miRNA display CGI


Results 1 - 12 of 12 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
27368 3' -49.2 NC_005857.1 + 2597 0.67 0.941729
Target:  5'- cGCAAGcgccguUUCCgGCGUGaucaUGAcACCGGCu -3'
miRNA:   3'- -UGUUU------AAGGgCGCAUa---GCUaUGGCCG- -5'
27368 3' -49.2 NC_005857.1 + 34529 0.67 0.936421
Target:  5'- -----aUCCCG-GUggCGGUACCGGa -3'
miRNA:   3'- uguuuaAGGGCgCAuaGCUAUGGCCg -5'
27368 3' -49.2 NC_005857.1 + 17656 0.67 0.930813
Target:  5'- uGCAGAUUgCgGCGaUGUucUGGUACCGcGCg -3'
miRNA:   3'- -UGUUUAAgGgCGC-AUA--GCUAUGGC-CG- -5'
27368 3' -49.2 NC_005857.1 + 46110 0.67 0.930813
Target:  5'- gGCAcuUUgUCGCGUAUCcagGCUGGCc -3'
miRNA:   3'- -UGUuuAAgGGCGCAUAGcuaUGGCCG- -5'
27368 3' -49.2 NC_005857.1 + 7741 0.67 0.930813
Target:  5'- cGCAuGUgcugCCCGgucgaCGUuucGUCGAaGCCGGCa -3'
miRNA:   3'- -UGUuUAa---GGGC-----GCA---UAGCUaUGGCCG- -5'
27368 3' -49.2 NC_005857.1 + 40201 0.67 0.930236
Target:  5'- cCGGGUUCCUGCGUAccucaacUCuGGUcuACCGGg -3'
miRNA:   3'- uGUUUAAGGGCGCAU-------AG-CUA--UGGCCg -5'
27368 3' -49.2 NC_005857.1 + 13489 0.68 0.912195
Target:  5'- gGCAGAcaUCCUGCG-AUgGGUcaucaACCGGCu -3'
miRNA:   3'- -UGUUUa-AGGGCGCaUAgCUA-----UGGCCG- -5'
27368 3' -49.2 NC_005857.1 + 10550 0.68 0.890911
Target:  5'- gGCGAA--CCgGCagaUGUCGAUAUCGGCc -3'
miRNA:   3'- -UGUUUaaGGgCGc--AUAGCUAUGGCCG- -5'
27368 3' -49.2 NC_005857.1 + 32195 0.69 0.858579
Target:  5'- cCAGGUUgCCCGUGaGUUGGUACaagaGGCc -3'
miRNA:   3'- uGUUUAA-GGGCGCaUAGCUAUGg---CCG- -5'
27368 3' -49.2 NC_005857.1 + 18586 0.69 0.848947
Target:  5'- aACGGGgacgCCCGCGUGgagUGGUcaaauccGCUGGCg -3'
miRNA:   3'- -UGUUUaa--GGGCGCAUa--GCUA-------UGGCCG- -5'
27368 3' -49.2 NC_005857.1 + 1722 0.71 0.792532
Target:  5'- uCAAuUUCCCGCGUAaauaaCGuAUcCCGGCg -3'
miRNA:   3'- uGUUuAAGGGCGCAUa----GC-UAuGGCCG- -5'
27368 3' -49.2 NC_005857.1 + 17100 1.14 0.002128
Target:  5'- gACAAAUUCCCGCGUAUCGAUACCGGCg -3'
miRNA:   3'- -UGUUUAAGGGCGCAUAGCUAUGGCCG- -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.