miRNA display CGI


Results 1 - 20 of 64 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
18494 5' -56.6 NC_004681.1 + 27792 0.68 0.618824
Target:  5'- gUGCUCACUUCuggagauGGGcgcggcggcgccaacGGUGGCGCAUCCg -3'
miRNA:   3'- aGCGGGUGGAG-------UUC---------------UCGCCGUGUAGG- -5'
18494 5' -56.6 NC_004681.1 + 6459 0.71 0.451748
Target:  5'- cCGCCCGCCUCG-GuGCcGGgACuAUCCc -3'
miRNA:   3'- aGCGGGUGGAGUuCuCG-CCgUG-UAGG- -5'
18494 5' -56.6 NC_004681.1 + 3459 0.71 0.461365
Target:  5'- aCGCCCGuCCcCAccguGGAGaCGGUcuGCAUCCa -3'
miRNA:   3'- aGCGGGU-GGaGU----UCUC-GCCG--UGUAGG- -5'
18494 5' -56.6 NC_004681.1 + 54045 0.71 0.461365
Target:  5'- cCGCgCGCC-CGAGAgcccuagaagcGCGGCACAaacuUCCa -3'
miRNA:   3'- aGCGgGUGGaGUUCU-----------CGCCGUGU----AGG- -5'
18494 5' -56.6 NC_004681.1 + 6993 0.69 0.521156
Target:  5'- -gGCCCAggauguucggacCCUCGuggacGAGgGGCACAUCa -3'
miRNA:   3'- agCGGGU------------GGAGUu----CUCgCCGUGUAGg -5'
18494 5' -56.6 NC_004681.1 + 33017 0.69 0.531426
Target:  5'- cUGCCgACCUCGGGAcaUGGCAUcgCCc -3'
miRNA:   3'- aGCGGgUGGAGUUCUc-GCCGUGuaGG- -5'
18494 5' -56.6 NC_004681.1 + 7268 0.69 0.541768
Target:  5'- cCGUCCACCUCGGcgccGAGU-GCGCcgCCu -3'
miRNA:   3'- aGCGGGUGGAGUU----CUCGcCGUGuaGG- -5'
18494 5' -56.6 NC_004681.1 + 50129 0.69 0.552177
Target:  5'- aUCGCCCucGCUgaCGAcGGCGGCAUcUCCg -3'
miRNA:   3'- -AGCGGG--UGGa-GUUcUCGCCGUGuAGG- -5'
18494 5' -56.6 NC_004681.1 + 51612 0.68 0.594335
Target:  5'- uUCGCCCAgCUCGuagAGAaGUGGCGgA-CCu -3'
miRNA:   3'- -AGCGGGUgGAGU---UCU-CGCCGUgUaGG- -5'
18494 5' -56.6 NC_004681.1 + 59178 0.71 0.439413
Target:  5'- gUCGCCaCcuaugucacggacgGCCUCccGGGCGGCuCGUCCa -3'
miRNA:   3'- -AGCGG-G--------------UGGAGuuCUCGCCGuGUAGG- -5'
18494 5' -56.6 NC_004681.1 + 64921 0.71 0.432852
Target:  5'- gCGCCCGCCUgGAGcacgaGGUGGCgACGcgCCu -3'
miRNA:   3'- aGCGGGUGGAgUUC-----UCGCCG-UGUa-GG- -5'
18494 5' -56.6 NC_004681.1 + 13575 0.71 0.423578
Target:  5'- aCGCgCGCUUCAAGgccgcgGGCGGCcacgccaaugACGUCCa -3'
miRNA:   3'- aGCGgGUGGAGUUC------UCGCCG----------UGUAGG- -5'
18494 5' -56.6 NC_004681.1 + 2765 0.8 0.127885
Target:  5'- aCGaCCGCCUCAAGGGUGaGCGCGUCa -3'
miRNA:   3'- aGCgGGUGGAGUUCUCGC-CGUGUAGg -5'
18494 5' -56.6 NC_004681.1 + 18249 0.79 0.138672
Target:  5'- cCGCCUccaggaGCUUCAGGAGCGGCAacUCCg -3'
miRNA:   3'- aGCGGG------UGGAGUUCUCGCCGUguAGG- -5'
18494 5' -56.6 NC_004681.1 + 40367 0.78 0.171621
Target:  5'- gUGaacaCCGCCagCAAGAGCGGCACcgCCa -3'
miRNA:   3'- aGCg---GGUGGa-GUUCUCGCCGUGuaGG- -5'
18494 5' -56.6 NC_004681.1 + 50276 0.75 0.246213
Target:  5'- gCGCCCACCgCAAGAagGGCcACGUCCc -3'
miRNA:   3'- aGCGGGUGGaGUUCUcgCCG-UGUAGG- -5'
18494 5' -56.6 NC_004681.1 + 1780 0.74 0.310148
Target:  5'- aUCGCCCuCCUCaccgucguaggccagGcAGAGCGaGUACAUCCc -3'
miRNA:   3'- -AGCGGGuGGAG---------------U-UCUCGC-CGUGUAGG- -5'
18494 5' -56.6 NC_004681.1 + 39936 0.73 0.337782
Target:  5'- uUCGCCCGCCUCAAcGAcaagucgauccGCG-CGCGUCg -3'
miRNA:   3'- -AGCGGGUGGAGUU-CU-----------CGCcGUGUAGg -5'
18494 5' -56.6 NC_004681.1 + 30241 0.72 0.362147
Target:  5'- aUCGCCCGCCaCAGcGGCGGCggccgguacgGCGUCg -3'
miRNA:   3'- -AGCGGGUGGaGUUcUCGCCG----------UGUAGg -5'
18494 5' -56.6 NC_004681.1 + 23684 0.72 0.396485
Target:  5'- gCGCCCGCCUCcgcggacauAGAGUGGCccGgAUUCg -3'
miRNA:   3'- aGCGGGUGGAGu--------UCUCGCCG--UgUAGG- -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.