miRNA display CGI


Results 1 - 20 of 25 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
11079 3' -55 NC_002794.1 + 151495 0.66 0.957783
Target:  5'- gCUGUACaaacgcGUGCGCUcggUUCGGGUGg -3'
miRNA:   3'- aGACGUGguu---CGUGCGAa--AGGCCCAC- -5'
11079 3' -55 NC_002794.1 + 867 0.66 0.955516
Target:  5'- --cGCGCCcGcgaggcggucggcguGCGCGCgggCCGGGUGc -3'
miRNA:   3'- agaCGUGGuU---------------CGUGCGaaaGGCCCAC- -5'
11079 3' -55 NC_002794.1 + 122883 0.66 0.949494
Target:  5'- aCUGCGCCGAGCucaacgaGCGCa---CGGGc- -3'
miRNA:   3'- aGACGUGGUUCG-------UGCGaaagGCCCac -5'
11079 3' -55 NC_002794.1 + 14605 0.66 0.945632
Target:  5'- --cGCGCCGGGCAcCGCga--CGGGg- -3'
miRNA:   3'- agaCGUGGUUCGU-GCGaaagGCCCac -5'
11079 3' -55 NC_002794.1 + 57996 0.66 0.945632
Target:  5'- --cGCGCCAGGCcuucguCGCcg-CCGGGg- -3'
miRNA:   3'- agaCGUGGUUCGu-----GCGaaaGGCCCac -5'
11079 3' -55 NC_002794.1 + 17840 0.66 0.941119
Target:  5'- cCUGCACCGAGC-CGCUccugaCGGa-- -3'
miRNA:   3'- aGACGUGGUUCGuGCGAaag--GCCcac -5'
11079 3' -55 NC_002794.1 + 125655 0.66 0.941119
Target:  5'- uUCUGC-CUcGGCGCGCUgaaCGGGc- -3'
miRNA:   3'- -AGACGuGGuUCGUGCGAaagGCCCac -5'
11079 3' -55 NC_002794.1 + 36566 0.66 0.941119
Target:  5'- gCUGCagacacgcgccGCCGAGCAgGCggUCCGcGUGc -3'
miRNA:   3'- aGACG-----------UGGUUCGUgCGaaAGGCcCAC- -5'
11079 3' -55 NC_002794.1 + 76543 0.67 0.936371
Target:  5'- --gGCGCCGacgcGGuCGCGCg--CCGGGUa -3'
miRNA:   3'- agaCGUGGU----UC-GUGCGaaaGGCCCAc -5'
11079 3' -55 NC_002794.1 + 66826 0.67 0.936371
Target:  5'- --gGCGCCcGGCGCGac-UCCGGGc- -3'
miRNA:   3'- agaCGUGGuUCGUGCgaaAGGCCCac -5'
11079 3' -55 NC_002794.1 + 12495 0.67 0.931386
Target:  5'- cCUGCAcguucCCGAGC-CGCUcgaccggcggCUGGGUGg -3'
miRNA:   3'- aGACGU-----GGUUCGuGCGAaa--------GGCCCAC- -5'
11079 3' -55 NC_002794.1 + 184032 0.67 0.926162
Target:  5'- aCgGCACCGcgcgcAGCGCGCggUCgCGGGc- -3'
miRNA:   3'- aGaCGUGGU-----UCGUGCGaaAG-GCCCac -5'
11079 3' -55 NC_002794.1 + 186746 0.67 0.915001
Target:  5'- --cGCGCCGAGCACGUa--CCaGGGg- -3'
miRNA:   3'- agaCGUGGUUCGUGCGaaaGG-CCCac -5'
11079 3' -55 NC_002794.1 + 151655 0.68 0.909066
Target:  5'- --gGCACUuGGCuCGCcg-CCGGGUGa -3'
miRNA:   3'- agaCGUGGuUCGuGCGaaaGGCCCAC- -5'
11079 3' -55 NC_002794.1 + 80513 0.68 0.875921
Target:  5'- uUCUGCGCCGcGGCGCGCgacgCCuGGc- -3'
miRNA:   3'- -AGACGUGGU-UCGUGCGaaa-GGcCCac -5'
11079 3' -55 NC_002794.1 + 61146 0.69 0.868624
Target:  5'- gCUGCcgcccgaccCCGAGCGCGCggUCCGGa-- -3'
miRNA:   3'- aGACGu--------GGUUCGUGCGaaAGGCCcac -5'
11079 3' -55 NC_002794.1 + 187452 0.69 0.860353
Target:  5'- gUCUGcCGCCGcucggcgucgcucGGCGCGCg--CCGGGc- -3'
miRNA:   3'- -AGAC-GUGGU-------------UCGUGCGaaaGGCCCac -5'
11079 3' -55 NC_002794.1 + 12607 0.69 0.83738
Target:  5'- gCUGCGCCAccAGCGCGU---CUGGGg- -3'
miRNA:   3'- aGACGUGGU--UCGUGCGaaaGGCCCac -5'
11079 3' -55 NC_002794.1 + 194663 0.7 0.829087
Target:  5'- gCUGCGCCGGGUcC-CccUCCGGGUGc -3'
miRNA:   3'- aGACGUGGUUCGuGcGaaAGGCCCAC- -5'
11079 3' -55 NC_002794.1 + 113737 0.71 0.766495
Target:  5'- aCUGCACCGaccggaccaGGCGCGCga---GGGUGu -3'
miRNA:   3'- aGACGUGGU---------UCGUGCGaaaggCCCAC- -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.