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
7959 3' -58 NC_001973.1 + 9628 0.66 0.848056
Target:  5'- cGAUCgccgCUGGcGuUCGGcUCGAGgGCGCGg -3'
miRNA:   3'- -UUAGa---GACCuC-GGCC-AGCUCgUGCGC- -5'
7959 3' -58 NC_001973.1 + 113886 0.66 0.848056
Target:  5'- uAUCUUUaaucGAGCCGGcucgCGAGCACgGCa -3'
miRNA:   3'- uUAGAGAc---CUCGGCCa---GCUCGUG-CGc -5'
7959 3' -58 NC_001973.1 + 146052 0.66 0.84008
Target:  5'- gAGUCUaaggUUGGgccgcggcgccgAGCCGGcUCGGGCGgGCGg -3'
miRNA:   3'- -UUAGA----GACC------------UCGGCC-AGCUCGUgCGC- -5'
7959 3' -58 NC_001973.1 + 109152 0.66 0.831919
Target:  5'- --cCUCgacgagccggGcGAGCCGGUCGcccGCGCGCu -3'
miRNA:   3'- uuaGAGa---------C-CUCGGCCAGCu--CGUGCGc -5'
7959 3' -58 NC_001973.1 + 80184 0.66 0.82358
Target:  5'- --gCUCgGcGAGCaGGcCGAGCGCGCa -3'
miRNA:   3'- uuaGAGaC-CUCGgCCaGCUCGUGCGc -5'
7959 3' -58 NC_001973.1 + 113952 0.66 0.806399
Target:  5'- -------cGAGCCGGcucgCGAGCACGCa -3'
miRNA:   3'- uuagagacCUCGGCCa---GCUCGUGCGc -5'
7959 3' -58 NC_001973.1 + 158815 0.66 0.806399
Target:  5'- gGGUCaaaUUGaAGCCGGcggcCGAGCGCGCGg -3'
miRNA:   3'- -UUAGa--GACcUCGGCCa---GCUCGUGCGC- -5'
7959 3' -58 NC_001973.1 + 146004 0.67 0.797572
Target:  5'- --gCUCggGGAgcggguccGCCGGcUCGAGCGCGgGu -3'
miRNA:   3'- uuaGAGa-CCU--------CGGCC-AGCUCGUGCgC- -5'
7959 3' -58 NC_001973.1 + 101142 0.67 0.779489
Target:  5'- -cUCgugUUGGAGCUGagcaCGAGCGCGCa -3'
miRNA:   3'- uuAGa--GACCUCGGCca--GCUCGUGCGc -5'
7959 3' -58 NC_001973.1 + 134851 0.67 0.779489
Target:  5'- --aCUCUuGGGCUGG-CaGAGCACGCa -3'
miRNA:   3'- uuaGAGAcCUCGGCCaG-CUCGUGCGc -5'
7959 3' -58 NC_001973.1 + 105677 0.67 0.751416
Target:  5'- --gUUUUGcGAGUCGGUCGugagcGGCACGCu -3'
miRNA:   3'- uuaGAGAC-CUCGGCCAGC-----UCGUGCGc -5'
7959 3' -58 NC_001973.1 + 97124 0.68 0.732172
Target:  5'- ----cCUGGAGuuGGUCGAGaacgaaACGCc -3'
miRNA:   3'- uuagaGACCUCggCCAGCUCg-----UGCGc -5'
7959 3' -58 NC_001973.1 + 35558 0.68 0.712588
Target:  5'- -----gUGGAGCCGGcgaagCGAGC-CGCGu -3'
miRNA:   3'- uuagagACCUCGGCCa----GCUCGuGCGC- -5'
7959 3' -58 NC_001973.1 + 24117 0.68 0.692736
Target:  5'- uGUCgCU-GAGCCGGgCGAGCuCGCGg -3'
miRNA:   3'- uUAGaGAcCUCGGCCaGCUCGuGCGC- -5'
7959 3' -58 NC_001973.1 + 158740 0.71 0.56179
Target:  5'- gAGUCcagCUGaAGCCGGcgacCGAGCGCGCGc -3'
miRNA:   3'- -UUAGa--GACcUCGGCCa---GCUCGUGCGC- -5'
7959 3' -58 NC_001973.1 + 52625 0.72 0.512744
Target:  5'- aAGUCg--GGAcGCCGGUCGAcgaGCACGCc -3'
miRNA:   3'- -UUAGagaCCU-CGGCCAGCU---CGUGCGc -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.