miRNA display CGI


Results 1 - 17 of 17 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
19527 3' -59.8 NC_004685.1 + 11746 0.66 0.532468
Target:  5'- --cGGCAGGGUcuGGUgCAUCCCgGCa-- -3'
miRNA:   3'- aguCCGUCCCG--CUA-GUAGGGgCGcuu -5'
19527 3' -59.8 NC_004685.1 + 410 0.66 0.528362
Target:  5'- gUAGGCGGcGGCGAgcucggggcuaagCAUCagCCGCGGu -3'
miRNA:   3'- aGUCCGUC-CCGCUa------------GUAGg-GGCGCUu -5'
19527 3' -59.8 NC_004685.1 + 58392 0.66 0.521204
Target:  5'- gCAGGC-GGGCGAUCuuGUCgCCCaucguccgguucaGCGGGa -3'
miRNA:   3'- aGUCCGuCCCGCUAG--UAG-GGG-------------CGCUU- -5'
19527 3' -59.8 NC_004685.1 + 8031 0.66 0.501974
Target:  5'- -uGGGCGacGGGCuGUaCGUCaCCCGCGAc -3'
miRNA:   3'- agUCCGU--CCCGcUA-GUAG-GGGCGCUu -5'
19527 3' -59.8 NC_004685.1 + 25410 0.66 0.491978
Target:  5'- uUCGGGCAcGGGCaGUCGUCUUCGaUGGc -3'
miRNA:   3'- -AGUCCGU-CCCGcUAGUAGGGGC-GCUu -5'
19527 3' -59.8 NC_004685.1 + 21583 0.66 0.490983
Target:  5'- -uGGGCAGcGGCGAcgccuaccuguucUCGaCCgCCGCGAu -3'
miRNA:   3'- agUCCGUC-CCGCU-------------AGUaGG-GGCGCUu -5'
19527 3' -59.8 NC_004685.1 + 25801 0.66 0.482075
Target:  5'- cCGGGCAGcGGCGGugggccggUCAgCgCCGCGGg -3'
miRNA:   3'- aGUCCGUC-CCGCU--------AGUaGgGGCGCUu -5'
19527 3' -59.8 NC_004685.1 + 30007 0.67 0.472269
Target:  5'- aCAGGCccgccAGGGgGAUCGU-CCCGCc-- -3'
miRNA:   3'- aGUCCG-----UCCCgCUAGUAgGGGCGcuu -5'
19527 3' -59.8 NC_004685.1 + 66494 0.67 0.452967
Target:  5'- cCAGGuCGGGGCGcgCcUCCCgCGCc-- -3'
miRNA:   3'- aGUCC-GUCCCGCuaGuAGGG-GCGcuu -5'
19527 3' -59.8 NC_004685.1 + 41829 0.67 0.443478
Target:  5'- -gGGGCcgAGGGCGAcCcUCCgCGCGGAc -3'
miRNA:   3'- agUCCG--UCCCGCUaGuAGGgGCGCUU- -5'
19527 3' -59.8 NC_004685.1 + 4703 0.67 0.443478
Target:  5'- aCGGGCugugcGGcuacGCGAUCAUCCCgGcCGAGg -3'
miRNA:   3'- aGUCCGu----CC----CGCUAGUAGGGgC-GCUU- -5'
19527 3' -59.8 NC_004685.1 + 31708 0.69 0.355231
Target:  5'- cCAGGCGcGGGCGAaucUCAUCCaCGCc-- -3'
miRNA:   3'- aGUCCGU-CCCGCU---AGUAGGgGCGcuu -5'
19527 3' -59.8 NC_004685.1 + 56994 0.69 0.347113
Target:  5'- cUCAGGCuugcGGGCGAaCuUCUCUGCGGc -3'
miRNA:   3'- -AGUCCGu---CCCGCUaGuAGGGGCGCUu -5'
19527 3' -59.8 NC_004685.1 + 40352 0.7 0.315234
Target:  5'- -gGGGCGGGGCgcggcauccggcaGAUCAUCCUCGaGGAc -3'
miRNA:   3'- agUCCGUCCCG-------------CUAGUAGGGGCgCUU- -5'
19527 3' -59.8 NC_004685.1 + 22504 0.7 0.308539
Target:  5'- cCAGGCucGGCuGAUCuUCUCCGCGGu -3'
miRNA:   3'- aGUCCGucCCG-CUAGuAGGGGCGCUu -5'
19527 3' -59.8 NC_004685.1 + 5898 0.71 0.253783
Target:  5'- uUCAGGUcaagAGGGUGGccaucgcguUCAUCCCuCGCGGc -3'
miRNA:   3'- -AGUCCG----UCCCGCU---------AGUAGGG-GCGCUu -5'
19527 3' -59.8 NC_004685.1 + 56630 1.06 0.000694
Target:  5'- cUCAGGCAGGGCGAUCAUCCCCGCGAAg -3'
miRNA:   3'- -AGUCCGUCCCGCUAGUAGGGGCGCUU- -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.