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
23665 3' -56.6 NC_005261.1 + 98671 0.66 0.867345
Target:  5'- gCGAGGgCGggcUCcgCCgGGGCCGGaGGCg -3'
miRNA:   3'- aGUUCCaGC---AGuaGGaCCCGGUC-CUG- -5'
23665 3' -56.6 NC_005261.1 + 107356 0.66 0.851918
Target:  5'- ---cGGaccugCGUCGUCgUGGgcGCCGGGGCg -3'
miRNA:   3'- aguuCCa----GCAGUAGgACC--CGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 125744 0.66 0.843898
Target:  5'- gCAAGGg-Gg---CCgGGGCCAGGGCu -3'
miRNA:   3'- aGUUCCagCaguaGGaCCCGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 97665 0.66 0.843898
Target:  5'- -gGGGGcCGgCGUCCgcgGGGCUuGGGCg -3'
miRNA:   3'- agUUCCaGCaGUAGGa--CCCGGuCCUG- -5'
23665 3' -56.6 NC_005261.1 + 88845 0.67 0.809947
Target:  5'- ---cGG-CGUCGgcuaCCUGGGCCgcgccucgcGGGACa -3'
miRNA:   3'- aguuCCaGCAGUa---GGACCCGG---------UCCUG- -5'
23665 3' -56.6 NC_005261.1 + 23952 0.67 0.809947
Target:  5'- uUCGGGGUCGUCGgcacgcgguUCCUgcuuuccgggcGGGCUAGucgcGGCg -3'
miRNA:   3'- -AGUUCCAGCAGU---------AGGA-----------CCCGGUC----CUG- -5'
23665 3' -56.6 NC_005261.1 + 92790 0.68 0.773387
Target:  5'- cUCGGGGUCGggGUCCggucgccGGGCgCGcGGGCg -3'
miRNA:   3'- -AGUUCCAGCagUAGGa------CCCG-GU-CCUG- -5'
23665 3' -56.6 NC_005261.1 + 44347 0.68 0.772444
Target:  5'- aCGAGGUCaUCGacauaUCCgggcucaUGGGCCcGGACg -3'
miRNA:   3'- aGUUCCAGcAGU-----AGG-------ACCCGGuCCUG- -5'
23665 3' -56.6 NC_005261.1 + 16243 0.68 0.763904
Target:  5'- ---cGGUCGaCGUCCgcgccgGGGCCgccGGGGCc -3'
miRNA:   3'- aguuCCAGCaGUAGGa-----CCCGG---UCCUG- -5'
23665 3' -56.6 NC_005261.1 + 77440 0.68 0.763904
Target:  5'- cCAGcuGGUCGUCAgCCaGGcCCGGGGCg -3'
miRNA:   3'- aGUU--CCAGCAGUaGGaCCcGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 54467 0.68 0.763904
Target:  5'- uUCAGGGUCuggCAUCC-GGGCgucGGGCg -3'
miRNA:   3'- -AGUUCCAGca-GUAGGaCCCGgu-CCUG- -5'
23665 3' -56.6 NC_005261.1 + 125786 0.68 0.754304
Target:  5'- cCAAGGcCGcugCGaacggggCUUGGGCCGGGGCc -3'
miRNA:   3'- aGUUCCaGCa--GUa------GGACCCGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 97295 0.69 0.724884
Target:  5'- cCGAaGUCGgcaucuucucCGUCCgcgGGGCCGGGGCc -3'
miRNA:   3'- aGUUcCAGCa---------GUAGGa--CCCGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 94476 0.69 0.704851
Target:  5'- ---cGG-CGUCGUCCcgcGGGCCGGGcACc -3'
miRNA:   3'- aguuCCaGCAGUAGGa--CCCGGUCC-UG- -5'
23665 3' -56.6 NC_005261.1 + 33024 0.69 0.674357
Target:  5'- -gGGGGgcgccgaugCGgagCGUCCgcggaGGGCCAGGACu -3'
miRNA:   3'- agUUCCa--------GCa--GUAGGa----CCCGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 40224 0.7 0.664111
Target:  5'- -uGAGcGUCGUCGUCuCUGGcCCGGGGg -3'
miRNA:   3'- agUUC-CAGCAGUAG-GACCcGGUCCUg -5'
23665 3' -56.6 NC_005261.1 + 48309 0.7 0.643548
Target:  5'- cUCGGGGggcgCGUCGggCCcGGGCUcgGGGGCg -3'
miRNA:   3'- -AGUUCCa---GCAGUa-GGaCCCGG--UCCUG- -5'
23665 3' -56.6 NC_005261.1 + 2454 0.7 0.643548
Target:  5'- cUCGGGGUCGaaggCGagcgCCgGGcGCCAGGGCu -3'
miRNA:   3'- -AGUUCCAGCa---GUa---GGaCC-CGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 115397 0.7 0.633249
Target:  5'- uUCAgcGGGUCGUCGaCCgcgGGcggcaGCCGGGGCc -3'
miRNA:   3'- -AGU--UCCAGCAGUaGGa--CC-----CGGUCCUG- -5'
23665 3' -56.6 NC_005261.1 + 113285 0.71 0.612656
Target:  5'- aCGAGGgCGUgGUCCUcucgcugccgcGGGCCuGGGCc -3'
miRNA:   3'- aGUUCCaGCAgUAGGA-----------CCCGGuCCUG- -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.