miRNA display CGI


Results 1 - 20 of 51 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
19276 3' -58.9 NC_004685.1 + 65534 1.09 0.000669
Target:  5'- gUCGGCAAGCUCGCCGAGGUCGUCGGAg -3'
miRNA:   3'- -AGCCGUUCGAGCGGCUCCAGCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 43061 0.75 0.197276
Target:  5'- gCGGCGGuGCUCGCCGcGGUCGgcuGGGc -3'
miRNA:   3'- aGCCGUU-CGAGCGGCuCCAGCag-CCU- -5'
19276 3' -58.9 NC_004685.1 + 10228 0.74 0.229558
Target:  5'- cCGGUcuGGC-CGCCGGGGU-GUCGGAu -3'
miRNA:   3'- aGCCGu-UCGaGCGGCUCCAgCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 68955 0.72 0.272737
Target:  5'- gUCGGCAccucGGCUCGCac-GG-CGUCGGGa -3'
miRNA:   3'- -AGCCGU----UCGAGCGgcuCCaGCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 15080 0.72 0.286216
Target:  5'- cCGGgGAGCUgcucggUGCCGAGGUcCGcUCGGGu -3'
miRNA:   3'- aGCCgUUCGA------GCGGCUCCA-GC-AGCCU- -5'
19276 3' -58.9 NC_004685.1 + 34671 0.72 0.300216
Target:  5'- cCGGCGAGUUCGgCGAGGaCGUgauuucgcUGGAg -3'
miRNA:   3'- aGCCGUUCGAGCgGCUCCaGCA--------GCCU- -5'
19276 3' -58.9 NC_004685.1 + 63091 0.71 0.307411
Target:  5'- gUCGuCAGGUUCGCUGGGGUCGcgcucgUCGGu -3'
miRNA:   3'- -AGCcGUUCGAGCGGCUCCAGC------AGCCu -5'
19276 3' -58.9 NC_004685.1 + 33081 0.7 0.386548
Target:  5'- gCGGCGAGCgcaccCGCC-AGGUCcUCGGc -3'
miRNA:   3'- aGCCGUUCGa----GCGGcUCCAGcAGCCu -5'
19276 3' -58.9 NC_004685.1 + 35112 0.7 0.395166
Target:  5'- cUCGGC-AGCgUCgGCCGcGGUCaUCGGAu -3'
miRNA:   3'- -AGCCGuUCG-AG-CGGCuCCAGcAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 32510 0.7 0.396035
Target:  5'- gCGGCAAGCUCgGCCaGGGcgcgaaccuucccggCGUCGGc -3'
miRNA:   3'- aGCCGUUCGAG-CGGcUCCa--------------GCAGCCu -5'
19276 3' -58.9 NC_004685.1 + 52704 0.69 0.403908
Target:  5'- gCGGCAGGUcugcccacccUCGCCGGccGGgcaGUCGGGu -3'
miRNA:   3'- aGCCGUUCG----------AGCGGCU--CCag-CAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 49608 0.69 0.41277
Target:  5'- -aGGCGGGCUgGCCGAcgaacgccaGGUgGUCGaGGa -3'
miRNA:   3'- agCCGUUCGAgCGGCU---------CCAgCAGC-CU- -5'
19276 3' -58.9 NC_004685.1 + 417 0.69 0.419045
Target:  5'- gCGGCGAGCUCggggcuaagcaucaGCCGcGGUCGgugaggUCGGc -3'
miRNA:   3'- aGCCGUUCGAG--------------CGGCuCCAGC------AGCCu -5'
19276 3' -58.9 NC_004685.1 + 48676 0.69 0.421752
Target:  5'- gCGGCAAGg-UGCCGAGaGUCGacaccagCGGAc -3'
miRNA:   3'- aGCCGUUCgaGCGGCUC-CAGCa------GCCU- -5'
19276 3' -58.9 NC_004685.1 + 65517 0.69 0.430851
Target:  5'- -gGGCAGGCUCgGCCG-GGUgGUuucgacgcCGGAc -3'
miRNA:   3'- agCCGUUCGAG-CGGCuCCAgCA--------GCCU- -5'
19276 3' -58.9 NC_004685.1 + 131 0.69 0.439137
Target:  5'- cCGGCGcgggcgcGGCU-GCCGGGGUgGcCGGGg -3'
miRNA:   3'- aGCCGU-------UCGAgCGGCUCCAgCaGCCU- -5'
19276 3' -58.9 NC_004685.1 + 4158 0.69 0.440063
Target:  5'- cUCGGCGAGCUUGCCGAcGaCGcccgccagcUCGGc -3'
miRNA:   3'- -AGCCGUUCGAGCGGCUcCaGC---------AGCCu -5'
19276 3' -58.9 NC_004685.1 + 43346 0.69 0.443779
Target:  5'- cUCGGCcaucgccucgucgcuGAGCaUC-CCGAGGUCGgggugCGGGg -3'
miRNA:   3'- -AGCCG---------------UUCG-AGcGGCUCCAGCa----GCCU- -5'
19276 3' -58.9 NC_004685.1 + 19342 0.69 0.449386
Target:  5'- aUCGGCAAGaugCGCCGcGGcgaaGUCGGc -3'
miRNA:   3'- -AGCCGUUCga-GCGGCuCCag--CAGCCu -5'
19276 3' -58.9 NC_004685.1 + 25895 0.68 0.458818
Target:  5'- -aGGCcAGCgCGgUGAGGUCGUCGa- -3'
miRNA:   3'- agCCGuUCGaGCgGCUCCAGCAGCcu -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.