miRNA display CGI


Results 1 - 20 of 23 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
22967 3' -51.6 NC_005137.2 + 47893 0.66 0.982103
Target:  5'- aCGUACCGCAGCuGAAcgUGUCuuCGCc -3'
miRNA:   3'- aGCGUGGUGUCGuUUUagACAG--GCGu -5'
22967 3' -51.6 NC_005137.2 + 118065 0.66 0.979904
Target:  5'- cCGCGCCGCAGCGA---UUGUaauauaaGCAa -3'
miRNA:   3'- aGCGUGGUGUCGUUuuaGACAgg-----CGU- -5'
22967 3' -51.6 NC_005137.2 + 63633 0.66 0.979904
Target:  5'- aCGcCGCCGCGGCGAcg---GUCgCGCAu -3'
miRNA:   3'- aGC-GUGGUGUCGUUuuagaCAG-GCGU- -5'
22967 3' -51.6 NC_005137.2 + 123252 0.66 0.979904
Target:  5'- -aGCGCUGCAGCAAAAUCcuUCaaGCAu -3'
miRNA:   3'- agCGUGGUGUCGUUUUAGacAGg-CGU- -5'
22967 3' -51.6 NC_005137.2 + 99620 0.66 0.977511
Target:  5'- gCGCGCCGCgccaAGCAAcuccuuUCUgGUCaCGCAu -3'
miRNA:   3'- aGCGUGGUG----UCGUUuu----AGA-CAG-GCGU- -5'
22967 3' -51.6 NC_005137.2 + 89094 0.67 0.962331
Target:  5'- uUCGUuuuuCCACAaac-AGUCUGUCCGCu -3'
miRNA:   3'- -AGCGu---GGUGUcguuUUAGACAGGCGu -5'
22967 3' -51.6 NC_005137.2 + 122578 0.67 0.958601
Target:  5'- gCGCGCUGCAGCAAAAc----CCGCGu -3'
miRNA:   3'- aGCGUGGUGUCGUUUUagacaGGCGU- -5'
22967 3' -51.6 NC_005137.2 + 120274 0.67 0.958601
Target:  5'- cUCGCGCCAUggAGCccGAGGUgcagCUGUCCGa- -3'
miRNA:   3'- -AGCGUGGUG--UCG--UUUUA----GACAGGCgu -5'
22967 3' -51.6 NC_005137.2 + 90853 0.67 0.953383
Target:  5'- aCGCACCAcCAGCGGAuaauaaaagucggcGUCgcGUCCGg- -3'
miRNA:   3'- aGCGUGGU-GUCGUUU--------------UAGa-CAGGCgu -5'
22967 3' -51.6 NC_005137.2 + 18380 0.68 0.950398
Target:  5'- aCGCGCaCACAGCAAcaccgccUUGUCCGg- -3'
miRNA:   3'- aGCGUG-GUGUCGUUuua----GACAGGCgu -5'
22967 3' -51.6 NC_005137.2 + 115444 0.68 0.950398
Target:  5'- aUCGC-CCGCAGC----UC-GUCCGCu -3'
miRNA:   3'- -AGCGuGGUGUCGuuuuAGaCAGGCGu -5'
22967 3' -51.6 NC_005137.2 + 119866 0.68 0.94908
Target:  5'- gCGCugCGCGGCGGGAUgcguacgugcuaagCUGUgUGCGc -3'
miRNA:   3'- aGCGugGUGUCGUUUUA--------------GACAgGCGU- -5'
22967 3' -51.6 NC_005137.2 + 2160 0.68 0.930913
Target:  5'- cUGCGCCGCAGCGugcacgagCUGUgCaCGCGg -3'
miRNA:   3'- aGCGUGGUGUCGUuuua----GACA-G-GCGU- -5'
22967 3' -51.6 NC_005137.2 + 48201 0.68 0.92595
Target:  5'- -gGCACgCGCGGCAAAuggaacaaugacccuUCcGUCCGCGa -3'
miRNA:   3'- agCGUG-GUGUCGUUUu--------------AGaCAGGCGU- -5'
22967 3' -51.6 NC_005137.2 + 31834 0.69 0.913542
Target:  5'- cCGCACaaccaCGCGGCGGuGUC-GUCCGCu -3'
miRNA:   3'- aGCGUG-----GUGUCGUUuUAGaCAGGCGu -5'
22967 3' -51.6 NC_005137.2 + 2390 0.7 0.871831
Target:  5'- aUCGCGCCAaaugGGUAA----UGUCCGCAa -3'
miRNA:   3'- -AGCGUGGUg---UCGUUuuagACAGGCGU- -5'
22967 3' -51.6 NC_005137.2 + 64076 0.71 0.847712
Target:  5'- gCGCACCGCGuGCGAA--CcGUCCGCc -3'
miRNA:   3'- aGCGUGGUGU-CGUUUuaGaCAGGCGu -5'
22967 3' -51.6 NC_005137.2 + 13147 0.71 0.839231
Target:  5'- aCG-ACCGCAGCGuuGUUUGUuugCCGCAg -3'
miRNA:   3'- aGCgUGGUGUCGUuuUAGACA---GGCGU- -5'
22967 3' -51.6 NC_005137.2 + 13890 0.71 0.830542
Target:  5'- gCGCugCACGGCGucuucUUUGUCgGCAa -3'
miRNA:   3'- aGCGugGUGUCGUuuu--AGACAGgCGU- -5'
22967 3' -51.6 NC_005137.2 + 100221 0.71 0.821654
Target:  5'- gCGCGCCGCGGCAcAAAgcaugCUGaacgcgCCGCGc -3'
miRNA:   3'- aGCGUGGUGUCGU-UUUa----GACa-----GGCGU- -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.