miRNA display CGI


Results 1 - 20 of 38 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
28067 3' -50.5 NC_005887.1 + 18673 0.74 0.442066
Target:  5'- -cGCgCAGuCUCGUCGAAcGUGCAGGAUGc -3'
miRNA:   3'- acUG-GUC-GAGCAGCUU-CAUGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 9458 0.66 0.879344
Target:  5'- cGACCAGgUgGUCacGGGUACGGuGGCGa -3'
miRNA:   3'- aCUGGUCgAgCAGc-UUCAUGUU-CUGC- -5'
28067 3' -50.5 NC_005887.1 + 15143 0.66 0.886442
Target:  5'- cGACCGaccccaugcaggcGCUCGacggcauggCGAAGUACcuGGCGg -3'
miRNA:   3'- aCUGGU-------------CGAGCa--------GCUUCAUGuuCUGC- -5'
28067 3' -50.5 NC_005887.1 + 14691 0.66 0.887216
Target:  5'- cGAUCgGGCUCGUCGcGGcggGCGGGcCGg -3'
miRNA:   3'- aCUGG-UCGAGCAGCuUCa--UGUUCuGC- -5'
28067 3' -50.5 NC_005887.1 + 16729 0.66 0.887216
Target:  5'- cGGCCGGCgcgaucaaGUCGGAuUACAugcggcAGACGa -3'
miRNA:   3'- aCUGGUCGag------CAGCUUcAUGU------UCUGC- -5'
28067 3' -50.5 NC_005887.1 + 31692 0.66 0.894801
Target:  5'- cGGCUGGUUCGUCGGcAGaACcucGGACGc -3'
miRNA:   3'- aCUGGUCGAGCAGCU-UCaUGu--UCUGC- -5'
28067 3' -50.5 NC_005887.1 + 24416 0.66 0.894801
Target:  5'- uUGACgAGCUCGuUCGugcgcacgcAGGUcgcgaGCAGGACa -3'
miRNA:   3'- -ACUGgUCGAGC-AGC---------UUCA-----UGUUCUGc -5'
28067 3' -50.5 NC_005887.1 + 26749 0.66 0.894801
Target:  5'- cGAUCGGCUCGUCcAGGUcgaACcAGuCGg -3'
miRNA:   3'- aCUGGUCGAGCAGcUUCA---UGuUCuGC- -5'
28067 3' -50.5 NC_005887.1 + 40786 0.66 0.894801
Target:  5'- -aGCCGGCg-GUCGAGGUuCGuGGCGg -3'
miRNA:   3'- acUGGUCGagCAGCUUCAuGUuCUGC- -5'
28067 3' -50.5 NC_005887.1 + 13465 0.67 0.854074
Target:  5'- cUGACgGGCgcgcaggCGcUGAAGgACAAGACGg -3'
miRNA:   3'- -ACUGgUCGa------GCaGCUUCaUGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 15632 0.67 0.845127
Target:  5'- cGGCCgGGCUCGcCGAu---CAGGGCGc -3'
miRNA:   3'- aCUGG-UCGAGCaGCUucauGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 5591 0.73 0.52772
Target:  5'- -cGCCAGUUCGUCGAGGccaAGGGCu -3'
miRNA:   3'- acUGGUCGAGCAGCUUCaugUUCUGc -5'
28067 3' -50.5 NC_005887.1 + 13049 0.72 0.584278
Target:  5'- cGGCCAGCgUCGcCGc-GUACAAGGCc -3'
miRNA:   3'- aCUGGUCG-AGCaGCuuCAUGUUCUGc -5'
28067 3' -50.5 NC_005887.1 + 32012 0.69 0.721823
Target:  5'- aGGCCAGCcagaacguUCGaucUCGGAuGUGCGGGGCa -3'
miRNA:   3'- aCUGGUCG--------AGC---AGCUU-CAUGUUCUGc -5'
28067 3' -50.5 NC_005887.1 + 24288 0.69 0.721823
Target:  5'- cGAUCAGUUCcUCGAuccacgACGAGACGa -3'
miRNA:   3'- aCUGGUCGAGcAGCUuca---UGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 33544 0.69 0.765609
Target:  5'- -cGCCuGCUUcugGUCG-GGUGCGAGGCGa -3'
miRNA:   3'- acUGGuCGAG---CAGCuUCAUGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 15750 0.68 0.80698
Target:  5'- gGACCAGggCa-UGAAGUACAAGGCc -3'
miRNA:   3'- aCUGGUCgaGcaGCUUCAUGUUCUGc -5'
28067 3' -50.5 NC_005887.1 + 5893 0.67 0.826503
Target:  5'- cGACCGGaaCGUCGAgcucGGUcGCcAGGCGa -3'
miRNA:   3'- aCUGGUCgaGCAGCU----UCA-UGuUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 11309 0.67 0.835933
Target:  5'- cGGCCGGCUCGgcagCGAGcgccGCAAccgcGACGg -3'
miRNA:   3'- aCUGGUCGAGCa---GCUUca--UGUU----CUGC- -5'
28067 3' -50.5 NC_005887.1 + 11786 1.09 0.002317
Target:  5'- aUGACCAGCUCGUCGAAGUACAAGACGc -3'
miRNA:   3'- -ACUGGUCGAGCAGCUUCAUGUUCUGC- -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.