miRNA display CGI


Results 1 - 12 of 12 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
23314 3' -60.6 NC_005259.1 + 56417 0.66 0.478103
Target:  5'- gGCCCgCCGAGCucaagcagagcagcgAGcGCCGGGccacgCAGCUc -3'
miRNA:   3'- -UGGG-GGCUCG---------------UC-CGGCCCua---GUUGAu -5'
23314 3' -60.6 NC_005259.1 + 26437 0.66 0.445485
Target:  5'- cACCgCCGAGCGGGCgGGccGGUgGGCc- -3'
miRNA:   3'- -UGGgGGCUCGUCCGgCC--CUAgUUGau -5'
23314 3' -60.6 NC_005259.1 + 65616 0.67 0.417765
Target:  5'- uCCCCCGgcaAGCAuGGCCcauGAUCGGCUGc -3'
miRNA:   3'- uGGGGGC---UCGU-CCGGcc-CUAGUUGAU- -5'
23314 3' -60.6 NC_005259.1 + 36308 0.68 0.357366
Target:  5'- aGCgCuuGGGCGGG-CGGGAUCAugUu -3'
miRNA:   3'- -UGgGggCUCGUCCgGCCCUAGUugAu -5'
23314 3' -60.6 NC_005259.1 + 14981 0.69 0.328778
Target:  5'- gGCCgCCGgguacaagacacAGCAGGCCGGGuacgagggcauggacAUCGACa- -3'
miRNA:   3'- -UGGgGGC------------UCGUCCGGCCC---------------UAGUUGau -5'
23314 3' -60.6 NC_005259.1 + 26290 0.69 0.318126
Target:  5'- cGCCCUCGA-CGGGUacgGGGAUCGACc- -3'
miRNA:   3'- -UGGGGGCUcGUCCGg--CCCUAGUUGau -5'
23314 3' -60.6 NC_005259.1 + 26104 0.69 0.303362
Target:  5'- gACCCCCGAGCAGaccgccgccGCCGGucgccGGUcCGACg- -3'
miRNA:   3'- -UGGGGGCUCGUC---------CGGCC-----CUA-GUUGau -5'
23314 3' -60.6 NC_005259.1 + 49578 0.7 0.282215
Target:  5'- gGCCagaCCG-GCGGG-CGGGGUCAGCa- -3'
miRNA:   3'- -UGGg--GGCuCGUCCgGCCCUAGUUGau -5'
23314 3' -60.6 NC_005259.1 + 43031 0.71 0.220149
Target:  5'- uGCCgCCGAGCAGGCCGccGAgCAGCg- -3'
miRNA:   3'- -UGGgGGCUCGUCCGGCc-CUaGUUGau -5'
23314 3' -60.6 NC_005259.1 + 47030 0.74 0.134032
Target:  5'- cGCCUCC-AGCAGGCCGgGGAUCuGCg- -3'
miRNA:   3'- -UGGGGGcUCGUCCGGC-CCUAGuUGau -5'
23314 3' -60.6 NC_005259.1 + 19677 0.75 0.114039
Target:  5'- cAUCCCCGGuCAGGUCGGGAUCGAg-- -3'
miRNA:   3'- -UGGGGGCUcGUCCGGCCCUAGUUgau -5'
23314 3' -60.6 NC_005259.1 + 14197 1.05 0.000643
Target:  5'- cACCCCCGAGCAGGCCGGGAUCAACUAc -3'
miRNA:   3'- -UGGGGGCUCGUCCGGCCCUAGUUGAU- -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.