miRNA display CGI


Results 1 - 16 of 16 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
16406 5' -52.9 NC_004084.1 + 39255 0.66 0.853265
Target:  5'- aAGGGCGGCGGGaagaUgGUGGUCGucgaucGCGu -3'
miRNA:   3'- cUCCUGCUGCUCa---AgCACCAGUu-----CGU- -5'
16406 5' -52.9 NC_004084.1 + 33256 0.66 0.826661
Target:  5'- uGAGGACGuCGAGgaCGUcGUCA-GCu -3'
miRNA:   3'- -CUCCUGCuGCUCaaGCAcCAGUuCGu -5'
16406 5' -52.9 NC_004084.1 + 52580 0.66 0.826661
Target:  5'- cGAGGACuGCGGcggCGUGGUCcGGUg -3'
miRNA:   3'- -CUCCUGcUGCUcaaGCACCAGuUCGu -5'
16406 5' -52.9 NC_004084.1 + 32102 0.67 0.817361
Target:  5'- -uGGACGAgcuCGAGcagcUCGUcGUCGAGCAc -3'
miRNA:   3'- cuCCUGCU---GCUCa---AGCAcCAGUUCGU- -5'
16406 5' -52.9 NC_004084.1 + 49884 0.67 0.807862
Target:  5'- cGGGACGAUGGGUcUUGUGGcUCAAc-- -3'
miRNA:   3'- cUCCUGCUGCUCA-AGCACC-AGUUcgu -5'
16406 5' -52.9 NC_004084.1 + 58075 0.67 0.807862
Target:  5'- aGAGGccaccuggcucaACGACGAGUUCGgcGGccUCAuGCAg -3'
miRNA:   3'- -CUCC------------UGCUGCUCAAGCa-CC--AGUuCGU- -5'
16406 5' -52.9 NC_004084.1 + 24012 0.67 0.798174
Target:  5'- aAGGagauccGCGGCGuAGUUgCGUGGgagCAAGCGg -3'
miRNA:   3'- cUCC------UGCUGC-UCAA-GCACCa--GUUCGU- -5'
16406 5' -52.9 NC_004084.1 + 53259 0.68 0.768089
Target:  5'- cGAcGGCGACGAGaUCG-GGcCGGGCGa -3'
miRNA:   3'- -CUcCUGCUGCUCaAGCaCCaGUUCGU- -5'
16406 5' -52.9 NC_004084.1 + 1037 0.68 0.757759
Target:  5'- cGGGGGCGcgcuCGAGUUCGccgaGGUCGaacAGCc -3'
miRNA:   3'- -CUCCUGCu---GCUCAAGCa---CCAGU---UCGu -5'
16406 5' -52.9 NC_004084.1 + 16345 0.68 0.747297
Target:  5'- cGAccGCGACGAGUUgcuucgCGUGGUgGAGCu -3'
miRNA:   3'- -CUccUGCUGCUCAA------GCACCAgUUCGu -5'
16406 5' -52.9 NC_004084.1 + 30852 0.68 0.726026
Target:  5'- aGAGGugGGCGGcccgcucgucacGUUCGaUGG-CGAGCu -3'
miRNA:   3'- -CUCCugCUGCU------------CAAGC-ACCaGUUCGu -5'
16406 5' -52.9 NC_004084.1 + 2860 0.69 0.704372
Target:  5'- cAGGcCGACGAGUUCGUcgcGGcCAgccAGCGc -3'
miRNA:   3'- cUCCuGCUGCUCAAGCA---CCaGU---UCGU- -5'
16406 5' -52.9 NC_004084.1 + 50143 0.7 0.626904
Target:  5'- -cGGAUGACGAGgUCGUuGUCGAGgAu -3'
miRNA:   3'- cuCCUGCUGCUCaAGCAcCAGUUCgU- -5'
16406 5' -52.9 NC_004084.1 + 14403 0.71 0.581397
Target:  5'- cGGGGCGAUGuucucgaAGUUCGUcGGUCAgcucgGGCAg -3'
miRNA:   3'- cUCCUGCUGC-------UCAAGCA-CCAGU-----UCGU- -5'
16406 5' -52.9 NC_004084.1 + 49878 0.71 0.571483
Target:  5'- uGAGGACGuCGAucUCGaGGUCGGGUAc -3'
miRNA:   3'- -CUCCUGCuGCUcaAGCaCCAGUUCGU- -5'
16406 5' -52.9 NC_004084.1 + 19593 1.09 0.001986
Target:  5'- cGAGGACGACGAGUUCGUGGUCAAGCAc -3'
miRNA:   3'- -CUCCUGCUGCUCAAGCACCAGUUCGU- -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.