miRNA display CGI


Results 1 - 8 of 8 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
2232 3' -59.6 NC_001405.1 + 9802 0.66 0.450176
Target:  5'- cGGUCuugagACGGCGGAUGGucgacagaagcaCCauguccuuGGGUCCGGc -3'
miRNA:   3'- cCUAG-----UGCCGCCUGCC------------GG--------CCUAGGCC- -5'
2232 3' -59.6 NC_001405.1 + 35227 0.66 0.440606
Target:  5'- cGGUCACGcCGGcAUGGCCGuaGUCCGu -3'
miRNA:   3'- cCUAGUGCcGCC-UGCCGGCc-UAGGCc -5'
2232 3' -59.6 NC_001405.1 + 5156 0.66 0.412607
Target:  5'- ---cUACGGCGGACGGCCucaaaCCGu -3'
miRNA:   3'- ccuaGUGCCGCCUGCCGGccua-GGCc -5'
2232 3' -59.6 NC_001405.1 + 10355 0.7 0.243783
Target:  5'- aGGGgccaGCGuaGGGUGGCCGGGgcUCCGGg -3'
miRNA:   3'- -CCUag--UGCcgCCUGCCGGCCU--AGGCC- -5'
2232 3' -59.6 NC_001405.1 + 18631 0.7 0.237662
Target:  5'- cGGGUUacaacaACGGCGGACGGCCcuggcagcacaGGuuucugCUGGg -3'
miRNA:   3'- -CCUAG------UGCCGCCUGCCGG-----------CCua----GGCC- -5'
2232 3' -59.6 NC_001405.1 + 8514 0.71 0.198352
Target:  5'- cGGuaccgCGCGGCGGGCGGUgGGccgCgGGg -3'
miRNA:   3'- -CCua---GUGCCGCCUGCCGgCCua-GgCC- -5'
2232 3' -59.6 NC_001405.1 + 10636 0.8 0.047236
Target:  5'- gGGuAUCAUGGCGGACGaccgggguucgaaccCCGGAUCCGGc -3'
miRNA:   3'- -CC-UAGUGCCGCCUGCc--------------GGCCUAGGCC- -5'
2232 3' -59.6 NC_001405.1 + 10729 1.12 0.000175
Target:  5'- uGGAUCACGGCGGACGGCCGGAUCCGGg -3'
miRNA:   3'- -CCUAGUGCCGCCUGCCGGCCUAGGCC- -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.