miRNA display CGI


Results 41 - 58 of 58 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
24905 3' -49.9 NC_005284.1 + 34339 0.73 0.641476
Target:  5'- uGAAACUGGCUgCGCGcGCAGuuacgcCGCAGg -3'
miRNA:   3'- gCUUUGGCCGAaGUGCuUGUU------GCGUC- -5'
24905 3' -49.9 NC_005284.1 + 11011 0.74 0.584718
Target:  5'- aCGAGGCCGGCcaUGCGGGCcuGCGCAu -3'
miRNA:   3'- -GCUUUGGCCGaaGUGCUUGu-UGCGUc -5'
24905 3' -49.9 NC_005284.1 + 13246 0.74 0.562242
Target:  5'- gGAAuUUGGCggCACGGACGACGCGa -3'
miRNA:   3'- gCUUuGGCCGaaGUGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 16024 0.76 0.485874
Target:  5'- uGAGGCCGGCgUCGCGcgcCGACGuCAGg -3'
miRNA:   3'- gCUUUGGCCGaAGUGCuu-GUUGC-GUC- -5'
24905 3' -49.9 NC_005284.1 + 9993 0.69 0.851029
Target:  5'- cCGcuGCUGcGCgagCGCGAGCGACGCu- -3'
miRNA:   3'- -GCuuUGGC-CGaa-GUGCUUGUUGCGuc -5'
24905 3' -49.9 NC_005284.1 + 40265 0.68 0.868071
Target:  5'- gGAcGCCGGaguuggUCGCGAcgcACGugGCGGu -3'
miRNA:   3'- gCUuUGGCCga----AGUGCU---UGUugCGUC- -5'
24905 3' -49.9 NC_005284.1 + 45023 0.66 0.95158
Target:  5'- cCGAAGCaCGGCgg-GCGAuACAccgagGCGCGGu -3'
miRNA:   3'- -GCUUUG-GCCGaagUGCU-UGU-----UGCGUC- -5'
24905 3' -49.9 NC_005284.1 + 3844 0.66 0.95158
Target:  5'- uGAGGCCGGCc-CAUGAuccgauCGGCGUAu -3'
miRNA:   3'- gCUUUGGCCGaaGUGCUu-----GUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 34030 0.66 0.946904
Target:  5'- ---cGCCGGCcgacgaGCGGGCGGCGCu- -3'
miRNA:   3'- gcuuUGGCCGaag---UGCUUGUUGCGuc -5'
24905 3' -49.9 NC_005284.1 + 40196 0.66 0.941938
Target:  5'- gCGAAGCCGGaagUCGCGGcaGugGCc- -3'
miRNA:   3'- -GCUUUGGCCga-AGUGCUugUugCGuc -5'
24905 3' -49.9 NC_005284.1 + 44402 0.66 0.936681
Target:  5'- gCGAuuUCGaGUgcCGCGGGCAugGCAGu -3'
miRNA:   3'- -GCUuuGGC-CGaaGUGCUUGUugCGUC- -5'
24905 3' -49.9 NC_005284.1 + 5764 0.67 0.925283
Target:  5'- gCGAAuCCGGCgggucaaccUCGCGAAUAAggccguucacuCGCAGu -3'
miRNA:   3'- -GCUUuGGCCGa--------AGUGCUUGUU-----------GCGUC- -5'
24905 3' -49.9 NC_005284.1 + 54865 0.67 0.925283
Target:  5'- -GAAGCgGGCggUCcCGAagGCAGCGCc- -3'
miRNA:   3'- gCUUUGgCCGa-AGuGCU--UGUUGCGuc -5'
24905 3' -49.9 NC_005284.1 + 47300 0.67 0.919142
Target:  5'- aGAGcACCGGCUcgagCACGcccuGC-ACGCGGu -3'
miRNA:   3'- gCUU-UGGCCGAa---GUGCu---UGuUGCGUC- -5'
24905 3' -49.9 NC_005284.1 + 39114 0.67 0.912705
Target:  5'- cCGAccuACUGGaucacuUUCACGGACGAUGCGu -3'
miRNA:   3'- -GCUu--UGGCCg-----AAGUGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 45648 0.67 0.912705
Target:  5'- uCGAuAGCCGaGUg-CGCGGGCGACGCGc -3'
miRNA:   3'- -GCU-UUGGC-CGaaGUGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 33884 0.68 0.898957
Target:  5'- gCGu-GCgGGCgaUUACGAACGGCGCGa -3'
miRNA:   3'- -GCuuUGgCCGa-AGUGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 52519 0.66 0.955973
Target:  5'- aGAAACCgcccaaugucGGCUUCACGAuuuuCGAaaCAGa -3'
miRNA:   3'- gCUUUGG----------CCGAAGUGCUu---GUUgcGUC- -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.