miRNA display CGI


Results 1 - 20 of 48 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
27413 3' -49.4 NC_005869.1 + 10288 0.66 0.890788
Target:  5'- gAUGGGGAggaAGAGGaggGGGC-CCGCCc -3'
miRNA:   3'- gUACCUCUgg-UUUCCa--UUUGuGGCGG- -5'
27413 3' -49.4 NC_005869.1 + 11606 0.66 0.87458
Target:  5'- --cGGGGACCGcggcgcguGAGGU-GGCAguccCCGCUg -3'
miRNA:   3'- guaCCUCUGGU--------UUCCAuUUGU----GGCGG- -5'
27413 3' -49.4 NC_005869.1 + 18890 0.66 0.87458
Target:  5'- uGUGG-GACU--GGGUGuccgcacaugcaAGCGCCGUCg -3'
miRNA:   3'- gUACCuCUGGuuUCCAU------------UUGUGGCGG- -5'
27413 3' -49.4 NC_005869.1 + 6915 0.66 0.87458
Target:  5'- gGUGGAGuaAUCGAcGG-AGGCACCGgCg -3'
miRNA:   3'- gUACCUC--UGGUUuCCaUUUGUGGCgG- -5'
27413 3' -49.4 NC_005869.1 + 11975 0.66 0.87458
Target:  5'- uGUGGAGACCuc-GGc---CAuCCGCCc -3'
miRNA:   3'- gUACCUCUGGuuuCCauuuGU-GGCGG- -5'
27413 3' -49.4 NC_005869.1 + 14992 0.66 0.873739
Target:  5'- --cGGGGugCAGcGGGUAAccgucaccgacgcGCGgCGCCg -3'
miRNA:   3'- guaCCUCugGUU-UCCAUU-------------UGUgGCGG- -5'
27413 3' -49.4 NC_005869.1 + 20403 0.67 0.866035
Target:  5'- cCAUGGAGAUCAAucu----CACgGCCa -3'
miRNA:   3'- -GUACCUCUGGUUuccauuuGUGgCGG- -5'
27413 3' -49.4 NC_005869.1 + 26934 0.67 0.866035
Target:  5'- --aGGAGAgCCAGGGGacgcuuacGACAUCGUCc -3'
miRNA:   3'- guaCCUCU-GGUUUCCau------UUGUGGCGG- -5'
27413 3' -49.4 NC_005869.1 + 16573 0.67 0.866035
Target:  5'- -cUGGAGggGCUggGGG-AGGCaccggaACCGCCg -3'
miRNA:   3'- guACCUC--UGGuuUCCaUUUG------UGGCGG- -5'
27413 3' -49.4 NC_005869.1 + 26168 0.67 0.866035
Target:  5'- -cUGGAcGCCGcgcugcAGGUGGugGCCGUCc -3'
miRNA:   3'- guACCUcUGGUu-----UCCAUUugUGGCGG- -5'
27413 3' -49.4 NC_005869.1 + 3664 0.67 0.857208
Target:  5'- -uUGGAG-CC-AAGGUGAGgG-CGCCa -3'
miRNA:   3'- guACCUCuGGuUUCCAUUUgUgGCGG- -5'
27413 3' -49.4 NC_005869.1 + 4387 0.67 0.857208
Target:  5'- -uUGGAG-CC-AAGGUGAGgG-CGCCa -3'
miRNA:   3'- guACCUCuGGuUUCCAUUUgUgGCGG- -5'
27413 3' -49.4 NC_005869.1 + 9361 0.67 0.857208
Target:  5'- --cGGGGACgGGGGGcgcaggccggGGACGgCGCCg -3'
miRNA:   3'- guaCCUCUGgUUUCCa---------UUUGUgGCGG- -5'
27413 3' -49.4 NC_005869.1 + 6464 0.67 0.857208
Target:  5'- uGUGGAggguGACCAcguccacgGAGGUGGcuaccuCGCCGCg -3'
miRNA:   3'- gUACCU----CUGGU--------UUCCAUUu-----GUGGCGg -5'
27413 3' -49.4 NC_005869.1 + 9263 0.67 0.848106
Target:  5'- --cGGGGGCguGcuGGGUccGGcCACCGCCg -3'
miRNA:   3'- guaCCUCUGguU--UCCA--UUuGUGGCGG- -5'
27413 3' -49.4 NC_005869.1 + 15061 0.67 0.838741
Target:  5'- gGUGGuGACCccGAGGGUGcuCAgCaGCCg -3'
miRNA:   3'- gUACCuCUGG--UUUCCAUuuGUgG-CGG- -5'
27413 3' -49.4 NC_005869.1 + 15843 0.67 0.829123
Target:  5'- cCGUGGAGGCCAGAGaacUAccaaagcucuucAGC-CCGCUc -3'
miRNA:   3'- -GUACCUCUGGUUUCc--AU------------UUGuGGCGG- -5'
27413 3' -49.4 NC_005869.1 + 1957 0.68 0.809177
Target:  5'- gAUGcGGGACCAGGuGGUGcccaAGCGcCCGCg -3'
miRNA:   3'- gUAC-CUCUGGUUU-CCAU----UUGU-GGCGg -5'
27413 3' -49.4 NC_005869.1 + 29273 0.68 0.809177
Target:  5'- --gGGAGACCcagaucugcGAGGgcAACuACCGCa -3'
miRNA:   3'- guaCCUCUGGu--------UUCCauUUG-UGGCGg -5'
27413 3' -49.4 NC_005869.1 + 19395 0.68 0.809177
Target:  5'- --gGGAGACCAGcagcgucuGGG-AGGCGgUGCCc -3'
miRNA:   3'- guaCCUCUGGUU--------UCCaUUUGUgGCGG- -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.