miRNA display CGI


Results 1 - 20 of 62 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
11576 3' -59.9 NC_003085.1 + 3388 0.73 0.140801
Target:  5'- gGGCuguGGCGacugaGCGCC-GAagGGCGGGUGCAg -3'
miRNA:   3'- -CCG---UCGCg----CGCGGuCU--UCGUCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 3573 0.68 0.308639
Target:  5'- gGGCGGCaaGCGCGCCucgcugccGAGGCGGcGaacugGCAg -3'
miRNA:   3'- -CCGUCG--CGCGCGGu-------CUUCGUC-Ca----CGU- -5'
11576 3' -59.9 NC_003085.1 + 5780 0.67 0.36416
Target:  5'- aGCGGCGCGUgcucuacGCCGuggccuucgucGGAGC-GGUGCGc -3'
miRNA:   3'- cCGUCGCGCG-------CGGU-----------CUUCGuCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 8643 0.69 0.272598
Target:  5'- cGGCGGCauGCcacgguuguuGCGgCGGGAGCGGG-GCAa -3'
miRNA:   3'- -CCGUCG--CG----------CGCgGUCUUCGUCCaCGU- -5'
11576 3' -59.9 NC_003085.1 + 8958 0.73 0.144713
Target:  5'- uGGCGGUGCGCauGCCAGAcGC-GGUGaCGu -3'
miRNA:   3'- -CCGUCGCGCG--CGGUCUuCGuCCAC-GU- -5'
11576 3' -59.9 NC_003085.1 + 10560 0.67 0.348204
Target:  5'- uGGCAG-GCGCaagagGCgaAGGAGCGGGcGCAg -3'
miRNA:   3'- -CCGUCgCGCG-----CGg-UCUUCGUCCaCGU- -5'
11576 3' -59.9 NC_003085.1 + 11365 0.68 0.324041
Target:  5'- cGcCAGCGCGCGCUuccGAAGCcGG-GCc -3'
miRNA:   3'- cC-GUCGCGCGCGGu--CUUCGuCCaCGu -5'
11576 3' -59.9 NC_003085.1 + 11602 0.69 0.272598
Target:  5'- gGGCAGgGCgGCGCgaAGggGCu-GUGCAg -3'
miRNA:   3'- -CCGUCgCG-CGCGg-UCuuCGucCACGU- -5'
11576 3' -59.9 NC_003085.1 + 11714 0.69 0.272598
Target:  5'- cGGCGcaaugcccuccGCGCGCGCUGGuAGCAGccccUGCAc -3'
miRNA:   3'- -CCGU-----------CGCGCGCGGUCuUCGUCc---ACGU- -5'
11576 3' -59.9 NC_003085.1 + 11779 0.67 0.365013
Target:  5'- cGGCGGCGcCGCGCUccGGGcgugucGGCugccccaucgccGGGUGCc -3'
miRNA:   3'- -CCGUCGC-GCGCGG--UCU------UCG------------UCCACGu -5'
11576 3' -59.9 NC_003085.1 + 12110 0.69 0.259156
Target:  5'- aGCGGCGCacgaaguCGCgCAGcaccGGCAGGUGCGc -3'
miRNA:   3'- cCGUCGCGc------GCG-GUCu---UCGUCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 12763 0.72 0.17033
Target:  5'- aGCGGCGUgGCGucauccacCCGGAGGCAGGcGCAc -3'
miRNA:   3'- cCGUCGCG-CGC--------GGUCUUCGUCCaCGU- -5'
11576 3' -59.9 NC_003085.1 + 13791 0.67 0.373626
Target:  5'- aGGCgAGCGUGaCGCCAGucuGCguggAGGUgGCGc -3'
miRNA:   3'- -CCG-UCGCGC-GCGGUCuu-CG----UCCA-CGU- -5'
11576 3' -59.9 NC_003085.1 + 13934 0.7 0.240014
Target:  5'- cGgGGCGCGCGCCgaagaAGAAGCGGa-GCGu -3'
miRNA:   3'- cCgUCGCGCGCGG-----UCUUCGUCcaCGU- -5'
11576 3' -59.9 NC_003085.1 + 14206 0.68 0.308639
Target:  5'- gGGCuGCgacaagcccGCGCGCaagCGGAAGCAGGgGCc -3'
miRNA:   3'- -CCGuCG---------CGCGCG---GUCUUCGUCCaCGu -5'
11576 3' -59.9 NC_003085.1 + 14281 0.66 0.427166
Target:  5'- cGCuuGCGCGCGggcuugucgcagcCCGGAcgcuGGCacAGGUGCAu -3'
miRNA:   3'- cCGu-CGCGCGC-------------GGUCU----UCG--UCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 14863 0.74 0.109429
Target:  5'- aGGC-GCGCGCGCaaggugaCGGAcgAGCAGGUGUu -3'
miRNA:   3'- -CCGuCGCGCGCG-------GUCU--UCGUCCACGu -5'
11576 3' -59.9 NC_003085.1 + 14993 0.66 0.400278
Target:  5'- uGG-AGCGCcacGCGCUGGcGGCcGGUGCGc -3'
miRNA:   3'- -CCgUCGCG---CGCGGUCuUCGuCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 15202 0.66 0.400278
Target:  5'- cGcCAGCGcCGCGCCgcGGAAGUGGGcgagguggacuUGCGc -3'
miRNA:   3'- cC-GUCGC-GCGCGG--UCUUCGUCC-----------ACGU- -5'
11576 3' -59.9 NC_003085.1 + 16337 0.66 0.400278
Target:  5'- aGUAGCGgGCGUCcuGGAGGCGGcG-GCGc -3'
miRNA:   3'- cCGUCGCgCGCGG--UCUUCGUC-CaCGU- -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.