miRNA display CGI


Results 1 - 20 of 65 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
33338 3' -56.5 NC_007605.1 + 82336 1.09 0.00275
Target:  5'- cAUCCACUGCUCAGGUACCAACGGCCCc -3'
miRNA:   3'- -UAGGUGACGAGUCCAUGGUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 82495 1 0.010374
Target:  5'- cAUCCACUGCUCGGGUACCcACGGCCCc -3'
miRNA:   3'- -UAGGUGACGAGUCCAUGGuUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 82054 0.96 0.02009
Target:  5'- cAUCUGCUGCUCuGGUACCAACGGCCCc -3'
miRNA:   3'- -UAGGUGACGAGuCCAUGGUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 115963 0.77 0.326322
Target:  5'- uGUuuGCUGCUCGGGgcaugcugcCCGGCGGCCUa -3'
miRNA:   3'- -UAggUGACGAGUCCau-------GGUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 154248 0.76 0.389308
Target:  5'- cGUCUACgGCUucacCGGGgugGCCAACGGCCUc -3'
miRNA:   3'- -UAGGUGaCGA----GUCCa--UGGUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 68452 0.74 0.472761
Target:  5'- aGUCCGCUGCUaccgagcagacaacgUGGGccUCAACGGCCCc -3'
miRNA:   3'- -UAGGUGACGA---------------GUCCauGGUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 134819 0.73 0.546314
Target:  5'- -gCCGCcaUGCUCAGGgccacggcgUGCCAGaGGCCCu -3'
miRNA:   3'- uaGGUG--ACGAGUCC---------AUGGUUgCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 69143 0.72 0.606823
Target:  5'- -aCCGCgUGCUuggCGGGUACCAgcguccagaggACGGCCa -3'
miRNA:   3'- uaGGUG-ACGA---GUCCAUGGU-----------UGCCGGg -5'
33338 3' -56.5 NC_007605.1 + 99366 0.7 0.678122
Target:  5'- cGUCCcCUGaccggcgCGGGaGCCGGCGGCCUc -3'
miRNA:   3'- -UAGGuGACga-----GUCCaUGGUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 48666 0.7 0.678122
Target:  5'- cAUCC-CgGCUCAGGcaggGCCcccCGGCCCc -3'
miRNA:   3'- -UAGGuGaCGAGUCCa---UGGuu-GCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 141688 0.7 0.688225
Target:  5'- gGUCCGCUGCcCcgcuccggcgggGGGUGCCGGCugcagccgGGUCCg -3'
miRNA:   3'- -UAGGUGACGaG------------UCCAUGGUUG--------CCGGG- -5'
33338 3' -56.5 NC_007605.1 + 168035 0.7 0.697278
Target:  5'- -cCCGCUGcCUCAGGacccugacaacacUGaugaCAAUGGCCCa -3'
miRNA:   3'- uaGGUGAC-GAGUCC-------------AUg---GUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 61500 0.69 0.728083
Target:  5'- cAUCCgaACUcCUCAGGUcucuGCUAugGGUCCg -3'
miRNA:   3'- -UAGG--UGAcGAGUCCA----UGGUugCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 71801 0.69 0.732006
Target:  5'- -aCCuCUGuCUCAGGcACCGgaugcccccggcuccACGGCCCc -3'
miRNA:   3'- uaGGuGAC-GAGUCCaUGGU---------------UGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 53833 0.69 0.737865
Target:  5'- -gCCGCUGCcCGGG--CCAggGCGGCCUc -3'
miRNA:   3'- uaGGUGACGaGUCCauGGU--UGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 10004 0.68 0.785215
Target:  5'- cUCCGcCUGCgCAGGUGCCAcaGGUUCc -3'
miRNA:   3'- uAGGU-GACGaGUCCAUGGUugCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 147860 0.68 0.803261
Target:  5'- -cCCGCUugugcGCUUAuguguuacacGGUGCCAAuaacCGGCCCg -3'
miRNA:   3'- uaGGUGA-----CGAGU----------CCAUGGUU----GCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 48931 0.68 0.803261
Target:  5'- cAUCCcCUGCUUGGGacccgACCGcacuugcauGCGGCCg -3'
miRNA:   3'- -UAGGuGACGAGUCCa----UGGU---------UGCCGGg -5'
33338 3' -56.5 NC_007605.1 + 42023 0.68 0.803261
Target:  5'- -gCCGCUccCUCAGGUGuCCAcaGGCCCc -3'
miRNA:   3'- uaGGUGAc-GAGUCCAU-GGUugCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 143439 0.68 0.806798
Target:  5'- cGUCCAgacGCUCGGGgggugcacaccucCCAGcCGGCCCg -3'
miRNA:   3'- -UAGGUga-CGAGUCCau-----------GGUU-GCCGGG- -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.