miRNA display CGI


Results 1 - 19 of 19 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
23979 3' -59.5 NC_005262.1 + 6747 0.66 0.545208
Target:  5'- aUCUCGCGCGccucguuGUGCucguGGCC-GGGCAc -3'
miRNA:   3'- aAGAGCGCGCu------CAUG----CCGGgCCUGUc -5'
23979 3' -59.5 NC_005262.1 + 57274 0.66 0.534879
Target:  5'- -gCUCGCGC-AGcucACGGCCCGcGuGCAGc -3'
miRNA:   3'- aaGAGCGCGcUCa--UGCCGGGC-C-UGUC- -5'
23979 3' -59.5 NC_005262.1 + 23456 0.66 0.524619
Target:  5'- -aCUgGCGCaugcGCGGCCUGGACGa -3'
miRNA:   3'- aaGAgCGCGcucaUGCCGGGCCUGUc -5'
23979 3' -59.5 NC_005262.1 + 9063 0.66 0.504332
Target:  5'- ---aUGCGCGGGguugGCuGGCuCCGGAUGGg -3'
miRNA:   3'- aagaGCGCGCUCa---UG-CCG-GGCCUGUC- -5'
23979 3' -59.5 NC_005262.1 + 4569 0.67 0.464838
Target:  5'- aUCUCGCGCcAGcgGCGGCgcugcUCGGGCGu -3'
miRNA:   3'- aAGAGCGCGcUCa-UGCCG-----GGCCUGUc -5'
23979 3' -59.5 NC_005262.1 + 16974 0.67 0.455216
Target:  5'- ----nGUGCGguguGGUGCGGCCCGGcgcGCGGc -3'
miRNA:   3'- aagagCGCGC----UCAUGCCGGGCC---UGUC- -5'
23979 3' -59.5 NC_005262.1 + 55017 0.67 0.455216
Target:  5'- -cCUCGCGCacgcGGU-CGGCgCGGGCAa -3'
miRNA:   3'- aaGAGCGCGc---UCAuGCCGgGCCUGUc -5'
23979 3' -59.5 NC_005262.1 + 41593 0.67 0.445702
Target:  5'- ----gGUGUGGGUGUGGCCCGGAuCGGu -3'
miRNA:   3'- aagagCGCGCUCAUGCCGGGCCU-GUC- -5'
23979 3' -59.5 NC_005262.1 + 11511 0.67 0.445702
Target:  5'- gUgUCGCGCaccuucgGCGGCCCGGcGCGGc -3'
miRNA:   3'- aAgAGCGCGcuca---UGCCGGGCC-UGUC- -5'
23979 3' -59.5 NC_005262.1 + 10873 0.68 0.399876
Target:  5'- -gCUCGCGCaGcAGUaccGCGcGCCCGGcGCGGg -3'
miRNA:   3'- aaGAGCGCG-C-UCA---UGC-CGGGCC-UGUC- -5'
23979 3' -59.5 NC_005262.1 + 17006 0.68 0.391077
Target:  5'- cUCUCcuucaugugGUGCG-GUGCGGUgCGGGCGGu -3'
miRNA:   3'- aAGAG---------CGCGCuCAUGCCGgGCCUGUC- -5'
23979 3' -59.5 NC_005262.1 + 17548 0.69 0.373864
Target:  5'- gUCgCGCGCGAG-GCGGCagCCGcGGCGGc -3'
miRNA:   3'- aAGaGCGCGCUCaUGCCG--GGC-CUGUC- -5'
23979 3' -59.5 NC_005262.1 + 2349 0.69 0.373864
Target:  5'- -aCUUGCGCGGGccgucaucgacGCGGCCCGaGACu- -3'
miRNA:   3'- aaGAGCGCGCUCa----------UGCCGGGC-CUGuc -5'
23979 3' -59.5 NC_005262.1 + 49898 0.69 0.365452
Target:  5'- --aUCGCGCGGccgauCGGgCCGGACGGu -3'
miRNA:   3'- aagAGCGCGCUcau--GCCgGGCCUGUC- -5'
23979 3' -59.5 NC_005262.1 + 59231 0.69 0.365452
Target:  5'- cUCcaugCGCGCGGcgacGCGGCCCGGcCGGu -3'
miRNA:   3'- aAGa---GCGCGCUca--UGCCGGGCCuGUC- -5'
23979 3' -59.5 NC_005262.1 + 48175 0.71 0.274925
Target:  5'- aUCaUCGCGCGu---CGGCgCCGGGCGGc -3'
miRNA:   3'- aAG-AGCGCGCucauGCCG-GGCCUGUC- -5'
23979 3' -59.5 NC_005262.1 + 28720 0.71 0.26825
Target:  5'- gUUC-CGcCGCGAGgccGCGcGCCCGGACGc -3'
miRNA:   3'- -AAGaGC-GCGCUCa--UGC-CGGGCCUGUc -5'
23979 3' -59.5 NC_005262.1 + 54287 0.75 0.152369
Target:  5'- -gCUCGCGCGGGcgcuggagcACGcGCUCGGACAGg -3'
miRNA:   3'- aaGAGCGCGCUCa--------UGC-CGGGCCUGUC- -5'
23979 3' -59.5 NC_005262.1 + 7307 1.06 0.00072
Target:  5'- gUUCUCGCGCGAGUACGGCCCGGACAGa -3'
miRNA:   3'- -AAGAGCGCGCUCAUGCCGGGCCUGUC- -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.