_005261.1 + 1456 0.67 0.797627
Target:  5'- cGCCUCgGCGUgCGGcUCCAGcAGCGCg -3'
miRNA:   3'- cUGGGGaUGCAgGCCcAGGUC-UUGUG- -5'
23595 3' -57.3 NC_005261.1 + 4962 0.68 0.731789
Target:  5'- cGCCCCcggccgcgGCGUCCucugGGGcCCGGAGgGCg -3'
miRNA:   3'- cUGGGGa-------UGCAGG----CCCaGGUCUUgUG- -5'
23595 3' -57.3 NC_005261.1 + 15913 0.67 0.806509
Target:  5'- cGCCCC-GCGcagCCGGGgCCGGGGC-Cg -3'
miRNA:   3'- cUGGGGaUGCa--GGCCCaGGUCUUGuG- -5'
23595 3' -57.3 NC_005261.1 + 30760 0.71 0.540386
Target:  5'- cGGgCCCUA-GUCCGGG-CCGGAGCcCg -3'
miRNA:   3'- -CUgGGGAUgCAGGCCCaGGUCUUGuG- -5'
23595 3' -57.3 NC_005261.1 + 31556 0.67 0.770124
Target:  5'- cACgCCUGgG-CCGGGUCCuGGACGg -3'
miRNA:   3'- cUGgGGAUgCaGGCCCAGGuCUUGUg -5'
23595 3' -57.3 NC_005261.1 + 32539 0.66 0.823796
Target:  5'- cGGCCCCggccGCGgCgCGGG-CCGGcGCGCg -3'
miRNA:   3'- -CUGGGGa---UGCaG-GCCCaGGUCuUGUG- -5'
23595 3' -57.3 NC_005261.1 + 33272 0.71 0.560299
Target:  5'- cGGCCCCcgucccCGUCCcGGUCCGuGGGCACc -3'
miRNA:   3'- -CUGGGGau----GCAGGcCCAGGU-CUUGUG- -5'
23595 3' -57.3 NC_005261.1 + 33738 0.67 0.788596
Target:  5'- uGCCCCUcgcGCGgcgCCGGGgCCGGGccCGCu -3'
miRNA:   3'- cUGGGGA---UGCa--GGCCCaGGUCUu-GUG- -5'
23595 3' -57.3 NC_005261.1 + 36910 0.7 0.600667
Target:  5'- cGACCCC-GCG-CUGGG-CCGGGACGu -3'
miRNA:   3'- -CUGGGGaUGCaGGCCCaGGUCUUGUg -5'
23595 3' -57.3 NC_005261.1 + 48640 0.68 0.751164
Target:  5'- cGCCCCUGCG-CCGGcccccGcCCGGAgagccGCGCg -3'
miRNA:   3'- cUGGGGAUGCaGGCC-----CaGGUCU-----UGUG- -5'
23595 3' -57.3 NC_005261.1 + 52423 0.69 0.661752
Target:  5'- -uCCUCgaagGCGUCCGcGUCCAGGGcCACg -3'
miRNA:   3'- cuGGGGa---UGCAGGCcCAGGUCUU-GUG- -5'
23595 3' -57.3 NC_005261.1 + 53250 0.7 0.641399
Target:  5'- cGCCCCgcGCGUCCcGGUCgCAGAccaGCAUg -3'
miRNA:   3'- cUGGGGa-UGCAGGcCCAG-GUCU---UGUG- -5'
23595 3' -57.3 NC_005261.1 + 55600 0.68 0.751164
Target:  5'- cGCCCaUGCGcuccUCCuGGUCCAGcAGCGCg -3'
miRNA:   3'- cUGGGgAUGC----AGGcCCAGGUC-UUGUG- -5'
23595 3' -57.3 NC_005261.1 + 55956 0.68 0.731789
Target:  5'- -uCCCCgGCG-CCGGGUCUcccgcGAGCGCc -3'
miRNA:   3'- cuGGGGaUGCaGGCCCAGGu----CUUGUG- -5'
23595 3' -57.3 NC_005261.1 + 57861 0.66 0.840391
Target:  5'- aGGCCUCgGCGcUCGGGUCgGGAagucggccgGCACg -3'
miRNA:   3'- -CUGGGGaUGCaGGCCCAGgUCU---------UGUG- -5'
23595 3' -57.3 NC_005261.1 + 64524 0.68 0.741524
Target:  5'- cGGCUCCU-CGUCgGGGggcaggUCCGGGACcACg -3'
miRNA:   3'- -CUGGGGAuGCAGgCCC------AGGUCUUG-UG- -5'
23595 3' -57.3 NC_005261.1 + 64871 0.67 0.795832
Target:  5'- -gUCCCagaucagcggcgGCGggagcgCCGGGUCCAGcAGCGCg -3'
miRNA:   3'- cuGGGGa-----------UGCa-----GGCCCAGGUC-UUGUG- -5'
23595 3' -57.3 NC_005261.1 + 71066 0.67 0.818679
Target:  5'- aGCCgCCgcgcggcgggcgggGCGUCCGGGcCCgAGAAgGCg -3'
miRNA:   3'- cUGG-GGa-------------UGCAGGCCCaGG-UCUUgUG- -5'
23595 3' -57.3 NC_005261.1 + 71950 0.68 0.751164
Target:  5'- cGCCCCacugGCGUCggcgCGGGgCgCGGAGCGCg -3'
miRNA:   3'- cUGGGGa---UGCAG----GCCCaG-GUCUUGUG- -5'
23595 3' -57.3 NC_005261.1 + 72139 0.69 0.690073
Target:  5'- aGCCCCgggugcgacugcACGUCCGGGgugUCCGGGAUcccgGCg -3'
miRNA:   3'- cUGGGGa-----------UGCAGGCCC---AGGUCUUG----UG- -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.