miRNA display CGI


Results 1 - 17 of 17 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
3505 3' -46.6 NC_001623.1 + 59494 0.66 0.999889
Target:  5'- gCGUGUaCAaaccgaCAGUGCGCAAACg--- -3'
miRNA:   3'- gGUAUAaGUg-----GUCGCGCGUUUGaaug -5'
3505 3' -46.6 NC_001623.1 + 98792 0.66 0.999889
Target:  5'- aCAUGca-ACUGGCGCGCuuguuAugUUACa -3'
miRNA:   3'- gGUAUaagUGGUCGCGCGu----UugAAUG- -5'
3505 3' -46.6 NC_001623.1 + 12247 0.66 0.999889
Target:  5'- uCCGg--UCAUCAaCGCGCAAAUgaACa -3'
miRNA:   3'- -GGUauaAGUGGUcGCGCGUUUGaaUG- -5'
3505 3' -46.6 NC_001623.1 + 30229 0.66 0.999854
Target:  5'- uCCAa---CAUguGCGCGCAGACg--- -3'
miRNA:   3'- -GGUauaaGUGguCGCGCGUUUGaaug -5'
3505 3' -46.6 NC_001623.1 + 73291 0.66 0.999854
Target:  5'- aUCGUGUUCGCCauuuauaacaAGCuGCGCcAAUUUAg -3'
miRNA:   3'- -GGUAUAAGUGG----------UCG-CGCGuUUGAAUg -5'
3505 3' -46.6 NC_001623.1 + 95143 0.66 0.999811
Target:  5'- -----aUUACaUAGCGCGCGGGCUguuUGCg -3'
miRNA:   3'- gguauaAGUG-GUCGCGCGUUUGA---AUG- -5'
3505 3' -46.6 NC_001623.1 + 50343 0.66 0.999687
Target:  5'- cUCAUGUUUAUguuuuugccaCAGCGCGUAAACc--- -3'
miRNA:   3'- -GGUAUAAGUG----------GUCGCGCGUUUGaaug -5'
3505 3' -46.6 NC_001623.1 + 66509 0.67 0.999219
Target:  5'- aCCAaauagAUUCACCGGCGU-CGAGCg--- -3'
miRNA:   3'- -GGUa----UAAGUGGUCGCGcGUUUGaaug -5'
3505 3' -46.6 NC_001623.1 + 76533 0.68 0.998814
Target:  5'- gCCGUGUUCGCCcGaCGCGUAucaugACg -3'
miRNA:   3'- -GGUAUAAGUGGuC-GCGCGUuugaaUG- -5'
3505 3' -46.6 NC_001623.1 + 40441 0.68 0.998551
Target:  5'- --uUAUUCaACCgAGCGUGCAugUUUGCa -3'
miRNA:   3'- gguAUAAG-UGG-UCGCGCGUuuGAAUG- -5'
3505 3' -46.6 NC_001623.1 + 24080 0.68 0.998551
Target:  5'- uCCAUAUUCugCAGCuCGUuuACg--- -3'
miRNA:   3'- -GGUAUAAGugGUCGcGCGuuUGaaug -5'
3505 3' -46.6 NC_001623.1 + 12173 0.68 0.998551
Target:  5'- cCCGUGccgC-CCAGCGUGCAGuauCUUGg -3'
miRNA:   3'- -GGUAUaa-GuGGUCGCGCGUUu--GAAUg -5'
3505 3' -46.6 NC_001623.1 + 80251 0.69 0.996958
Target:  5'- aCCAUGa-CGCgCGGCGCcGCAAACUUu- -3'
miRNA:   3'- -GGUAUaaGUG-GUCGCG-CGUUUGAAug -5'
3505 3' -46.6 NC_001623.1 + 99610 0.69 0.996958
Target:  5'- gCGUGaUCuCCAGCGCuGCAAACg--- -3'
miRNA:   3'- gGUAUaAGuGGUCGCG-CGUUUGaaug -5'
3505 3' -46.6 NC_001623.1 + 65958 0.69 0.996795
Target:  5'- aCAUAUUCaauuacauggccgaGCUGGCGaCGCGAGCcgGCa -3'
miRNA:   3'- gGUAUAAG--------------UGGUCGC-GCGUUUGaaUG- -5'
3505 3' -46.6 NC_001623.1 + 122833 0.74 0.938448
Target:  5'- cCCGUuaUCAauuacuuauacuauCCGGCGCGCAAGCgaGCg -3'
miRNA:   3'- -GGUAuaAGU--------------GGUCGCGCGUUUGaaUG- -5'
3505 3' -46.6 NC_001623.1 + 66831 1.14 0.009737
Target:  5'- gCCAUAUUCACCAGCGCGCAAACUUACa -3'
miRNA:   3'- -GGUAUAAGUGGUCGCGCGUUUGAAUG- -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.