miRNA display CGI


Results 1 - 20 of 45 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
8083 5' -54 NC_001978.2 + 41409 0.67 0.647474
Target:  5'- gGCGGGgcGGCUCcgaaguuGGCGGCgUGUGCc- -3'
miRNA:   3'- gUGCCCuuUCGAG-------UUGCCG-GCAUGcg -5'
8083 5' -54 NC_001978.2 + 39838 0.68 0.592309
Target:  5'- cCGCGcGGcAGGCgcguaCGACGGacCCGUugGCa -3'
miRNA:   3'- -GUGC-CCuUUCGa----GUUGCC--GGCAugCG- -5'
8083 5' -54 NC_001978.2 + 39447 0.66 0.733979
Target:  5'- aGCGGGcucgauGAucgguccgcaaucaAGCUCGAcCGGCCGgaGCGUg -3'
miRNA:   3'- gUGCCC------UU--------------UCGAGUU-GCCGGCa-UGCG- -5'
8083 5' -54 NC_001978.2 + 38910 0.67 0.626057
Target:  5'- gGCGGGAAGGCgcuuACGGCUucgaGCu -3'
miRNA:   3'- gUGCCCUUUCGagu-UGCCGGcaugCG- -5'
8083 5' -54 NC_001978.2 + 38229 0.72 0.384973
Target:  5'- gCACGGGGAAGCcgcgccacgccuUCGggacgucaGCGGCucgcccCGUGCGCu -3'
miRNA:   3'- -GUGCCCUUUCG------------AGU--------UGCCG------GCAUGCG- -5'
8083 5' -54 NC_001978.2 + 33092 0.67 0.671079
Target:  5'- uCGCGGGcuuGCUUc-CGGCCGUA-GCc -3'
miRNA:   3'- -GUGCCCuuuCGAGuuGCCGGCAUgCG- -5'
8083 5' -54 NC_001978.2 + 32283 0.66 0.693405
Target:  5'- gCGCGcuGccGCUCAGCcucaGCCGUGCGCc -3'
miRNA:   3'- -GUGCccUuuCGAGUUGc---CGGCAUGCG- -5'
8083 5' -54 NC_001978.2 + 32215 0.69 0.515195
Target:  5'- gCACGGcuGAGGCUgAGCGGCa--GCGCg -3'
miRNA:   3'- -GUGCCc-UUUCGAgUUGCCGgcaUGCG- -5'
8083 5' -54 NC_001978.2 + 30620 0.71 0.421781
Target:  5'- uCACGGGGAAcggacacguaccGCUCAagcacguagGCGGCUucgaugaGUGCGCc -3'
miRNA:   3'- -GUGCCCUUU------------CGAGU---------UGCCGG-------CAUGCG- -5'
8083 5' -54 NC_001978.2 + 30223 0.72 0.36694
Target:  5'- uGCGGGaAGAGCgCAACGGCa--ACGCc -3'
miRNA:   3'- gUGCCC-UUUCGaGUUGCCGgcaUGCG- -5'
8083 5' -54 NC_001978.2 + 29150 0.69 0.55225
Target:  5'- uCACGGGucggcgccugccGCUCGAcCGGaaCCGUACGUa -3'
miRNA:   3'- -GUGCCCuuu---------CGAGUU-GCC--GGCAUGCG- -5'
8083 5' -54 NC_001978.2 + 25982 0.66 0.693405
Target:  5'- aACGGGcacGUUCAGCG--CGUACGCg -3'
miRNA:   3'- gUGCCCuuuCGAGUUGCcgGCAUGCG- -5'
8083 5' -54 NC_001978.2 + 24368 0.7 0.504484
Target:  5'- aUACGGGAuuGUUCAuCGGgcCCG-ACGCu -3'
miRNA:   3'- -GUGCCCUuuCGAGUuGCC--GGCaUGCG- -5'
8083 5' -54 NC_001978.2 + 23989 0.69 0.558877
Target:  5'- aAUGGGAAAGCgcggAACGGUCacugacUACGCg -3'
miRNA:   3'- gUGCCCUUUCGag--UUGCCGGc-----AUGCG- -5'
8083 5' -54 NC_001978.2 + 23595 0.66 0.70448
Target:  5'- uCACGGuGAuugccGGGUUCGGCGcGUCGUACu- -3'
miRNA:   3'- -GUGCC-CU-----UUCGAGUUGC-CGGCAUGcg -5'
8083 5' -54 NC_001978.2 + 22881 0.68 0.603536
Target:  5'- gCGCGGGGAcGGCggCGuugUGGCCGUGC-Ca -3'
miRNA:   3'- -GUGCCCUU-UCGa-GUu--GCCGGCAUGcG- -5'
8083 5' -54 NC_001978.2 + 22149 0.68 0.614789
Target:  5'- uCACcccGGAucaggcGCUCAAacaGGUCGUGCGCu -3'
miRNA:   3'- -GUGc--CCUuu----CGAGUUg--CCGGCAUGCG- -5'
8083 5' -54 NC_001978.2 + 22100 0.69 0.547845
Target:  5'- -cCGGGGuGAGUaCGuCGGCCGUguGCGCg -3'
miRNA:   3'- guGCCCU-UUCGaGUuGCCGGCA--UGCG- -5'
8083 5' -54 NC_001978.2 + 20947 0.74 0.27845
Target:  5'- aGCGGGGAAGCUCGAuucccugccCGG-CGUACaGCc -3'
miRNA:   3'- gUGCCCUUUCGAGUU---------GCCgGCAUG-CG- -5'
8083 5' -54 NC_001978.2 + 20815 0.66 0.70448
Target:  5'- -uCGGuGAcAAGCUCGACGGaCUGaaggacgACGCg -3'
miRNA:   3'- guGCC-CU-UUCGAGUUGCC-GGCa------UGCG- -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.