miRNA display CGI


Results 1 - 20 of 66 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
19384 3' -59.7 NC_004685.1 + 4411 1.1 0.000453
Target:  5'- aCGCAGCUGCCACACCCCCGACAAGGGu -3'
miRNA:   3'- -GCGUCGACGGUGUGGGGGCUGUUCCC- -5'
19384 3' -59.7 NC_004685.1 + 12443 0.76 0.141524
Target:  5'- gGCGGCaGCCcuGCGCCCCUGggucgacaACGAGGGg -3'
miRNA:   3'- gCGUCGaCGG--UGUGGGGGC--------UGUUCCC- -5'
19384 3' -59.7 NC_004685.1 + 51102 0.74 0.17902
Target:  5'- gGCAccgauGCUGCCGCggugGCCCuuGAUggGGGu -3'
miRNA:   3'- gCGU-----CGACGGUG----UGGGggCUGuuCCC- -5'
19384 3' -59.7 NC_004685.1 + 28651 0.73 0.219496
Target:  5'- uCGCAGCaa-CACAUCCCUGACGcGGGc -3'
miRNA:   3'- -GCGUCGacgGUGUGGGGGCUGUuCCC- -5'
19384 3' -59.7 NC_004685.1 + 48114 0.73 0.230769
Target:  5'- uCGCcGCUGCCcaGCGCCgCCGACAugaccaccGGGa -3'
miRNA:   3'- -GCGuCGACGG--UGUGGgGGCUGUu-------CCC- -5'
19384 3' -59.7 NC_004685.1 + 39446 0.73 0.230769
Target:  5'- gGCGGCaaggGCCGCGCCUggguccaguuCCGGCAAGaGGu -3'
miRNA:   3'- gCGUCGa---CGGUGUGGG----------GGCUGUUC-CC- -5'
19384 3' -59.7 NC_004685.1 + 35558 0.72 0.236586
Target:  5'- gCGCAGCUGCaC-CACCugCCCGcgcucCAGGGGg -3'
miRNA:   3'- -GCGUCGACG-GuGUGG--GGGCu----GUUCCC- -5'
19384 3' -59.7 NC_004685.1 + 36370 0.72 0.254777
Target:  5'- uCGCGGUcGCCGCGCCCgaCGGCGgccuGGGc -3'
miRNA:   3'- -GCGUCGaCGGUGUGGGg-GCUGUu---CCC- -5'
19384 3' -59.7 NC_004685.1 + 57018 0.72 0.254777
Target:  5'- uGCGGC--CCGCACCUCCGACAGcGGc -3'
miRNA:   3'- gCGUCGacGGUGUGGGGGCUGUUcCC- -5'
19384 3' -59.7 NC_004685.1 + 13511 0.72 0.254777
Target:  5'- uGCAGC-GCCGgGaccgCCCCGACGAGGc -3'
miRNA:   3'- gCGUCGaCGGUgUg---GGGGCUGUUCCc -5'
19384 3' -59.7 NC_004685.1 + 66970 0.72 0.254777
Target:  5'- uGCAGC--CCAuCACCCCCGACGuGGa -3'
miRNA:   3'- gCGUCGacGGU-GUGGGGGCUGUuCCc -5'
19384 3' -59.7 NC_004685.1 + 29587 0.71 0.287623
Target:  5'- uCGCcGUUGgC-CACCCCCGACAcgaacugaucgAGGGu -3'
miRNA:   3'- -GCGuCGACgGuGUGGGGGCUGU-----------UCCC- -5'
19384 3' -59.7 NC_004685.1 + 17992 0.71 0.300951
Target:  5'- aGUGGCUGCCGCACCaCCgcaucggCGACgAAGGc -3'
miRNA:   3'- gCGUCGACGGUGUGG-GG-------GCUG-UUCCc -5'
19384 3' -59.7 NC_004685.1 + 61799 0.71 0.301666
Target:  5'- uGCGGCUGCCcgccgACaACCUCCGugGAGa- -3'
miRNA:   3'- gCGUCGACGG-----UG-UGGGGGCugUUCcc -5'
19384 3' -59.7 NC_004685.1 + 69580 0.71 0.303099
Target:  5'- gCGCAGCaacggcguccacGCCAacagGCCCCCGGCAcccccccccgaugccGGGGg -3'
miRNA:   3'- -GCGUCGa-----------CGGUg---UGGGGGCUGU---------------UCCC- -5'
19384 3' -59.7 NC_004685.1 + 28387 0.71 0.304537
Target:  5'- uCGCuGCgucgGCCACACCUCCGGugaccgucuucgaucCAAGGu -3'
miRNA:   3'- -GCGuCGa---CGGUGUGGGGGCU---------------GUUCCc -5'
19384 3' -59.7 NC_004685.1 + 12867 0.7 0.31549
Target:  5'- cCGCAGCUcucGCCGCccaauccgcugcuGCCCUCGuCGAGcGGg -3'
miRNA:   3'- -GCGUCGA---CGGUG-------------UGGGGGCuGUUC-CC- -5'
19384 3' -59.7 NC_004685.1 + 34078 0.7 0.316231
Target:  5'- uCGCGGCUggGCCugGCuCCaCCGACAuGGu -3'
miRNA:   3'- -GCGUCGA--CGGugUG-GG-GGCUGUuCCc -5'
19384 3' -59.7 NC_004685.1 + 50646 0.69 0.371325
Target:  5'- aCGCAGUgcgaGUgGC-CCUCCGACAGGGc -3'
miRNA:   3'- -GCGUCGa---CGgUGuGGGGGCUGUUCCc -5'
19384 3' -59.7 NC_004685.1 + 65252 0.69 0.371325
Target:  5'- aGCGGCaccgccaacCCACACCCuuGuCGGGGGu -3'
miRNA:   3'- gCGUCGac-------GGUGUGGGggCuGUUCCC- -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.