miRNA display CGI


Results 1 - 15 of 15 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
11514 3' -56.8 NC_003085.1 + 48410 0.66 0.626003
Target:  5'- -gUCUGCCUcGGCggcgCUGgcUUCCUCCg -3'
miRNA:   3'- gaAGGCGGAcCCGa---GAUguAGGGAGG- -5'
11514 3' -56.8 NC_003085.1 + 40289 0.66 0.615025
Target:  5'- uCUgcgCCgGCCUGGGCa--GCGUcgCCCUCUa -3'
miRNA:   3'- -GAa--GG-CGGACCCGagaUGUA--GGGAGG- -5'
11514 3' -56.8 NC_003085.1 + 24854 0.66 0.601873
Target:  5'- aUUCuCGCCUGGGCcggcaaccucacCUGCAgcggcgCCCaguUCCa -3'
miRNA:   3'- gAAG-GCGGACCCGa-----------GAUGUa-----GGG---AGG- -5'
11514 3' -56.8 NC_003085.1 + 46681 0.66 0.593124
Target:  5'- --gCCGCCUGGaGCgccgccgCUGCcUgCUUCCg -3'
miRNA:   3'- gaaGGCGGACC-CGa------GAUGuAgGGAGG- -5'
11514 3' -56.8 NC_003085.1 + 31991 0.66 0.593124
Target:  5'- ---aCGCCUgGGGCUggcgCUGCcUCCCUUg -3'
miRNA:   3'- gaagGCGGA-CCCGA----GAUGuAGGGAGg -5'
11514 3' -56.8 NC_003085.1 + 41018 0.66 0.593124
Target:  5'- --aUCGCCgUGGGCgUCgcugGCGU-CCUCCu -3'
miRNA:   3'- gaaGGCGG-ACCCG-AGa---UGUAgGGAGG- -5'
11514 3' -56.8 NC_003085.1 + 41182 0.67 0.560539
Target:  5'- -cUCgGCCUGGGC-CUcCA-CCCagUCCa -3'
miRNA:   3'- gaAGgCGGACCCGaGAuGUaGGG--AGG- -5'
11514 3' -56.8 NC_003085.1 + 23530 0.67 0.549781
Target:  5'- --gCUGCgCUGGGcCUCcgucaUGCGUCCCUgCu -3'
miRNA:   3'- gaaGGCG-GACCC-GAG-----AUGUAGGGAgG- -5'
11514 3' -56.8 NC_003085.1 + 19593 0.67 0.549781
Target:  5'- -gUCCG-CUGGGCUgCUcgaaaaGCucguagCCCUCCg -3'
miRNA:   3'- gaAGGCgGACCCGA-GA------UGua----GGGAGG- -5'
11514 3' -56.8 NC_003085.1 + 15171 0.67 0.507465
Target:  5'- -aUCCGCUcgucgaGGGUgaggCgcCGUCCCUCCu -3'
miRNA:   3'- gaAGGCGGa-----CCCGa---GauGUAGGGAGG- -5'
11514 3' -56.8 NC_003085.1 + 10661 0.68 0.476656
Target:  5'- -cUCaGCCUGGGCUgccucgugCUGCGcCCgCUCCu -3'
miRNA:   3'- gaAGgCGGACCCGA--------GAUGUaGG-GAGG- -5'
11514 3' -56.8 NC_003085.1 + 10484 0.69 0.445826
Target:  5'- aUUUCGCCUGGGgUUUucauagcguguccACGUCuCCUUCg -3'
miRNA:   3'- gAAGGCGGACCCgAGA-------------UGUAG-GGAGG- -5'
11514 3' -56.8 NC_003085.1 + 8349 0.69 0.42749
Target:  5'- ---gCGCCUugaacuugagcGGGCUCaugGCA-CCCUCCg -3'
miRNA:   3'- gaagGCGGA-----------CCCGAGa--UGUaGGGAGG- -5'
11514 3' -56.8 NC_003085.1 + 40252 0.78 0.117808
Target:  5'- --gCCGCCgGGGC-CUACGUCCCgCCc -3'
miRNA:   3'- gaaGGCGGaCCCGaGAUGUAGGGaGG- -5'
11514 3' -56.8 NC_003085.1 + 1357 1.11 0.000471
Target:  5'- gCUUCCGCCUGGGCUCUACAUCCCUCCc -3'
miRNA:   3'- -GAAGGCGGACCCGAGAUGUAGGGAGG- -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.