miRNA display CGI


Results 1 - 20 of 29 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
8057 3' -60.9 NC_001973.1 + 23672 0.66 0.750733
Target:  5'- aUCggUGcUCGcGgGCCUCCGCgCGUCGa -3'
miRNA:   3'- gAGgaACaAGC-CgCGGAGGCG-GCGGC- -5'
8057 3' -60.9 NC_001973.1 + 32780 0.66 0.732059
Target:  5'- uCUCCUcGUgCGacuuuuCGCCgCCGCCGCCu -3'
miRNA:   3'- -GAGGAaCAaGCc-----GCGGaGGCGGCGGc -5'
8057 3' -60.9 NC_001973.1 + 27837 0.66 0.722599
Target:  5'- cCUCUugcggcccggUUGgcCGGCGCUggcggCCGCgGCCGc -3'
miRNA:   3'- -GAGG----------AACaaGCCGCGGa----GGCGgCGGC- -5'
8057 3' -60.9 NC_001973.1 + 113655 0.66 0.707317
Target:  5'- aCUgC-UGUUUGGCGUUcaacagcaucgacgCCGCCGCCGc -3'
miRNA:   3'- -GAgGaACAAGCCGCGGa-------------GGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 24155 0.66 0.703471
Target:  5'- -cCCgcc-UCGGCGCUggcgCUGCCGCUGc -3'
miRNA:   3'- gaGGaacaAGCCGCGGa---GGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 29138 0.66 0.693821
Target:  5'- gUCCaca--CGaGaGCCUCCGCCGCCGc -3'
miRNA:   3'- gAGGaacaaGC-CgCGGAGGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 84293 0.66 0.693821
Target:  5'- -aCCUcGaaCGGCGCacggccgcgUCCGCCGCCc -3'
miRNA:   3'- gaGGAaCaaGCCGCGg--------AGGCGGCGGc -5'
8057 3' -60.9 NC_001973.1 + 41863 0.67 0.684123
Target:  5'- aUCCgag-UCGcGUGCCUCacguuCGCCGCCu -3'
miRNA:   3'- gAGGaacaAGC-CGCGGAG-----GCGGCGGc -5'
8057 3' -60.9 NC_001973.1 + 86972 0.67 0.639119
Target:  5'- gUCCgccccgcccgCGGCGCCgUCCGCC-CCGc -3'
miRNA:   3'- gAGGaacaa-----GCCGCGG-AGGCGGcGGC- -5'
8057 3' -60.9 NC_001973.1 + 77288 0.67 0.635191
Target:  5'- --------aCGcCGCCUCCGCCGCCGc -3'
miRNA:   3'- gaggaacaaGCcGCGGAGGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 123232 0.68 0.605746
Target:  5'- gUCCggc-UCGGCGUC-CCGCCGuuGc -3'
miRNA:   3'- gAGGaacaAGCCGCGGaGGCGGCggC- -5'
8057 3' -60.9 NC_001973.1 + 88145 0.68 0.586195
Target:  5'- -cCCUcg-UCGGCgGCCgaCGCCGCCGa -3'
miRNA:   3'- gaGGAacaAGCCG-CGGagGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 150269 0.69 0.566766
Target:  5'- uCUUCUUGUaguuuucucuugUCGGC-CCgggCCGCCGCUu -3'
miRNA:   3'- -GAGGAACA------------AGCCGcGGa--GGCGGCGGc -5'
8057 3' -60.9 NC_001973.1 + 25716 0.69 0.547506
Target:  5'- -gCCUUGcgCGcCGCC-CgCGCCGCCGg -3'
miRNA:   3'- gaGGAACaaGCcGCGGaG-GCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 32534 0.69 0.537953
Target:  5'- gUCCaaGUucgcgagcUCGGCGaUCgCCGCCGCCGa -3'
miRNA:   3'- gAGGaaCA--------AGCCGC-GGaGGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 28424 0.69 0.537953
Target:  5'- --gCUUGgcggccgCGGcCGCCgCCGCCGCCa -3'
miRNA:   3'- gagGAACaa-----GCC-GCGGaGGCGGCGGc -5'
8057 3' -60.9 NC_001973.1 + 158545 0.69 0.528458
Target:  5'- cCUCCUc------CGCCUCCGCCGCCa -3'
miRNA:   3'- -GAGGAacaagccGCGGAGGCGGCGGc -5'
8057 3' -60.9 NC_001973.1 + 80070 0.69 0.519025
Target:  5'- cCUCCUcuuugCGGCGCUuggCCGUCGUCGa -3'
miRNA:   3'- -GAGGAacaa-GCCGCGGa--GGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 46467 0.69 0.519025
Target:  5'- uUCCgccgcCGcCGCCUCCGUCGCCGu -3'
miRNA:   3'- gAGGaacaaGCcGCGGAGGCGGCGGC- -5'
8057 3' -60.9 NC_001973.1 + 1207 0.7 0.500366
Target:  5'- uCUUCUUcGgagUCGcCGCCgCCGCCGCCGc -3'
miRNA:   3'- -GAGGAA-Ca--AGCcGCGGaGGCGGCGGC- -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.