miRNA display CGI


Results 1 - 20 of 24 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
13288 3' -58.4 NC_003409.1 + 100973 0.66 0.821892
Target:  5'- -aAUCCCgCACCC-CCCUggcaaaCUCCGGu- -3'
miRNA:   3'- ggUAGGG-GUGGGuGGGAa-----GAGGUCcu -5'
13288 3' -58.4 NC_003409.1 + 34553 0.66 0.803859
Target:  5'- aUCGUCCCCggggACCCucaCUUCUCCguugacaGGGAc -3'
miRNA:   3'- -GGUAGGGG----UGGGuggGAAGAGG-------UCCU- -5'
13288 3' -58.4 NC_003409.1 + 121859 0.66 0.795922
Target:  5'- cCCAcCCCCAcauccuuccuCCCACCCUg--CCAGu- -3'
miRNA:   3'- -GGUaGGGGU----------GGGUGGGAagaGGUCcu -5'
13288 3' -58.4 NC_003409.1 + 112144 0.66 0.786968
Target:  5'- gCAUCCggCACCaCGCCCgggggCCAGGAc -3'
miRNA:   3'- gGUAGGg-GUGG-GUGGGaaga-GGUCCU- -5'
13288 3' -58.4 NC_003409.1 + 26792 0.66 0.786968
Target:  5'- gCG-CCCCGCCCuuCCUUCccUCCGGa- -3'
miRNA:   3'- gGUaGGGGUGGGugGGAAG--AGGUCcu -5'
13288 3' -58.4 NC_003409.1 + 71042 0.67 0.768663
Target:  5'- gCCAUCUCUGCCCcCCCaagCUCUuugucccacGGGAg -3'
miRNA:   3'- -GGUAGGGGUGGGuGGGaa-GAGG---------UCCU- -5'
13288 3' -58.4 NC_003409.1 + 55947 0.67 0.759329
Target:  5'- ---cCCCCACUCACUCcUCUUCGGaGAu -3'
miRNA:   3'- gguaGGGGUGGGUGGGaAGAGGUC-CU- -5'
13288 3' -58.4 NC_003409.1 + 68848 0.67 0.759329
Target:  5'- gCCAagUCCCUcguggagccgGCCCucCCCUUCUCCAc-- -3'
miRNA:   3'- -GGU--AGGGG----------UGGGu-GGGAAGAGGUccu -5'
13288 3' -58.4 NC_003409.1 + 105481 0.67 0.749887
Target:  5'- -aGUCCCCGuCCgCugCUUUCUCgGGGu -3'
miRNA:   3'- ggUAGGGGU-GG-GugGGAAGAGgUCCu -5'
13288 3' -58.4 NC_003409.1 + 93788 0.67 0.720992
Target:  5'- gCCGUCCaaagcaGCCCagGCCaguucagUCUCCGGGAu -3'
miRNA:   3'- -GGUAGGgg----UGGG--UGGga-----AGAGGUCCU- -5'
13288 3' -58.4 NC_003409.1 + 67852 0.68 0.7112
Target:  5'- gCCAuuuUUCCCACcagCCACCCUcgUCCgAGGAg -3'
miRNA:   3'- -GGU---AGGGGUG---GGUGGGAagAGG-UCCU- -5'
13288 3' -58.4 NC_003409.1 + 66499 0.68 0.695403
Target:  5'- aCCAUcCCCCACCCACgcggcucuuCCaacacugguggccuaUUaCUCCGGGGc -3'
miRNA:   3'- -GGUA-GGGGUGGGUG---------GG---------------AA-GAGGUCCU- -5'
13288 3' -58.4 NC_003409.1 + 84787 0.68 0.691431
Target:  5'- uUCGUCUu--CCCACUCUaCUCCGGGAa -3'
miRNA:   3'- -GGUAGGgguGGGUGGGAaGAGGUCCU- -5'
13288 3' -58.4 NC_003409.1 + 119045 0.69 0.65943
Target:  5'- gCCAggauuauaggggCCCCGCCCACCgCcaCUCCAGc- -3'
miRNA:   3'- -GGUa-----------GGGGUGGGUGG-GaaGAGGUCcu -5'
13288 3' -58.4 NC_003409.1 + 68549 0.69 0.650379
Target:  5'- aUAUUCCCACcuCCACCuCUUUcaucacuUCCAGGAu -3'
miRNA:   3'- gGUAGGGGUG--GGUGG-GAAG-------AGGUCCU- -5'
13288 3' -58.4 NC_003409.1 + 126911 0.7 0.601047
Target:  5'- gCAUUgCCACCCACgCagUCUCCAGa- -3'
miRNA:   3'- gGUAGgGGUGGGUGgGa-AGAGGUCcu -5'
13288 3' -58.4 NC_003409.1 + 98109 0.7 0.561129
Target:  5'- aCGUCCCCACCauacugucuaacCACCCgaaggUCgUCgGGGAg -3'
miRNA:   3'- gGUAGGGGUGG------------GUGGGa----AG-AGgUCCU- -5'
13288 3' -58.4 NC_003409.1 + 111538 0.71 0.531669
Target:  5'- -uGUCCCaACCCGCCUUuaUCUCCGGcGGg -3'
miRNA:   3'- ggUAGGGgUGGGUGGGA--AGAGGUC-CU- -5'
13288 3' -58.4 NC_003409.1 + 36547 0.72 0.465393
Target:  5'- cCCcUCCCagACCCACCCccaacgUUCCAGGGc -3'
miRNA:   3'- -GGuAGGGg-UGGGUGGGaa----GAGGUCCU- -5'
13288 3' -58.4 NC_003409.1 + 90810 0.73 0.40367
Target:  5'- cCCA-CCCCuCCCACUCUUUccCCAGGGg -3'
miRNA:   3'- -GGUaGGGGuGGGUGGGAAGa-GGUCCU- -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.