miRNA display CGI


Results 1 - 20 of 136 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
28008 3' -55.1 NC_005887.1 + 205 0.67 0.643209
Target:  5'- gUUCGCCCcGCugcuCugCGAAUgcGCGCc -3'
miRNA:   3'- gGAGCGGGcUGu---GugGCUUGaaCGCG- -5'
28008 3' -55.1 NC_005887.1 + 258 0.69 0.49144
Target:  5'- gCCUCGaCCUGAU--GCCGAaagACgugGCGCg -3'
miRNA:   3'- -GGAGC-GGGCUGugUGGCU---UGaa-CGCG- -5'
28008 3' -55.1 NC_005887.1 + 314 0.66 0.687293
Target:  5'- gCCgcggugCGCgCG-UACACCGAGgaagUGCGCg -3'
miRNA:   3'- -GGa-----GCGgGCuGUGUGGCUUga--ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 541 0.67 0.61
Target:  5'- gCCgcCGCgCGcCGCGCCGGAUacaGCGCg -3'
miRNA:   3'- -GGa-GCGgGCuGUGUGGCUUGaa-CGCG- -5'
28008 3' -55.1 NC_005887.1 + 684 0.68 0.585743
Target:  5'- cCUUCGUCCGGCuCGCC-AACguagacgaagcgUGCGCc -3'
miRNA:   3'- -GGAGCGGGCUGuGUGGcUUGa-----------ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 808 0.69 0.481139
Target:  5'- aCUUCGCgUG-CGCGCCGAGCgccuCGCg -3'
miRNA:   3'- -GGAGCGgGCuGUGUGGCUUGaac-GCG- -5'
28008 3' -55.1 NC_005887.1 + 897 0.79 0.131791
Target:  5'- uCCUCGCgCGGCGUGCCGAGCa-GCGCa -3'
miRNA:   3'- -GGAGCGgGCUGUGUGGCUUGaaCGCG- -5'
28008 3' -55.1 NC_005887.1 + 982 0.66 0.709057
Target:  5'- -aUCG-CCGACACgcgcaauuGCCGGccGCcgUGCGCg -3'
miRNA:   3'- ggAGCgGGCUGUG--------UGGCU--UGa-ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 1055 0.75 0.233506
Target:  5'- uCCUUGCCCGGCggcaGCAgCGcGCccgUGCGCa -3'
miRNA:   3'- -GGAGCGGGCUG----UGUgGCuUGa--ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 1310 0.66 0.665314
Target:  5'- uUCUCgaGCUCGACcuGCACCGcGCg-GCGCc -3'
miRNA:   3'- -GGAG--CGGGCUG--UGUGGCuUGaaCGCG- -5'
28008 3' -55.1 NC_005887.1 + 1417 0.72 0.3498
Target:  5'- --gCGCUCGGCguuGCCGAACUcggUGCGCg -3'
miRNA:   3'- ggaGCGGGCUGug-UGGCUUGA---ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 1677 0.67 0.643209
Target:  5'- aUCgCGCUCGAuCGCcCCGAGCacgaGCGCa -3'
miRNA:   3'- -GGaGCGGGCU-GUGuGGCUUGaa--CGCG- -5'
28008 3' -55.1 NC_005887.1 + 1757 0.67 0.632136
Target:  5'- aCUCGCgaagccgauccUCGACAUGCUcGACcUGCGCg -3'
miRNA:   3'- gGAGCG-----------GGCUGUGUGGcUUGaACGCG- -5'
28008 3' -55.1 NC_005887.1 + 1782 0.8 0.105129
Target:  5'- aCUUGCUCGAgCGCGCCGAgaACUcgUGCGCg -3'
miRNA:   3'- gGAGCGGGCU-GUGUGGCU--UGA--ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 2423 0.67 0.61
Target:  5'- gCgUCG-UCGACGCGCCcGGCUcgaucUGCGCg -3'
miRNA:   3'- -GgAGCgGGCUGUGUGGcUUGA-----ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 2428 0.66 0.665314
Target:  5'- gCC-CGCgCCGACgaaugACACCucGC-UGCGCu -3'
miRNA:   3'- -GGaGCG-GGCUG-----UGUGGcuUGaACGCG- -5'
28008 3' -55.1 NC_005887.1 + 2508 0.69 0.501841
Target:  5'- gCCU-GCUCGuGCAC-CCGGACUgccgcacgcUGCGCa -3'
miRNA:   3'- -GGAgCGGGC-UGUGuGGCUUGA---------ACGCG- -5'
28008 3' -55.1 NC_005887.1 + 3883 0.67 0.643209
Target:  5'- ---aGCCCGGCAUacgacgccauGCCGGAUgUGCGg -3'
miRNA:   3'- ggagCGGGCUGUG----------UGGCUUGaACGCg -5'
28008 3' -55.1 NC_005887.1 + 4012 0.68 0.533594
Target:  5'- aCCUgCGuUCCGGCGCGCUGAAUUgggGUGg -3'
miRNA:   3'- -GGA-GC-GGGCUGUGUGGCUUGAa--CGCg -5'
28008 3' -55.1 NC_005887.1 + 4306 0.68 0.533594
Target:  5'- uCCUCGCcgaggCCGGCcaGCuGCCGGACaUGcCGCa -3'
miRNA:   3'- -GGAGCG-----GGCUG--UG-UGGCUUGaAC-GCG- -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.