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
13277 3' -56.1 NC_003409.1 + 113193 0.66 0.88778
Target:  5'- aGGGGCGGCagauaccggccUCCGGGaGGCCuuGGa- -3'
miRNA:   3'- cCCCCGUCG-----------AGGUCCgCUGGuuUUac -5'
13277 3' -56.1 NC_003409.1 + 105042 0.66 0.88778
Target:  5'- uGGGGGCugguGCUCgucuGGUGGCU--GGUGg -3'
miRNA:   3'- -CCCCCGu---CGAGgu--CCGCUGGuuUUAC- -5'
13277 3' -56.1 NC_003409.1 + 123791 0.66 0.88778
Target:  5'- aGGGGGUgacuAGCUucCCAGGCuaggcgGGCCAu---- -3'
miRNA:   3'- -CCCCCG----UCGA--GGUCCG------CUGGUuuuac -5'
13277 3' -56.1 NC_003409.1 + 43990 0.66 0.88778
Target:  5'- aGGGGCguagaauccccGGCcaUCCAGuCGACCGAGAc- -3'
miRNA:   3'- cCCCCG-----------UCG--AGGUCcGCUGGUUUUac -5'
13277 3' -56.1 NC_003409.1 + 54401 0.66 0.88076
Target:  5'- --uGGUcgAGUaCCAGGCGGCCAGAAa- -3'
miRNA:   3'- cccCCG--UCGaGGUCCGCUGGUUUUac -5'
13277 3' -56.1 NC_003409.1 + 9084 0.66 0.858364
Target:  5'- -uGGGCAcgucuGCUCCAGGUugaACCGAAAa- -3'
miRNA:   3'- ccCCCGU-----CGAGGUCCGc--UGGUUUUac -5'
13277 3' -56.1 NC_003409.1 + 3022 0.66 0.858364
Target:  5'- aGGGGGCGGCguuUCCAuaugaGGCCAAGu-- -3'
miRNA:   3'- -CCCCCGUCG---AGGUccg--CUGGUUUuac -5'
13277 3' -56.1 NC_003409.1 + 121963 0.67 0.83409
Target:  5'- aGGGuGCGGUgcugcCCAGGaCGGCCGGAu-- -3'
miRNA:   3'- cCCC-CGUCGa----GGUCC-GCUGGUUUuac -5'
13277 3' -56.1 NC_003409.1 + 100065 0.67 0.825613
Target:  5'- cGGGGCGGC-UguGGC-ACCAAAuuAUGg -3'
miRNA:   3'- cCCCCGUCGaGguCCGcUGGUUU--UAC- -5'
13277 3' -56.1 NC_003409.1 + 90391 0.67 0.808127
Target:  5'- uGGGGCA-CUCgAGGC--CCAGAAUGu -3'
miRNA:   3'- cCCCCGUcGAGgUCCGcuGGUUUUAC- -5'
13277 3' -56.1 NC_003409.1 + 42714 0.67 0.808127
Target:  5'- aGGGGGCccucgAGCgcugCCauggAGGCGACCuuGGa- -3'
miRNA:   3'- -CCCCCG-----UCGa---GG----UCCGCUGGuuUUac -5'
13277 3' -56.1 NC_003409.1 + 97164 0.68 0.802751
Target:  5'- aGGGaGGCAGUgaauauugagaUUCgguuuauccaggccaAGGCGGCCGGGGUGa -3'
miRNA:   3'- -CCC-CCGUCG-----------AGG---------------UCCGCUGGUUUUAC- -5'
13277 3' -56.1 NC_003409.1 + 63966 0.68 0.799136
Target:  5'- aGGGGCucaGGCgCCAGGUGuCCAAc--- -3'
miRNA:   3'- cCCCCG---UCGaGGUCCGCuGGUUuuac -5'
13277 3' -56.1 NC_003409.1 + 73930 0.68 0.799135
Target:  5'- -cGGGCgaagAGCuUCCGGGCGgucaugacggagACCAAGGUGu -3'
miRNA:   3'- ccCCCG----UCG-AGGUCCGC------------UGGUUUUAC- -5'
13277 3' -56.1 NC_003409.1 + 75464 0.68 0.789989
Target:  5'- aGGGGGguGUUauagGGGCGGCUggGAc- -3'
miRNA:   3'- -CCCCCguCGAgg--UCCGCUGGuuUUac -5'
13277 3' -56.1 NC_003409.1 + 131221 0.68 0.780698
Target:  5'- cGGGGCAcuGCUcCCAGGCaGcACCAAc--- -3'
miRNA:   3'- cCCCCGU--CGA-GGUCCG-C-UGGUUuuac -5'
13277 3' -56.1 NC_003409.1 + 103638 0.68 0.780698
Target:  5'- aGGGGGCGGCUggcgggUCGGGUGuCCu----- -3'
miRNA:   3'- -CCCCCGUCGA------GGUCCGCuGGuuuuac -5'
13277 3' -56.1 NC_003409.1 + 134467 0.68 0.77127
Target:  5'- cGGGGGCGGUgcgcccUCUAGGCauGGCCu----- -3'
miRNA:   3'- -CCCCCGUCG------AGGUCCG--CUGGuuuuac -5'
13277 3' -56.1 NC_003409.1 + 24738 0.68 0.75107
Target:  5'- aGGGGGCgcgccggGGCUCCugGGGUGcuGCCGGGGc- -3'
miRNA:   3'- -CCCCCG-------UCGAGG--UCCGC--UGGUUUUac -5'
13277 3' -56.1 NC_003409.1 + 19651 0.69 0.742263
Target:  5'- -aGGGCAcGCgUCCAGGCaACCGGGGUc -3'
miRNA:   3'- ccCCCGU-CG-AGGUCCGcUGGUUUUAc -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.