miRNA display CGI


Results 1 - 20 of 37 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
5414 3' -58.9 NC_001798.1 + 109346 0.75 0.324086
Target:  5'- --aCUCGCGCGUGCUGgccggCCUggCCgCCCg -3'
miRNA:   3'- guaGAGCGCGCGCGACaa---GGA--GG-GGG- -5'
5414 3' -58.9 NC_001798.1 + 89312 0.75 0.338694
Target:  5'- gGUCUCGCGCGCGacc-UCCUCgcgcucguCCCCg -3'
miRNA:   3'- gUAGAGCGCGCGCgacaAGGAG--------GGGG- -5'
5414 3' -58.9 NC_001798.1 + 81765 0.74 0.353775
Target:  5'- ---aUCGCGCGCGCcccGggCCUCCgCCCc -3'
miRNA:   3'- guagAGCGCGCGCGa--CaaGGAGG-GGG- -5'
5414 3' -58.9 NC_001798.1 + 25424 0.73 0.401796
Target:  5'- --cCUCGCuggccGCGCGCUGcgCCgccccgCCCCCc -3'
miRNA:   3'- guaGAGCG-----CGCGCGACaaGGa-----GGGGG- -5'
5414 3' -58.9 NC_001798.1 + 137951 0.73 0.410194
Target:  5'- gGUC-CGcCGCGCGCUGcUCCcgcuccagcgCCCCCg -3'
miRNA:   3'- gUAGaGC-GCGCGCGACaAGGa---------GGGGG- -5'
5414 3' -58.9 NC_001798.1 + 47840 0.73 0.436026
Target:  5'- ----cCGCGCGCGCUccUCCaCCCCCc -3'
miRNA:   3'- guagaGCGCGCGCGAcaAGGaGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 82381 0.73 0.436026
Target:  5'- gCAUC-CGCGCGCGCUcgGUgccccagCCgCCCCUg -3'
miRNA:   3'- -GUAGaGCGCGCGCGA--CAa------GGaGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 121462 0.72 0.462773
Target:  5'- gCGUCcccagcgCGgGCGgGCUGUUCgUCUCCCu -3'
miRNA:   3'- -GUAGa------GCgCGCgCGACAAGgAGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 112005 0.72 0.481074
Target:  5'- uGUCUCGCGCGCGCacGcgCa--CCCCg -3'
miRNA:   3'- gUAGAGCGCGCGCGa-CaaGgagGGGG- -5'
5414 3' -58.9 NC_001798.1 + 81658 0.71 0.49972
Target:  5'- aGUCccccCGCGgaugcCGCGCU--UCCUCCCCCg -3'
miRNA:   3'- gUAGa---GCGC-----GCGCGAcaAGGAGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 72573 0.7 0.547628
Target:  5'- -----aGCGCGCGCUGgucgCgUCCCUCg -3'
miRNA:   3'- guagagCGCGCGCGACaa--GgAGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 75776 0.69 0.612821
Target:  5'- --gCUCGCGCGCccacccgaacaccCUGUUCg-CCCCCg -3'
miRNA:   3'- guaGAGCGCGCGc------------GACAAGgaGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 11627 0.69 0.626791
Target:  5'- gCcgCUCGCGgGCGCgGgcgUCCcugugUCCCCg -3'
miRNA:   3'- -GuaGAGCGCgCGCGaCa--AGGa----GGGGG- -5'
5414 3' -58.9 NC_001798.1 + 150 0.69 0.636775
Target:  5'- ----cCGCGgGCGCcGccCCUCCCCCc -3'
miRNA:   3'- guagaGCGCgCGCGaCaaGGAGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 154488 0.69 0.636775
Target:  5'- ----cCGCGgGCGCcGccCCUCCCCCc -3'
miRNA:   3'- guagaGCGCgCGCGaCaaGGAGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 65586 0.69 0.656726
Target:  5'- gAUgUUGuCGCaGCGCUGggCCUCCUCg -3'
miRNA:   3'- gUAgAGC-GCG-CGCGACaaGGAGGGGg -5'
5414 3' -58.9 NC_001798.1 + 76261 0.68 0.666677
Target:  5'- aCGUCgcucagCGCGcCGCGCUcc-CC-CCCCCg -3'
miRNA:   3'- -GUAGa-----GCGC-GCGCGAcaaGGaGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 126398 0.68 0.666677
Target:  5'- uCGUCUCGuCGC-CGCUcgUCCcccgaggCCCCCg -3'
miRNA:   3'- -GUAGAGC-GCGcGCGAcaAGGa------GGGGG- -5'
5414 3' -58.9 NC_001798.1 + 32261 0.68 0.673627
Target:  5'- gCGUC-CGCGUccgGCGCUGgggagagacgagaaaCCUCCCUCg -3'
miRNA:   3'- -GUAGaGCGCG---CGCGACaa-------------GGAGGGGG- -5'
5414 3' -58.9 NC_001798.1 + 75950 0.68 0.676602
Target:  5'- gGUCUCGCaGCGCGCcGggCC-CCUgaCCg -3'
miRNA:   3'- gUAGAGCG-CGCGCGaCaaGGaGGG--GG- -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.