miRNA display CGI


Results 1 - 20 of 27 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
23026 5' -59.7 NC_005178.1 + 6200 1.07 0.000243
Target:  5'- uAGCCUUCGCGGCGCUACCGCCUUGCUg -3'
miRNA:   3'- -UCGGAAGCGCCGCGAUGGCGGAACGA- -5'
23026 5' -59.7 NC_005178.1 + 21075 0.78 0.044491
Target:  5'- aGGCCggUgGCGGUGCUGCCGCCcacgGCg -3'
miRNA:   3'- -UCGGa-AgCGCCGCGAUGGCGGaa--CGa -5'
23026 5' -59.7 NC_005178.1 + 20566 0.74 0.08975
Target:  5'- gGGCCaggUCGCGGCGCUGaccucUCGCCUcaacgGCg -3'
miRNA:   3'- -UCGGa--AGCGCCGCGAU-----GGCGGAa----CGa -5'
23026 5' -59.7 NC_005178.1 + 4441 0.74 0.092374
Target:  5'- cGGCCUgcacuucaagggUCGCGGCGCUGCgCGaCCggagUUGCUc -3'
miRNA:   3'- -UCGGA------------AGCGCCGCGAUG-GC-GG----AACGA- -5'
23026 5' -59.7 NC_005178.1 + 11159 0.74 0.097842
Target:  5'- cAGCag-CGCGGCGCUGCCgGCCgagGUg -3'
miRNA:   3'- -UCGgaaGCGCCGCGAUGG-CGGaa-CGa -5'
23026 5' -59.7 NC_005178.1 + 31637 0.73 0.112878
Target:  5'- aGGCCg--GCGGCGgUACUGCCUUGa- -3'
miRNA:   3'- -UCGGaagCGCCGCgAUGGCGGAACga -5'
23026 5' -59.7 NC_005178.1 + 3288 0.73 0.12291
Target:  5'- cGCCcgaccUCGCGGCugacGUUGCCGaCCUUGCg -3'
miRNA:   3'- uCGGa----AGCGCCG----CGAUGGC-GGAACGa -5'
23026 5' -59.7 NC_005178.1 + 28232 0.71 0.149612
Target:  5'- cGCCgcCGCuauccaGGcCGCUGCCGCCUcGCUg -3'
miRNA:   3'- uCGGaaGCG------CC-GCGAUGGCGGAaCGA- -5'
23026 5' -59.7 NC_005178.1 + 20966 0.7 0.176591
Target:  5'- aGGUCUUCGcCGGCGCcAUCGUCgugGCg -3'
miRNA:   3'- -UCGGAAGC-GCCGCGaUGGCGGaa-CGa -5'
23026 5' -59.7 NC_005178.1 + 21375 0.7 0.202295
Target:  5'- cGCCUUCGCGGCGgCccccACCaCCUgGCa -3'
miRNA:   3'- uCGGAAGCGCCGC-Ga---UGGcGGAaCGa -5'
23026 5' -59.7 NC_005178.1 + 37128 0.69 0.219233
Target:  5'- cGCCa--GCGaGUGCUGCCGCCUcGUc -3'
miRNA:   3'- uCGGaagCGC-CGCGAUGGCGGAaCGa -5'
23026 5' -59.7 NC_005178.1 + 17407 0.69 0.225142
Target:  5'- cAGCCggCGCGG-GCUGCCgaGCUggGCg -3'
miRNA:   3'- -UCGGaaGCGCCgCGAUGG--CGGaaCGa -5'
23026 5' -59.7 NC_005178.1 + 12110 0.69 0.231187
Target:  5'- gGGCCUggcCGaugGGCGC-GCCGCCU-GCg -3'
miRNA:   3'- -UCGGAa--GCg--CCGCGaUGGCGGAaCGa -5'
23026 5' -59.7 NC_005178.1 + 10933 0.68 0.243685
Target:  5'- cGCCgagUCGaucCGGCGCggcCCGCCUccUGCc -3'
miRNA:   3'- uCGGa--AGC---GCCGCGau-GGCGGA--ACGa -5'
23026 5' -59.7 NC_005178.1 + 22870 0.68 0.250142
Target:  5'- cGGCggUCGUGGCccagGCUAUCGCCgaUGCg -3'
miRNA:   3'- -UCGgaAGCGCCG----CGAUGGCGGa-ACGa -5'
23026 5' -59.7 NC_005178.1 + 32731 0.68 0.250142
Target:  5'- uGGCCgacCGUGGauaGCUGCCGCauaacgUGCg -3'
miRNA:   3'- -UCGGaa-GCGCCg--CGAUGGCGga----ACGa -5'
23026 5' -59.7 NC_005178.1 + 29106 0.68 0.270363
Target:  5'- cGCCUg-GCGGCGaCUacuggACCGCgUUUGCUa -3'
miRNA:   3'- uCGGAagCGCCGC-GA-----UGGCG-GAACGA- -5'
23026 5' -59.7 NC_005178.1 + 35558 0.67 0.31471
Target:  5'- uAGaCCUUCGCcggguacGCGCUACCGUUgaUGCg -3'
miRNA:   3'- -UC-GGAAGCGc------CGCGAUGGCGGa-ACGa -5'
23026 5' -59.7 NC_005178.1 + 23960 0.66 0.327428
Target:  5'- cGCCguugacgauaggCGCGGCGUcaaucUCGCCUUGCc -3'
miRNA:   3'- uCGGaa----------GCGCCGCGau---GGCGGAACGa -5'
23026 5' -59.7 NC_005178.1 + 12694 0.66 0.330667
Target:  5'- cGGCCUgcUCGCGGCGCgUAUCaaGCUcgGUa -3'
miRNA:   3'- -UCGGA--AGCGCCGCG-AUGG--CGGaaCGa -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.