miRNA display CGI


Results 1 - 20 of 70 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
11081 3' -59.9 NC_002794.1 + 70273 0.77 0.263605
Target:  5'- --aGGCCGCgaaGGCCGGAgagcagGCCGGGGGGg -3'
miRNA:   3'- gagUCGGCGa--CUGGCCU------CGGCUCUCC- -5'
11081 3' -59.9 NC_002794.1 + 95770 0.76 0.282007
Target:  5'- -gCGGCCGCgacggcGGCCGGGGC-GAGAGGc -3'
miRNA:   3'- gaGUCGGCGa-----CUGGCCUCGgCUCUCC- -5'
11081 3' -59.9 NC_002794.1 + 180908 0.76 0.294833
Target:  5'- aCUCGGCCGCggucucGCCGGcGCCGucGGAGGu -3'
miRNA:   3'- -GAGUCGGCGac----UGGCCuCGGC--UCUCC- -5'
11081 3' -59.9 NC_002794.1 + 50587 0.76 0.301414
Target:  5'- -gCGGCgGCUGggugGCCGGcGCCGGGGGGa -3'
miRNA:   3'- gaGUCGgCGAC----UGGCCuCGGCUCUCC- -5'
11081 3' -59.9 NC_002794.1 + 147203 0.75 0.321835
Target:  5'- aCUCuuGCCGUcgGGCCGGGGCCGGGGc- -3'
miRNA:   3'- -GAGu-CGGCGa-CUGGCCUCGGCUCUcc -5'
11081 3' -59.9 NC_002794.1 + 12508 0.75 0.343272
Target:  5'- --gAGCCGCUcGACCGGcGGCUGGGuGGa -3'
miRNA:   3'- gagUCGGCGA-CUGGCC-UCGGCUCuCC- -5'
11081 3' -59.9 NC_002794.1 + 32594 0.73 0.405321
Target:  5'- --gGGCCGg-GGCCGGGGCCGGGgccGGGg -3'
miRNA:   3'- gagUCGGCgaCUGGCCUCGGCUC---UCC- -5'
11081 3' -59.9 NC_002794.1 + 143394 0.73 0.430343
Target:  5'- gUCAGCUGCUgcucGACCGGcgcgGGCCGGGcgaAGGu -3'
miRNA:   3'- gAGUCGGCGA----CUGGCC----UCGGCUC---UCC- -5'
11081 3' -59.9 NC_002794.1 + 86565 0.72 0.473081
Target:  5'- gCUCcgGGCCGCgcccGACCGGAuuuuccggaccgaGCCGGGAcGGa -3'
miRNA:   3'- -GAG--UCGGCGa---CUGGCCU-------------CGGCUCU-CC- -5'
11081 3' -59.9 NC_002794.1 + 86349 0.72 0.473081
Target:  5'- gCUCcgGGCCGCgcccGACCGGAugccccgggccgaGCCGGGAcGGa -3'
miRNA:   3'- -GAG--UCGGCGa---CUGGCCU-------------CGGCUCU-CC- -5'
11081 3' -59.9 NC_002794.1 + 86397 0.72 0.473081
Target:  5'- gCUCcgGGCCGCgcccGACCGGAuguuccggaccgaGCCGGGAcGGa -3'
miRNA:   3'- -GAG--UCGGCGa---CUGGCCU-------------CGGCUCU-CC- -5'
11081 3' -59.9 NC_002794.1 + 86205 0.72 0.473081
Target:  5'- gCUCcgGGCCGCgcccGACCGGAuguuccggaccgaGCCGGGAcGGa -3'
miRNA:   3'- -GAG--UCGGCGa---CUGGCCU-------------CGGCUCU-CC- -5'
11081 3' -59.9 NC_002794.1 + 86517 0.72 0.473081
Target:  5'- gCUCcgGGCCGCgcccGACCGGAugccccgggccgaGCCGGGAcGGa -3'
miRNA:   3'- -GAG--UCGGCGa---CUGGCCU-------------CGGCUCU-CC- -5'
11081 3' -59.9 NC_002794.1 + 130049 0.72 0.501196
Target:  5'- aUCGucGCCGUc-ACCGGAGCCG-GAGGa -3'
miRNA:   3'- gAGU--CGGCGacUGGCCUCGGCuCUCC- -5'
11081 3' -59.9 NC_002794.1 + 108459 0.71 0.538504
Target:  5'- -gCGGcCCGCcGGCaCGG-GCCGAGGGGc -3'
miRNA:   3'- gaGUC-GGCGaCUG-GCCuCGGCUCUCC- -5'
11081 3' -59.9 NC_002794.1 + 71972 0.71 0.544186
Target:  5'- aUCAGCCggucccgGCgGAgCCGGAGCCGAuaccgccggagcucGAGGa -3'
miRNA:   3'- gAGUCGG-------CGaCU-GGCCUCGGCU--------------CUCC- -5'
11081 3' -59.9 NC_002794.1 + 189626 0.71 0.545135
Target:  5'- aCUCGGCCgacuggcuaGCUGGCUGGcugacuagccggcuGGCCGAGcGGu -3'
miRNA:   3'- -GAGUCGG---------CGACUGGCC--------------UCGGCUCuCC- -5'
11081 3' -59.9 NC_002794.1 + 104265 0.71 0.547985
Target:  5'- -gCAGCCGCUcGGCCGGcaccguGCCGAacAGGa -3'
miRNA:   3'- gaGUCGGCGA-CUGGCCu-----CGGCUc-UCC- -5'
11081 3' -59.9 NC_002794.1 + 44708 0.71 0.558473
Target:  5'- -cCGGCCGCgaccgcggcgacgucGGCCGGcGCCGccGGAGGg -3'
miRNA:   3'- gaGUCGGCGa--------------CUGGCCuCGGC--UCUCC- -5'
11081 3' -59.9 NC_002794.1 + 14870 0.7 0.567096
Target:  5'- -cCAGCCGCccgGuucGCCGcGAGCCGAGAc- -3'
miRNA:   3'- gaGUCGGCGa--C---UGGC-CUCGGCUCUcc -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.