miRNA display CGI


Results 1 - 15 of 15 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
18368 3' -56.8 NC_004681.1 + 22254 0.66 0.7471
Target:  5'- ---cGGGAGGUGGAGgaccuugCCGGuggCGACg -3'
miRNA:   3'- cugaCCCUCCGCUUCa------GGCUca-GCUG- -5'
18368 3' -56.8 NC_004681.1 + 17487 0.66 0.73698
Target:  5'- uGGCaUGGGcGGCcucGGAGacuUCCGGGUUGGCu -3'
miRNA:   3'- -CUG-ACCCuCCG---CUUC---AGGCUCAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 42807 0.66 0.726761
Target:  5'- uGAC-GGG-GGCGAugccauGUcCCGAgGUCGGCa -3'
miRNA:   3'- -CUGaCCCuCCGCUu-----CA-GGCU-CAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 36043 0.66 0.726761
Target:  5'- aGGCgUGGGAGGCGAuGGUCgcgcggCGGG-CGAg -3'
miRNA:   3'- -CUG-ACCCUCCGCU-UCAG------GCUCaGCUg -5'
18368 3' -56.8 NC_004681.1 + 1557 0.66 0.706069
Target:  5'- aGCUGGGcGGCGggGga-GAGgaaGACg -3'
miRNA:   3'- cUGACCCuCCGCuuCaggCUCag-CUG- -5'
18368 3' -56.8 NC_004681.1 + 38179 0.67 0.685105
Target:  5'- cGCUGGcGAGGCcccgcaGAAGUCgGAGcgCGAg -3'
miRNA:   3'- cUGACC-CUCCG------CUUCAGgCUCa-GCUg -5'
18368 3' -56.8 NC_004681.1 + 26975 0.67 0.642687
Target:  5'- aACggGGGAGGCGAAGUCguucaaGGuGUCuGGCa -3'
miRNA:   3'- cUGa-CCCUCCGCUUCAGg-----CU-CAG-CUG- -5'
18368 3' -56.8 NC_004681.1 + 13405 0.68 0.610743
Target:  5'- -cCUGGGcGGCGGAGagggCgGuGUCGGCg -3'
miRNA:   3'- cuGACCCuCCGCUUCa---GgCuCAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 32178 0.68 0.58952
Target:  5'- gGGCUGaaGGGCGAGGUacgaagCCaGGGUCGACu -3'
miRNA:   3'- -CUGACccUCCGCUUCA------GG-CUCAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 65306 0.69 0.557955
Target:  5'- aACUGGGAGGaUGAccGUCCuccGUCGACu -3'
miRNA:   3'- cUGACCCUCC-GCUu-CAGGcu-CAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 59705 0.69 0.556911
Target:  5'- uGCUGGGAGuGCGGccugccaacacucGGaacCUGGGUCGGCa -3'
miRNA:   3'- cUGACCCUC-CGCU-------------UCa--GGCUCAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 29218 0.69 0.537178
Target:  5'- cGugUGcGGGGCGggGUCCucggcGAGUgGGCc -3'
miRNA:   3'- -CugACcCUCCGCuuCAGG-----CUCAgCUG- -5'
18368 3' -56.8 NC_004681.1 + 54384 0.7 0.457253
Target:  5'- aGCUGGGu-GUGGAGUUCGAggugGUCGACg -3'
miRNA:   3'- cUGACCCucCGCUUCAGGCU----CAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 14600 0.77 0.174624
Target:  5'- aGCUGGcuGGCG-AGUUCGAGUCGACg -3'
miRNA:   3'- cUGACCcuCCGCuUCAGGCUCAGCUG- -5'
18368 3' -56.8 NC_004681.1 + 6221 1.1 0.000905
Target:  5'- cGACUGGGAGGCGAAGUCCGAGUCGACg -3'
miRNA:   3'- -CUGACCCUCCGCUUCAGGCUCAGCUG- -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.