miRNA display CGI


Results 1 - 20 of 58 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
28728 5' -58.8 NC_006146.1 + 120832 0.74 0.332033
Target:  5'- uGCCGCacaagcgcuucCUGGAGGGCCUGCUGg -3'
miRNA:   3'- -UGGCGgaacca-----GACCUUCCGGACGAC- -5'
28728 5' -58.8 NC_006146.1 + 15965 0.67 0.734182
Target:  5'- gGCCgGUCUcgGGUCUGG-GGGUCUGUg- -3'
miRNA:   3'- -UGG-CGGAa-CCAGACCuUCCGGACGac -5'
28728 5' -58.8 NC_006146.1 + 57048 0.68 0.694905
Target:  5'- aGCCGCCagGGUUgaggcgGGAggGGGCCUGaCg- -3'
miRNA:   3'- -UGGCGGaaCCAGa-----CCU--UCCGGAC-Gac -5'
28728 5' -58.8 NC_006146.1 + 159480 0.68 0.694905
Target:  5'- gGCCaCCUUGGcCUGGuccugcAGGCuCUGCUu -3'
miRNA:   3'- -UGGcGGAACCaGACCu-----UCCG-GACGAc -5'
28728 5' -58.8 NC_006146.1 + 39074 0.68 0.66488
Target:  5'- cGCCgGCCUccGGUCUGGGgaAGGCCaggGCc- -3'
miRNA:   3'- -UGG-CGGAa-CCAGACCU--UCCGGa--CGac -5'
28728 5' -58.8 NC_006146.1 + 99307 0.68 0.654808
Target:  5'- cCCGCC-UGGUCaGGGccAGaCCUGCUGc -3'
miRNA:   3'- uGGCGGaACCAGaCCU--UCcGGACGAC- -5'
28728 5' -58.8 NC_006146.1 + 64730 0.66 0.799255
Target:  5'- uGCagaGCCcUGcGuUCUGGAuGGCCUGCa- -3'
miRNA:   3'- -UGg--CGGaAC-C-AGACCUuCCGGACGac -5'
28728 5' -58.8 NC_006146.1 + 3793 0.66 0.775771
Target:  5'- -aCGCCUUuguggcccacagucaGGUCUGGGucAGGCCagGCg- -3'
miRNA:   3'- ugGCGGAA---------------CCAGACCU--UCCGGa-CGac -5'
28728 5' -58.8 NC_006146.1 + 33240 0.67 0.743808
Target:  5'- gGCCGCCggcgGGUCcGccGGGCC-GCUGc -3'
miRNA:   3'- -UGGCGGaa--CCAGaCcuUCCGGaCGAC- -5'
28728 5' -58.8 NC_006146.1 + 85912 0.67 0.714681
Target:  5'- aGCCGCggggcuuuaccCUggGGcCUGGAuGGCCUGCg- -3'
miRNA:   3'- -UGGCG-----------GAa-CCaGACCUuCCGGACGac -5'
28728 5' -58.8 NC_006146.1 + 127213 0.68 0.674925
Target:  5'- -aCGCCguagUGGccuUCUcGGAGGGCCUGgaGc -3'
miRNA:   3'- ugGCGGa---ACC---AGA-CCUUCCGGACgaC- -5'
28728 5' -58.8 NC_006146.1 + 154657 0.71 0.477364
Target:  5'- uGCCGCCggcugcaccgUGGUggcGGggGGCgCUGCUGc -3'
miRNA:   3'- -UGGCGGa---------ACCAga-CCuuCCG-GACGAC- -5'
28728 5' -58.8 NC_006146.1 + 33362 0.67 0.743808
Target:  5'- gGCCGCCggugGGUCcGccGGGCC-GCUGc -3'
miRNA:   3'- -UGGCGGaa--CCAGaCcuUCCGGaCGAC- -5'
28728 5' -58.8 NC_006146.1 + 41577 0.71 0.515286
Target:  5'- gGCCGCCUacUGG-CUGGccgaggcggaGAGGCCcgggggGCUGg -3'
miRNA:   3'- -UGGCGGA--ACCaGACC----------UUCCGGa-----CGAC- -5'
28728 5' -58.8 NC_006146.1 + 48197 0.68 0.704823
Target:  5'- cGCCGaCUUGGcauccggggaCUGGAGGGCCUgGCg- -3'
miRNA:   3'- -UGGCgGAACCa---------GACCUUCCGGA-CGac -5'
28728 5' -58.8 NC_006146.1 + 70143 0.66 0.772079
Target:  5'- uGCCGCCUUcGcCUGGcuccuGGCCggggcGCUGg -3'
miRNA:   3'- -UGGCGGAAcCaGACCuu---CCGGa----CGAC- -5'
28728 5' -58.8 NC_006146.1 + 125613 0.69 0.644719
Target:  5'- --gGUCUUGGUCUGGcGGGCCUcagggGCa- -3'
miRNA:   3'- uggCGGAACCAGACCuUCCGGA-----CGac -5'
28728 5' -58.8 NC_006146.1 + 100278 0.67 0.734182
Target:  5'- aGCCuCCUagcgGGggCUGGcAGGCCUGCa- -3'
miRNA:   3'- -UGGcGGAa---CCa-GACCuUCCGGACGac -5'
28728 5' -58.8 NC_006146.1 + 146789 0.67 0.714681
Target:  5'- --gGCCUggGGcCUcGGAGGGCCUGgaGg -3'
miRNA:   3'- uggCGGAa-CCaGA-CCUUCCGGACgaC- -5'
28728 5' -58.8 NC_006146.1 + 149867 0.67 0.714681
Target:  5'- --gGCCUggGGcCUcGGAGGGCCUGgaGg -3'
miRNA:   3'- uggCGGAa-CCaGA-CCUUCCGGACgaC- -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.