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 + 28108 1.1 0.000218
Target:  5'- gGGCAGCGCGCGCCAGAAGCAGGUGCAg -3'
miRNA:   3'- -CCGUCGCGCGCGGUCUUCGUCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 39665 0.77 0.065921
Target:  5'- aGCGGCGCGCGCguGAgcagcAGCAGGcGCu -3'
miRNA:   3'- cCGUCGCGCGCGguCU-----UCGUCCaCGu -5'
11576 3' -59.9 NC_003085.1 + 19059 0.76 0.080486
Target:  5'- cGCGGCGCGCGgCGGA-GCAGGcGCc -3'
miRNA:   3'- cCGUCGCGCGCgGUCUuCGUCCaCGu -5'
11576 3' -59.9 NC_003085.1 + 40496 0.75 0.103762
Target:  5'- cGGCAGgcaGCGCGCCuccGAAGguGGUGa- -3'
miRNA:   3'- -CCGUCg--CGCGCGGu--CUUCguCCACgu -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 + 19170 0.74 0.126106
Target:  5'- aGCAGUGgGUGCCAGcgcucaguGGCAGGUGgCAc -3'
miRNA:   3'- cCGUCGCgCGCGGUCu-------UCGUCCAC-GU- -5'
11576 3' -59.9 NC_003085.1 + 17977 0.74 0.126106
Target:  5'- cGGCAGCGCGgGCC----GCAGG-GCAc -3'
miRNA:   3'- -CCGUCGCGCgCGGucuuCGUCCaCGU- -5'
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 + 8958 0.73 0.144713
Target:  5'- uGGCGGUGCGCauGCCAGAcGC-GGUGaCGu -3'
miRNA:   3'- -CCGUCGCGCG--CGGUCUuCGuCCAC-GU- -5'
11576 3' -59.9 NC_003085.1 + 28933 0.72 0.161369
Target:  5'- cGGCAGCGcCGCggaaGUCGGGcggcGCGGGUGCu -3'
miRNA:   3'- -CCGUCGC-GCG----CGGUCUu---CGUCCACGu -5'
11576 3' -59.9 NC_003085.1 + 40025 0.72 0.169871
Target:  5'- uGGCGGCGCGCGgCGGGucaucggcucccuGGUA-GUGCAc -3'
miRNA:   3'- -CCGUCGCGCGCgGUCU-------------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 + 22828 0.71 0.179733
Target:  5'- cGCGGCGgGCGUCGucGgcGCGGGUGUc -3'
miRNA:   3'- cCGUCGCgCGCGGU--CuuCGUCCACGu -5'
11576 3' -59.9 NC_003085.1 + 46801 0.71 0.186089
Target:  5'- uGGCAGCGCgcgcgaaggcgcuGCccaaggacuccgcugGCCGGAAGCAGGcagcgGCGg -3'
miRNA:   3'- -CCGUCGCG-------------CG---------------CGGUCUUCGUCCa----CGU- -5'
11576 3' -59.9 NC_003085.1 + 27557 0.71 0.189594
Target:  5'- cGGCGGUGaCGuCGCCAucuGGCAGG-GCAc -3'
miRNA:   3'- -CCGUCGC-GC-GCGGUcu-UCGUCCaCGU- -5'
11576 3' -59.9 NC_003085.1 + 18331 0.71 0.1947
Target:  5'- gGGCAGCcgcaacGCGCuGCCuuacGggGC-GGUGCAg -3'
miRNA:   3'- -CCGUCG------CGCG-CGGu---CuuCGuCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 26025 0.71 0.199927
Target:  5'- uGGCGaCGCuGCGCCAGcaguugaagGAGCAGG-GCGa -3'
miRNA:   3'- -CCGUcGCG-CGCGGUC---------UUCGUCCaCGU- -5'
11576 3' -59.9 NC_003085.1 + 30416 0.7 0.210746
Target:  5'- cGGCacuGGCGaGCGCCcuugcuGGAGgAGGUGCAu -3'
miRNA:   3'- -CCG---UCGCgCGCGGu-----CUUCgUCCACGU- -5'
11576 3' -59.9 NC_003085.1 + 38159 0.7 0.216343
Target:  5'- uGGUGGCGCucccCGCCGcGgcGCAGGUGUu -3'
miRNA:   3'- -CCGUCGCGc---GCGGU-CuuCGUCCACGu -5'
11576 3' -59.9 NC_003085.1 + 22848 0.7 0.220912
Target:  5'- cGGCAGCGaaggagaguccggcaGCGCCcacaggugguaccgAGGAGCcuGGUGCGa -3'
miRNA:   3'- -CCGUCGCg--------------CGCGG--------------UCUUCGu-CCACGU- -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.