miRNA display CGI


Results 1 - 20 of 21 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
5426 3' -58.9 NC_001798.1 + 15454 0.66 0.780309
Target:  5'- ---gGGGCgGGGgGUCgCG-UGGGUAg -3'
miRNA:   3'- aauaCCCGgCCCgCAGgGCuACUCAU- -5'
5426 3' -58.9 NC_001798.1 + 152277 0.66 0.771023
Target:  5'- ---cGGGCCGGG-GUUCC-AUGAGc- -3'
miRNA:   3'- aauaCCCGGCCCgCAGGGcUACUCau -5'
5426 3' -58.9 NC_001798.1 + 147153 0.66 0.771023
Target:  5'- ----cGGCCGGGgGUCCCG---GGUAg -3'
miRNA:   3'- aauacCCGGCCCgCAGGGCuacUCAU- -5'
5426 3' -58.9 NC_001798.1 + 38428 0.66 0.765392
Target:  5'- ---cGGGCCGGGCcGgggccccacauuuaUCCGGUGGGUc -3'
miRNA:   3'- aauaCCCGGCCCG-Ca-------------GGGCUACUCAu -5'
5426 3' -58.9 NC_001798.1 + 19729 0.66 0.757818
Target:  5'- ---cGGGCUGGGgGUCCCGcgcucauggccgGAGa- -3'
miRNA:   3'- aauaCCCGGCCCgCAGGGCua----------CUCau -5'
5426 3' -58.9 NC_001798.1 + 2325 0.66 0.752092
Target:  5'- ---aGGGCCGGGCG-CCaCGGcgcgGGGa- -3'
miRNA:   3'- aauaCCCGGCCCGCaGG-GCUa---CUCau -5'
5426 3' -58.9 NC_001798.1 + 44399 0.66 0.752092
Target:  5'- -cGUGGGCCGGGagcaaugggGUCCCGcgGcccAGg- -3'
miRNA:   3'- aaUACCCGGCCCg--------CAGGGCuaC---UCau -5'
5426 3' -58.9 NC_001798.1 + 61038 0.66 0.752092
Target:  5'- ---gGGGCCGGGgGaCCCGAgccacaGAGc- -3'
miRNA:   3'- aauaCCCGGCCCgCaGGGCUa-----CUCau -5'
5426 3' -58.9 NC_001798.1 + 84107 0.66 0.742464
Target:  5'- ----cGGCCGGGCGUCCagGccGAGg- -3'
miRNA:   3'- aauacCCGGCCCGCAGGg-CuaCUCau -5'
5426 3' -58.9 NC_001798.1 + 10745 0.66 0.732741
Target:  5'- uUUGUGGGCCcgGGuGCGUUCCGcgGGc-- -3'
miRNA:   3'- -AAUACCCGG--CC-CGCAGGGCuaCUcau -5'
5426 3' -58.9 NC_001798.1 + 131391 0.67 0.722932
Target:  5'- ---gGGGCCcGGCGUCCCaucggggauGAcGAGUGc -3'
miRNA:   3'- aauaCCCGGcCCGCAGGG---------CUaCUCAU- -5'
5426 3' -58.9 NC_001798.1 + 5955 0.67 0.693075
Target:  5'- ---aGGGCC-GGCGUCCCGGUc---- -3'
miRNA:   3'- aauaCCCGGcCCGCAGGGCUAcucau -5'
5426 3' -58.9 NC_001798.1 + 90406 0.68 0.662765
Target:  5'- --uUGGGCCGGcGCGuUCCCGcggccgggcuUGAGg- -3'
miRNA:   3'- aauACCCGGCC-CGC-AGGGCu---------ACUCau -5'
5426 3' -58.9 NC_001798.1 + 15055 0.68 0.662765
Target:  5'- -gAUGGGCCcgGGGCG-CgCGggGGGUGg -3'
miRNA:   3'- aaUACCCGG--CCCGCaGgGCuaCUCAU- -5'
5426 3' -58.9 NC_001798.1 + 23713 0.68 0.652601
Target:  5'- ----cGGCCGGGCGgcCCCGgcGGGUc -3'
miRNA:   3'- aauacCCGGCCCGCa-GGGCuaCUCAu -5'
5426 3' -58.9 NC_001798.1 + 11635 0.68 0.611865
Target:  5'- ---cGGGCgCGGGCGUCCCuGUGu--- -3'
miRNA:   3'- aauaCCCG-GCCCGCAGGGcUACucau -5'
5426 3' -58.9 NC_001798.1 + 102658 0.69 0.6017
Target:  5'- ---gGGGCCgGGGCG-CCCGAUGc--- -3'
miRNA:   3'- aauaCCCGG-CCCGCaGGGCUACucau -5'
5426 3' -58.9 NC_001798.1 + 108119 0.7 0.521736
Target:  5'- cUGUGGGUggugaUGGGgGUCCUGGUGGGc- -3'
miRNA:   3'- aAUACCCG-----GCCCgCAGGGCUACUCau -5'
5426 3' -58.9 NC_001798.1 + 79949 0.7 0.492765
Target:  5'- --cUGGGCUGGGCGUCCgGAg----- -3'
miRNA:   3'- aauACCCGGCCCGCAGGgCUacucau -5'
5426 3' -58.9 NC_001798.1 + 69163 0.72 0.428305
Target:  5'- ----cGGCCGGGCGgagCCCGAUGGc-- -3'
miRNA:   3'- aauacCCGGCCCGCa--GGGCUACUcau -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.