miRNA display CGI


Results 1 - 20 of 28 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
23207 5' -53.1 NC_005259.1 + 57791 1.14 0.001326
Target:  5'- gUCGGAGACGUUGAAGACCUCGACGCCg -3'
miRNA:   3'- -AGCCUCUGCAACUUCUGGAGCUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 68554 0.77 0.314743
Target:  5'- aUCGGGGugGUUGAgccaaccgagguGGACCUCGuauccgGCgGCCa -3'
miRNA:   3'- -AGCCUCugCAACU------------UCUGGAGC------UG-CGG- -5'
23207 5' -53.1 NC_005259.1 + 32853 0.73 0.524732
Target:  5'- cUCuGAGACGaacuuGACCUCGACGCg -3'
miRNA:   3'- -AGcCUCUGCaacuuCUGGAGCUGCGg -5'
23207 5' -53.1 NC_005259.1 + 18237 0.72 0.599124
Target:  5'- cCGGAGACGgagauuucgagcUgcccgccgcgccUGAAccugagacGACCUCGACGCCc -3'
miRNA:   3'- aGCCUCUGC------------A------------ACUU--------CUGGAGCUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 63233 0.72 0.599124
Target:  5'- aUCGGGGuCGcUGGucAGACC-CGACGCg -3'
miRNA:   3'- -AGCCUCuGCaACU--UCUGGaGCUGCGg -5'
23207 5' -53.1 NC_005259.1 + 44969 0.71 0.631569
Target:  5'- aUCGG-GAUGccGAGGGCCggugCGACuGCCg -3'
miRNA:   3'- -AGCCuCUGCaaCUUCUGGa---GCUG-CGG- -5'
23207 5' -53.1 NC_005259.1 + 29908 0.71 0.642398
Target:  5'- -aGGGGugGcUGcccGAGACCaUCGACGCg -3'
miRNA:   3'- agCCUCugCaAC---UUCUGG-AGCUGCGg -5'
23207 5' -53.1 NC_005259.1 + 39554 0.7 0.689802
Target:  5'- ----cGACGUUGAGccggucguccggcccGACCUCGAUGCUg -3'
miRNA:   3'- agccuCUGCAACUU---------------CUGGAGCUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 13212 0.7 0.717381
Target:  5'- gCGGGGccaGCGgu--GGGCCUCGACcgGCCa -3'
miRNA:   3'- aGCCUC---UGCaacuUCUGGAGCUG--CGG- -5'
23207 5' -53.1 NC_005259.1 + 28138 0.7 0.717381
Target:  5'- aCGuAGGCGaUGAGcugcccGGCCUCGACGCg -3'
miRNA:   3'- aGCcUCUGCaACUU------CUGGAGCUGCGg -5'
23207 5' -53.1 NC_005259.1 + 67240 0.69 0.73823
Target:  5'- gCGGuguAGGgGUUGAgcgGGGCCUCGGgcaGCCg -3'
miRNA:   3'- aGCC---UCUgCAACU---UCUGGAGCUg--CGG- -5'
23207 5' -53.1 NC_005259.1 + 14305 0.69 0.758665
Target:  5'- gUCGGuG-CGUaugGccGcCCUCGACGCCg -3'
miRNA:   3'- -AGCCuCuGCAa--CuuCuGGAGCUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 23739 0.68 0.797945
Target:  5'- aCGuGGGACGgc---GACCcCGACGCCc -3'
miRNA:   3'- aGC-CUCUGCaacuuCUGGaGCUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 41725 0.68 0.807372
Target:  5'- cCGGcGGCGggGAGGacaccGCCUCGAcaCGCUc -3'
miRNA:   3'- aGCCuCUGCaaCUUC-----UGGAGCU--GCGG- -5'
23207 5' -53.1 NC_005259.1 + 24389 0.68 0.811094
Target:  5'- cCGGAGuACGUcGAAcgcaccgugcucaauGACCUCGGCGa- -3'
miRNA:   3'- aGCCUC-UGCAaCUU---------------CUGGAGCUGCgg -5'
23207 5' -53.1 NC_005259.1 + 53499 0.68 0.816621
Target:  5'- uUCGGAu-CGgUGAAcaacGugCUCGugGCCa -3'
miRNA:   3'- -AGCCUcuGCaACUU----CugGAGCugCGG- -5'
23207 5' -53.1 NC_005259.1 + 1546 0.68 0.816621
Target:  5'- aUCGGGGccGCGUUcGGGGCggUGACGCUg -3'
miRNA:   3'- -AGCCUC--UGCAAcUUCUGgaGCUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 68403 0.68 0.825682
Target:  5'- cUGGAccaccaACGU---AGACCUUGACGCCu -3'
miRNA:   3'- aGCCUc-----UGCAacuUCUGGAGCUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 34732 0.67 0.834547
Target:  5'- gUCGGGGAaacCGUUGguGAUCgu-GCGCCa -3'
miRNA:   3'- -AGCCUCU---GCAACuuCUGGagcUGCGG- -5'
23207 5' -53.1 NC_005259.1 + 20468 0.67 0.851648
Target:  5'- cUCGGAuGAcCGccGucGACCUCGACaCCg -3'
miRNA:   3'- -AGCCU-CU-GCaaCuuCUGGAGCUGcGG- -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.