miRNA display CGI


Results 1 - 20 of 76 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
11411 3' -58.1 NC_003085.1 + 46977 1.09 0.000392
Target:  5'- gCUGAAGCGCCGCGCUGAUGGCCACACu -3'
miRNA:   3'- -GACUUCGCGGCGCGACUACCGGUGUG- -5'
11411 3' -58.1 NC_003085.1 + 34541 0.8 0.056951
Target:  5'- uUGGAGCGCCacGCGCUGgcGGCCgguGCGCa -3'
miRNA:   3'- gACUUCGCGG--CGCGACuaCCGG---UGUG- -5'
11411 3' -58.1 NC_003085.1 + 17967 0.76 0.11029
Target:  5'- cCUGAAGCGCCggcaGCGCg---GGCCGCAg -3'
miRNA:   3'- -GACUUCGCGG----CGCGacuaCCGGUGUg -5'
11411 3' -58.1 NC_003085.1 + 35172 0.75 0.126947
Target:  5'- aCUGAGggcuGCGCgGCGCuUGAcggcagcagccUGGCCGCACg -3'
miRNA:   3'- -GACUU----CGCGgCGCG-ACU-----------ACCGGUGUG- -5'
11411 3' -58.1 NC_003085.1 + 45761 0.74 0.145908
Target:  5'- gUGGcaCGUCGCGCUGcGUGGCCGCAUc -3'
miRNA:   3'- gACUucGCGGCGCGAC-UACCGGUGUG- -5'
11411 3' -58.1 NC_003085.1 + 15121 0.74 0.167418
Target:  5'- aUGGAGCGCCGCGCcGcGUGGUgcgacgaGCACg -3'
miRNA:   3'- gACUUCGCGGCGCGaC-UACCGg------UGUG- -5'
11411 3' -58.1 NC_003085.1 + 43447 0.73 0.172048
Target:  5'- -aGggGUGCCGCGCUGcUGagcgaugacGUCACGCa -3'
miRNA:   3'- gaCuuCGCGGCGCGACuAC---------CGGUGUG- -5'
11411 3' -58.1 NC_003085.1 + 17666 0.73 0.175834
Target:  5'- -gGAGGCGCUgGCGCUGAgaccgacgacgcGGCCAgGCa -3'
miRNA:   3'- gaCUUCGCGG-CGCGACUa-----------CCGGUgUG- -5'
11411 3' -58.1 NC_003085.1 + 3618 0.73 0.181653
Target:  5'- cCUGGAcguGCGCCGCGaCUGGcUGGCCgagagggacgcuGCACu -3'
miRNA:   3'- -GACUU---CGCGGCGC-GACU-ACCGG------------UGUG- -5'
11411 3' -58.1 NC_003085.1 + 7575 0.72 0.196948
Target:  5'- gCUGGAGuCGCUGCGUcag-GGCUACACg -3'
miRNA:   3'- -GACUUC-GCGGCGCGacuaCCGGUGUG- -5'
11411 3' -58.1 NC_003085.1 + 40610 0.72 0.196948
Target:  5'- -cGAGGgGCCuGUGCUGAcGGCCGCu- -3'
miRNA:   3'- gaCUUCgCGG-CGCGACUaCCGGUGug -5'
11411 3' -58.1 NC_003085.1 + 46685 0.72 0.202291
Target:  5'- cCUGGAGCGCCGcCGCUGccugcuuccGGCCAg-- -3'
miRNA:   3'- -GACUUCGCGGC-GCGACua-------CCGGUgug -5'
11411 3' -58.1 NC_003085.1 + 31537 0.72 0.20776
Target:  5'- --aGAGCGCCGCGCUG--GGCgCAgGCa -3'
miRNA:   3'- gacUUCGCGGCGCGACuaCCG-GUgUG- -5'
11411 3' -58.1 NC_003085.1 + 8341 0.72 0.213356
Target:  5'- -cGggGUGCCGCGCUcGGccugGGCCucCACc -3'
miRNA:   3'- gaCuuCGCGGCGCGA-CUa---CCGGu-GUG- -5'
11411 3' -58.1 NC_003085.1 + 37848 0.72 0.213356
Target:  5'- cCUGGuAGCGCUgccuGCGCUGGccGGCCAgACg -3'
miRNA:   3'- -GACU-UCGCGG----CGCGACUa-CCGGUgUG- -5'
11411 3' -58.1 NC_003085.1 + 39597 0.72 0.224936
Target:  5'- gCUGGAGCGCguCGCGgaGcgcaccgagcagGUGGCCGCAg -3'
miRNA:   3'- -GACUUCGCG--GCGCgaC------------UACCGGUGUg -5'
11411 3' -58.1 NC_003085.1 + 48972 0.71 0.230924
Target:  5'- ----cGCGCCuucaucuccGCGCUGAUGGCCgucguGCGCu -3'
miRNA:   3'- gacuuCGCGG---------CGCGACUACCGG-----UGUG- -5'
11411 3' -58.1 NC_003085.1 + 34684 0.71 0.239532
Target:  5'- gCUGAcuuucgaugucaacaGGCGCCG-GUUGcAUGGCCACGg -3'
miRNA:   3'- -GACU---------------UCGCGGCgCGAC-UACCGGUGUg -5'
11411 3' -58.1 NC_003085.1 + 25133 0.71 0.243302
Target:  5'- --aGAGCGCCGCGgaGAugucguUGGCCAUg- -3'
miRNA:   3'- gacUUCGCGGCGCgaCU------ACCGGUGug -5'
11411 3' -58.1 NC_003085.1 + 11886 0.71 0.243302
Target:  5'- cCUGAGcGCGCCGaGUUcAUGGCCAgGCg -3'
miRNA:   3'- -GACUU-CGCGGCgCGAcUACCGGUgUG- -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.