miRNA display CGI


Results 1 - 20 of 32 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
11583 3' -55.9 NC_003085.1 + 32128 0.66 0.661623
Target:  5'- cGGuGGUG-CGACgggGGCGGCUGguggCGCGg -3'
miRNA:   3'- -UCuUCAUgGUUGa--CCGCCGGCa---GCGU- -5'
11583 3' -55.9 NC_003085.1 + 23308 0.66 0.661623
Target:  5'- cGcGGUGCgaAGCgcGGCGGCCGUCuggaGCAg -3'
miRNA:   3'- uCuUCAUGg-UUGa-CCGCCGGCAG----CGU- -5'
11583 3' -55.9 NC_003085.1 + 41540 0.66 0.661623
Target:  5'- uGGAGUgacgucugcuGCCGccGC-GGCGGCaGUCGCGg -3'
miRNA:   3'- uCUUCA----------UGGU--UGaCCGCCGgCAGCGU- -5'
11583 3' -55.9 NC_003085.1 + 3537 0.66 0.661623
Target:  5'- gAGGAGUgcgccccuuggACCAcGCUcaaGGCGGCCGggcggcaagCGCGc -3'
miRNA:   3'- -UCUUCA-----------UGGU-UGA---CCGCCGGCa--------GCGU- -5'
11583 3' -55.9 NC_003085.1 + 19458 0.66 0.650539
Target:  5'- uGggGUACCGGCccacGCGGCUGcacaGCAc -3'
miRNA:   3'- uCuuCAUGGUUGac--CGCCGGCag--CGU- -5'
11583 3' -55.9 NC_003085.1 + 23042 0.66 0.639437
Target:  5'- uGGggGUggcagacuggGCCGGCUcguccGGCuucGCCGUCGCc -3'
miRNA:   3'- -UCuuCA----------UGGUUGA-----CCGc--CGGCAGCGu -5'
11583 3' -55.9 NC_003085.1 + 38928 0.66 0.628329
Target:  5'- cGggGUugcccgguggACUcACUGGCGGCUggGUCGUc -3'
miRNA:   3'- uCuuCA----------UGGuUGACCGCCGG--CAGCGu -5'
11583 3' -55.9 NC_003085.1 + 46837 0.66 0.627219
Target:  5'- cGGAGGUGguggacuCCGGCgaggacuucgGGCGGCUGgcagCGCGc -3'
miRNA:   3'- -UCUUCAU-------GGUUGa---------CCGCCGGCa---GCGU- -5'
11583 3' -55.9 NC_003085.1 + 13081 0.66 0.617225
Target:  5'- aAGGAGUugCAgcaggaACUGGCacGCCG-CGCu -3'
miRNA:   3'- -UCUUCAugGU------UGACCGc-CGGCaGCGu -5'
11583 3' -55.9 NC_003085.1 + 27589 0.66 0.606133
Target:  5'- aGGGAGUcAUCAuGCcGGCGccGCCGUCGUAc -3'
miRNA:   3'- -UCUUCA-UGGU-UGaCCGC--CGGCAGCGU- -5'
11583 3' -55.9 NC_003085.1 + 48768 0.66 0.606133
Target:  5'- cGGAGUugCcccguggcGACUGGCGGCgCuucuUCGCGg -3'
miRNA:   3'- uCUUCAugG--------UUGACCGCCG-Gc---AGCGU- -5'
11583 3' -55.9 NC_003085.1 + 48783 0.67 0.595065
Target:  5'- gAGAGGUGCUggUgGGCGaguccgccacGCCG-CGCAa -3'
miRNA:   3'- -UCUUCAUGGuuGaCCGC----------CGGCaGCGU- -5'
11583 3' -55.9 NC_003085.1 + 13849 0.67 0.595065
Target:  5'- gGGAAGUGCCGGaUGuGCGGCaaccCGCGc -3'
miRNA:   3'- -UCUUCAUGGUUgAC-CGCCGgca-GCGU- -5'
11583 3' -55.9 NC_003085.1 + 2456 0.67 0.580725
Target:  5'- aGGGAGUACCuGCgagagcucgcgcgccGCGGCC-UCGCAc -3'
miRNA:   3'- -UCUUCAUGGuUGac-------------CGCCGGcAGCGU- -5'
11583 3' -55.9 NC_003085.1 + 43254 0.67 0.577425
Target:  5'- cGAAGUACCGcgcggcgguggagcgACUGGagcaGGCCGagcgggaaccgCGCAg -3'
miRNA:   3'- uCUUCAUGGU---------------UGACCg---CCGGCa----------GCGU- -5'
11583 3' -55.9 NC_003085.1 + 34616 0.67 0.562086
Target:  5'- -----gGCCGGCUGGUGGCgcUCGCGg -3'
miRNA:   3'- ucuucaUGGUUGACCGCCGgcAGCGU- -5'
11583 3' -55.9 NC_003085.1 + 41846 0.67 0.562086
Target:  5'- cGAagGGUACCGGCUGGgcuuccaggcUGGCCGggCGUc -3'
miRNA:   3'- uCU--UCAUGGUUGACC----------GCCGGCa-GCGu -5'
11583 3' -55.9 NC_003085.1 + 22901 0.67 0.551197
Target:  5'- ----cUGCCGACgUGGCaaucggagucggGGCCGUCGCc -3'
miRNA:   3'- ucuucAUGGUUG-ACCG------------CCGGCAGCGu -5'
11583 3' -55.9 NC_003085.1 + 28703 0.68 0.529622
Target:  5'- aAGggGUAUCGAaaGGcCGGCCG-CaGCAg -3'
miRNA:   3'- -UCuuCAUGGUUgaCC-GCCGGCaG-CGU- -5'
11583 3' -55.9 NC_003085.1 + 3958 0.68 0.508365
Target:  5'- gAGcAGUGCCAccgcgacagacgGCgGGCGcGCCGUCGaCGc -3'
miRNA:   3'- -UCuUCAUGGU------------UGaCCGC-CGGCAGC-GU- -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.