miRNA display CGI


Results 1 - 15 of 15 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
7163 5' -58.8 NC_001900.1 + 3964 0.66 0.528656
Target:  5'- -aCGCgGCCGGUCUCaCGGgcaccUCGAa-- -3'
miRNA:   3'- gaGCGgCGGCCAGAG-GUCa----AGCUccu -5'
7163 5' -58.8 NC_001900.1 + 9389 0.67 0.467942
Target:  5'- --gGCUGUCgagGGUUUCCGGcUCGGGGAc -3'
miRNA:   3'- gagCGGCGG---CCAGAGGUCaAGCUCCU- -5'
7163 5' -58.8 NC_001900.1 + 4366 0.67 0.448503
Target:  5'- --aGCCGCCGG-UUCCAgGUUCGAc-- -3'
miRNA:   3'- gagCGGCGGCCaGAGGU-CAAGCUccu -5'
7163 5' -58.8 NC_001900.1 + 9204 0.67 0.429519
Target:  5'- aUCGcCCGagacgagaUGGUCUCgGcGUUCGAGGAc -3'
miRNA:   3'- gAGC-GGCg-------GCCAGAGgU-CAAGCUCCU- -5'
7163 5' -58.8 NC_001900.1 + 44838 0.68 0.411016
Target:  5'- uUCGCCGUugccggucaacgCGGUCUCCAccgUCGAGc- -3'
miRNA:   3'- gAGCGGCG------------GCCAGAGGUca-AGCUCcu -5'
7163 5' -58.8 NC_001900.1 + 31897 0.68 0.39213
Target:  5'- uCUCGacggaaCCGCuCGGUCUCCucggcggucauguAGUgaagUCGAGGAc -3'
miRNA:   3'- -GAGC------GGCG-GCCAGAGG-------------UCA----AGCUCCU- -5'
7163 5' -58.8 NC_001900.1 + 35222 0.68 0.38421
Target:  5'- --gGCUGguaCCGGgCUCCGGUaUCGAGGAg -3'
miRNA:   3'- gagCGGC---GGCCaGAGGUCA-AGCUCCU- -5'
7163 5' -58.8 NC_001900.1 + 28124 0.68 0.375536
Target:  5'- cCUUGUCGaguuGUCguUCCAGUUCGAGGAu -3'
miRNA:   3'- -GAGCGGCggc-CAG--AGGUCAAGCUCCU- -5'
7163 5' -58.8 NC_001900.1 + 1582 0.69 0.350318
Target:  5'- aCUCGg-GCCGGaUCUCCucgcuGUUCGAGGu -3'
miRNA:   3'- -GAGCggCGGCC-AGAGGu----CAAGCUCCu -5'
7163 5' -58.8 NC_001900.1 + 45793 0.69 0.329455
Target:  5'- gUCGCgGCCGGugaccaggcagagcaUCUCCAGgUCGAacGGGu -3'
miRNA:   3'- gAGCGgCGGCC---------------AGAGGUCaAGCU--CCU- -5'
7163 5' -58.8 NC_001900.1 + 24829 0.7 0.303579
Target:  5'- aUCGCUGCCGGUggugCUGGaggcaaUUCGAGGAa -3'
miRNA:   3'- gAGCGGCGGCCAga--GGUC------AAGCUCCU- -5'
7163 5' -58.8 NC_001900.1 + 8601 0.7 0.296271
Target:  5'- cCUCGCUGaCGGUUUCCGcgUCGGGGu -3'
miRNA:   3'- -GAGCGGCgGCCAGAGGUcaAGCUCCu -5'
7163 5' -58.8 NC_001900.1 + 33960 0.7 0.296271
Target:  5'- gCUCGaCCaGCCGGUggCUCCAGUccaggUCGAcGGGu -3'
miRNA:   3'- -GAGC-GG-CGGCCA--GAGGUCA-----AGCU-CCU- -5'
7163 5' -58.8 NC_001900.1 + 7303 0.71 0.261784
Target:  5'- cCUCGCCGCCGGUCUgggCUuggUCGGGu- -3'
miRNA:   3'- -GAGCGGCGGCCAGA---GGucaAGCUCcu -5'
7163 5' -58.8 NC_001900.1 + 45696 1.09 0.00047
Target:  5'- gCUCGCCGCCGGUCUCCAGUUCGAGGAa -3'
miRNA:   3'- -GAGCGGCGGCCAGAGGUCAAGCUCCU- -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.