miRNA display CGI


Results 1 - 7 of 7 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
22335 3' -57.5 NC_005045.1 + 28740 0.67 0.451809
Target:  5'- uGAGCCUggaugGAGUgcgCCUGCUCGGcGAgGu -3'
miRNA:   3'- gUUCGGG-----CUCAa--GGGCGAGCCaCUgC- -5'
22335 3' -57.5 NC_005045.1 + 14755 0.69 0.385975
Target:  5'- -cGGCCCugcacaUCCUGCUgGGUGGCGg -3'
miRNA:   3'- guUCGGGcuca--AGGGCGAgCCACUGC- -5'
22335 3' -57.5 NC_005045.1 + 39555 0.69 0.377099
Target:  5'- uCAAGCCCGAGcuguaCCUGC-CGGcgcUGAUGg -3'
miRNA:   3'- -GUUCGGGCUCaa---GGGCGaGCC---ACUGC- -5'
22335 3' -57.5 NC_005045.1 + 39095 0.7 0.311169
Target:  5'- ----gCCGuGUcagcuucgCCCGCUCGGUGGCGg -3'
miRNA:   3'- guucgGGCuCAa-------GGGCGAGCCACUGC- -5'
22335 3' -57.5 NC_005045.1 + 16519 0.7 0.296118
Target:  5'- cCGAGCaccugaCCGAGcaaUCCCGCuUCGGUGAgGu -3'
miRNA:   3'- -GUUCG------GGCUCa--AGGGCG-AGCCACUgC- -5'
22335 3' -57.5 NC_005045.1 + 40395 0.7 0.296118
Target:  5'- -cGGCgaGGGUgccuuugCCCGcCUCGGUGGCGg -3'
miRNA:   3'- guUCGggCUCAa------GGGC-GAGCCACUGC- -5'
22335 3' -57.5 NC_005045.1 + 18998 1.09 0.000463
Target:  5'- aCAAGCCCGAGUUCCCGCUCGGUGACGa -3'
miRNA:   3'- -GUUCGGGCUCAAGGGCGAGCCACUGC- -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.