miRNA display CGI


Results 1 - 20 of 57 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
28057 3' -52.2 NC_005887.1 + 41457 0.66 0.853366
Target:  5'- --aUCGAAGCCgagGCCgccugacUCGUCcGGCgGCg -3'
miRNA:   3'- gacAGCUUUGGa--UGG-------AGCAG-CUGgCG- -5'
28057 3' -52.2 NC_005887.1 + 40526 0.67 0.788488
Target:  5'- gUGUCGccgaagauGCCgUACCagGUCGGCgGCa -3'
miRNA:   3'- gACAGCuu------UGG-AUGGagCAGCUGgCG- -5'
28057 3' -52.2 NC_005887.1 + 40357 0.66 0.817914
Target:  5'- -cGUCGAGcgcgGCCgUGCCgcUCGUCG-CgCGCg -3'
miRNA:   3'- gaCAGCUU----UGG-AUGG--AGCAGCuG-GCG- -5'
28057 3' -52.2 NC_005887.1 + 39993 0.66 0.827326
Target:  5'- -cGUCGucGGCCUGCgagcgCUgGUCGcCCGCc -3'
miRNA:   3'- gaCAGCu-UUGGAUG-----GAgCAGCuGGCG- -5'
28057 3' -52.2 NC_005887.1 + 39877 0.76 0.315234
Target:  5'- -cGUCGAugauCCgcgucagcGCCUCGUCGACgGCg -3'
miRNA:   3'- gaCAGCUuu--GGa-------UGGAGCAGCUGgCG- -5'
28057 3' -52.2 NC_005887.1 + 39226 0.7 0.591054
Target:  5'- -cGUCGuu-CCacacgGCCUCGUaCGACUGCc -3'
miRNA:   3'- gaCAGCuuuGGa----UGGAGCA-GCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 36502 0.66 0.817914
Target:  5'- ---cCGGAACCgUGCg--GUCGACCGCa -3'
miRNA:   3'- gacaGCUUUGG-AUGgagCAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 34926 0.68 0.746916
Target:  5'- gCUGUgCGGAACUUGCCgUCGcCGGCUuCg -3'
miRNA:   3'- -GACA-GCUUUGGAUGG-AGCaGCUGGcG- -5'
28057 3' -52.2 NC_005887.1 + 34867 0.68 0.725345
Target:  5'- uUGaUCGcgGCCUcgaucGCCUUGUCGuuCGCg -3'
miRNA:   3'- gAC-AGCuuUGGA-----UGGAGCAGCugGCG- -5'
28057 3' -52.2 NC_005887.1 + 33048 0.67 0.802431
Target:  5'- -cGUCGGcguuucggugcccguAACCUGCggCGUCG-CCGUg -3'
miRNA:   3'- gaCAGCU---------------UUGGAUGgaGCAGCuGGCG- -5'
28057 3' -52.2 NC_005887.1 + 31240 0.68 0.722073
Target:  5'- --aUCGAAcaugccaccguucuGCC-ACCaguacUCGUCGGCCGCg -3'
miRNA:   3'- gacAGCUU--------------UGGaUGG-----AGCAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 30782 0.66 0.845494
Target:  5'- -gGUUGAAGCCcgAUUcCG-CGACCGCc -3'
miRNA:   3'- gaCAGCUUUGGa-UGGaGCaGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 30151 0.69 0.681131
Target:  5'- -aGUCGgcGCCgaUGCCggCGUCGAagUCGCg -3'
miRNA:   3'- gaCAGCuuUGG--AUGGa-GCAGCU--GGCG- -5'
28057 3' -52.2 NC_005887.1 + 29988 0.68 0.725345
Target:  5'- gCUGcUCG--GCCUGCCaCGUC-ACCGCc -3'
miRNA:   3'- -GAC-AGCuuUGGAUGGaGCAGcUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 29494 0.72 0.492567
Target:  5'- aUGUCGuAGCCggcgGCCUCGacggCGGgCGCg -3'
miRNA:   3'- gACAGCuUUGGa---UGGAGCa---GCUgGCG- -5'
28057 3' -52.2 NC_005887.1 + 29160 0.69 0.65868
Target:  5'- -cGUCG--GCCggcgGCCUgcUCGACCGCu -3'
miRNA:   3'- gaCAGCuuUGGa---UGGAgcAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 28787 0.68 0.700062
Target:  5'- -cGUCGucGGCCUGCUcgggcggcagcgcaUCGcCGAUCGCa -3'
miRNA:   3'- gaCAGCu-UUGGAUGG--------------AGCaGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 28671 0.73 0.431249
Target:  5'- -gGUCGAGAuCCcACC-CGUCGcGCCGCu -3'
miRNA:   3'- gaCAGCUUU-GGaUGGaGCAGC-UGGCG- -5'
28057 3' -52.2 NC_005887.1 + 27115 0.69 0.669924
Target:  5'- -cGUCGAcuUCaGCUUCGUCGACuCGUc -3'
miRNA:   3'- gaCAGCUuuGGaUGGAGCAGCUG-GCG- -5'
28057 3' -52.2 NC_005887.1 + 27105 0.67 0.808296
Target:  5'- aCUG-CGGcuGCCUGCUUCG--GGCCGCc -3'
miRNA:   3'- -GACaGCUu-UGGAUGGAGCagCUGGCG- -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.