miRNA display CGI


Results 1 - 16 of 16 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
1876 3' -54.3 NC_001347.2 + 94319 0.66 0.980436
Target:  5'- gGGC-C-GUCgGAUGGggGgGuCGAGCg -3'
miRNA:   3'- -UCGaGaCAGaCUGCCuuCgCuGCUCG- -5'
1876 3' -54.3 NC_001347.2 + 73512 0.67 0.969734
Target:  5'- uGGCUCUGgcgGGagaaGGGaaggcggcagcggcAGCGGCGGGCc -3'
miRNA:   3'- -UCGAGACagaCUg---CCU--------------UCGCUGCUCG- -5'
1876 3' -54.3 NC_001347.2 + 222355 0.67 0.965802
Target:  5'- uAGCUCcuucuuuuccccaggUGgugcgaCUGACGGuGGCGGCG-GCa -3'
miRNA:   3'- -UCGAG---------------ACa-----GACUGCCuUCGCUGCuCG- -5'
1876 3' -54.3 NC_001347.2 + 214867 0.67 0.96118
Target:  5'- uGGCUCUGUUUaACGGA-GCGuuuugacccgcACGAGg -3'
miRNA:   3'- -UCGAGACAGAcUGCCUuCGC-----------UGCUCg -5'
1876 3' -54.3 NC_001347.2 + 46969 0.67 0.96118
Target:  5'- gAGCcCgggcGUUUGAUGGAGGUGAgGcAGCg -3'
miRNA:   3'- -UCGaGa---CAGACUGCCUUCGCUgC-UCG- -5'
1876 3' -54.3 NC_001347.2 + 75026 0.67 0.957626
Target:  5'- cGGC-CUGUCguuGCGGAcugcacaagguAGCGGCG-GCg -3'
miRNA:   3'- -UCGaGACAGac-UGCCU-----------UCGCUGCuCG- -5'
1876 3' -54.3 NC_001347.2 + 89709 0.67 0.957626
Target:  5'- cGGCggUG-CUGGCGGggGUggugGACGAGa -3'
miRNA:   3'- -UCGagACaGACUGCCuuCG----CUGCUCg -5'
1876 3' -54.3 NC_001347.2 + 167245 0.68 0.947361
Target:  5'- cGCUCUGcCcggcggcgucaugggUGGCGGAGGacugcCGGCGGGUg -3'
miRNA:   3'- uCGAGACaG---------------ACUGCCUUC-----GCUGCUCG- -5'
1876 3' -54.3 NC_001347.2 + 84800 0.68 0.945214
Target:  5'- aGGCaUCUGUCcaGAcCGGAugagaguGGCGACGuGCc -3'
miRNA:   3'- -UCG-AGACAGa-CU-GCCU-------UCGCUGCuCG- -5'
1876 3' -54.3 NC_001347.2 + 112406 0.68 0.936538
Target:  5'- gGGCgaccacGUCaGACGGGgcGGCGGCGGGUc -3'
miRNA:   3'- -UCGaga---CAGaCUGCCU--UCGCUGCUCG- -5'
1876 3' -54.3 NC_001347.2 + 56645 0.68 0.936538
Target:  5'- gGGuCUCggcGUCUGGgaGGAGGUGGCG-GCg -3'
miRNA:   3'- -UC-GAGa--CAGACUg-CCUUCGCUGCuCG- -5'
1876 3' -54.3 NC_001347.2 + 117147 0.69 0.931639
Target:  5'- uGGCg--GUUcGACuGGAGGCGACGGGg -3'
miRNA:   3'- -UCGagaCAGaCUG-CCUUCGCUGCUCg -5'
1876 3' -54.3 NC_001347.2 + 154344 0.69 0.930631
Target:  5'- aAGUUCUGgcggaaccagagCUcGACGGGcuGCGGCGAGUc -3'
miRNA:   3'- -UCGAGACa-----------GA-CUGCCUu-CGCUGCUCG- -5'
1876 3' -54.3 NC_001347.2 + 137064 0.71 0.847476
Target:  5'- gAGCUCg--CUGAgCGGcAGCGGCG-GCa -3'
miRNA:   3'- -UCGAGacaGACU-GCCuUCGCUGCuCG- -5'
1876 3' -54.3 NC_001347.2 + 58671 0.72 0.823133
Target:  5'- uGGCUCgcugcgUGUUUG-CGcGuAGCGACGAGCa -3'
miRNA:   3'- -UCGAG------ACAGACuGC-CuUCGCUGCUCG- -5'
1876 3' -54.3 NC_001347.2 + 192492 0.75 0.623054
Target:  5'- cGCUCUGUCaUGACGGuGGUGAgguCGAGa -3'
miRNA:   3'- uCGAGACAG-ACUGCCuUCGCU---GCUCg -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.