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
23660 5' -56.3 NC_005261.1 + 62386 0.66 0.895565
Target:  5'- cGGCaGCggCACCgUCGUGGg--GAAGAGc -3'
miRNA:   3'- -CCG-CGa-GUGG-AGCGCCacaCUUCUCa -5'
23660 5' -56.3 NC_005261.1 + 46072 0.66 0.895565
Target:  5'- gGGCGC-CGCCUCGUGGccgGAcacGAGc -3'
miRNA:   3'- -CCGCGaGUGGAGCGCCacaCUu--CUCa -5'
23660 5' -56.3 NC_005261.1 + 16388 0.66 0.867446
Target:  5'- gGGC-CUCGCCgUCgucgucgccggGCGGUGcgGGAGAGg -3'
miRNA:   3'- -CCGcGAGUGG-AG-----------CGCCACa-CUUCUCa -5'
23660 5' -56.3 NC_005261.1 + 4093 0.67 0.852092
Target:  5'- cGGCGCcgUCACgCUCcCGGUGaUGAAcGAGc -3'
miRNA:   3'- -CCGCG--AGUG-GAGcGCCAC-ACUU-CUCa -5'
23660 5' -56.3 NC_005261.1 + 106656 0.67 0.851302
Target:  5'- cGCGCUCGCCggCGCGGUcGUccagcgcgcgcccGAGGGc- -3'
miRNA:   3'- cCGCGAGUGGa-GCGCCA-CA-------------CUUCUca -5'
23660 5' -56.3 NC_005261.1 + 45213 0.67 0.835937
Target:  5'- cGGgGCUuCGCCuUCGCGGUGcucaccgccaUGGAGGa- -3'
miRNA:   3'- -CCgCGA-GUGG-AGCGCCAC----------ACUUCUca -5'
23660 5' -56.3 NC_005261.1 + 13152 0.67 0.835937
Target:  5'- cGGCGCgCACCagGCGGUccGAGGuGa -3'
miRNA:   3'- -CCGCGaGUGGagCGCCAcaCUUCuCa -5'
23660 5' -56.3 NC_005261.1 + 107768 0.67 0.835937
Target:  5'- aGCGCUCGCUggcgCGCGGUcgaaccacGUuAGGAGg -3'
miRNA:   3'- cCGCGAGUGGa---GCGCCA--------CAcUUCUCa -5'
23660 5' -56.3 NC_005261.1 + 13451 0.67 0.827576
Target:  5'- aGGCagGCcggCGCCUCGgGGUG-GAAGAu- -3'
miRNA:   3'- -CCG--CGa--GUGGAGCgCCACaCUUCUca -5'
23660 5' -56.3 NC_005261.1 + 103127 0.67 0.819899
Target:  5'- aGCGCgcccggguucuccagCGCCUCGCGGUaccGgccGAAGAGc -3'
miRNA:   3'- cCGCGa--------------GUGGAGCGCCA---Ca--CUUCUCa -5'
23660 5' -56.3 NC_005261.1 + 43783 0.68 0.810328
Target:  5'- cGGCGCgcggagggCGCC--GCGG-GUGAGGGGg -3'
miRNA:   3'- -CCGCGa-------GUGGagCGCCaCACUUCUCa -5'
23660 5' -56.3 NC_005261.1 + 66473 0.68 0.801456
Target:  5'- aGGCGCgCGuCCUCGCGGUacagcGAGAGc -3'
miRNA:   3'- -CCGCGaGU-GGAGCGCCAcac--UUCUCa -5'
23660 5' -56.3 NC_005261.1 + 53947 0.68 0.764518
Target:  5'- cGGCGCgcCGCgCUCGCGGguucggGUGGcaaaAGAGc -3'
miRNA:   3'- -CCGCGa-GUG-GAGCGCCa-----CACU----UCUCa -5'
23660 5' -56.3 NC_005261.1 + 74909 0.69 0.745304
Target:  5'- cGCGCUgGCCgCGCGGg--GGAGGGc -3'
miRNA:   3'- cCGCGAgUGGaGCGCCacaCUUCUCa -5'
23660 5' -56.3 NC_005261.1 + 24149 0.69 0.705756
Target:  5'- cGGgGCUCACCUgGCGGgaucGUcgcaggcuuccGggGGGUc -3'
miRNA:   3'- -CCgCGAGUGGAgCGCCa---CA-----------CuuCUCA- -5'
23660 5' -56.3 NC_005261.1 + 52826 0.7 0.694679
Target:  5'- gGGCGCUucgagggcCGCCUCGCcGGUgucccacGUGgcGAGUc -3'
miRNA:   3'- -CCGCGA--------GUGGAGCG-CCA-------CACuuCUCA- -5'
23660 5' -56.3 NC_005261.1 + 123884 0.71 0.593518
Target:  5'- uGGCGCgCACUUCGCGGaaggccgccgcUGUGggGuGc -3'
miRNA:   3'- -CCGCGaGUGGAGCGCC-----------ACACuuCuCa -5'
23660 5' -56.3 NC_005261.1 + 30371 0.72 0.583331
Target:  5'- cGGCGCgccgggCGCCgcggCGCGG-GUGGAG-GUg -3'
miRNA:   3'- -CCGCGa-----GUGGa---GCGCCaCACUUCuCA- -5'
23660 5' -56.3 NC_005261.1 + 95817 0.72 0.563068
Target:  5'- gGGgGCUCGcgguCCUCGCGGcgcuUGUGGgcGGAGUc -3'
miRNA:   3'- -CCgCGAGU----GGAGCGCC----ACACU--UCUCA- -5'
23660 5' -56.3 NC_005261.1 + 126468 0.74 0.474929
Target:  5'- cGCGCUCGCCUCGCGGUaGUa------ -3'
miRNA:   3'- cCGCGAGUGGAGCGCCA-CAcuucuca -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.