miRNA display CGI


Results 1 - 15 of 15 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
14233 3' -57.3 NC_003521.1 + 196658 0.66 0.923622
Target:  5'- aCGUC-CAGCUGg-GUGCGcAGGUCc- -3'
miRNA:   3'- aGCAGaGUCGGCgaCACGC-UCCAGuu -5'
14233 3' -57.3 NC_003521.1 + 197327 0.66 0.923622
Target:  5'- -gGUCggccaGGCC-CUGgGCGAGGUCAu -3'
miRNA:   3'- agCAGag---UCGGcGACaCGCUCCAGUu -5'
14233 3' -57.3 NC_003521.1 + 136396 0.66 0.918185
Target:  5'- ---cCUCGGCCGCgggccgcGUGUGAGG-CAGa -3'
miRNA:   3'- agcaGAGUCGGCGa------CACGCUCCaGUU- -5'
14233 3' -57.3 NC_003521.1 + 130560 0.67 0.893542
Target:  5'- uUCGUgCUCAGCCGCUucaagcgccagGUGCuguacuucaagcuGcAGGUCAGc -3'
miRNA:   3'- -AGCA-GAGUCGGCGA-----------CACG-------------C-UCCAGUU- -5'
14233 3' -57.3 NC_003521.1 + 84087 0.67 0.880874
Target:  5'- -gGUCaUGGCCGUgc-GCGAGGUCAGg -3'
miRNA:   3'- agCAGaGUCGGCGacaCGCUCCAGUU- -5'
14233 3' -57.3 NC_003521.1 + 122703 0.67 0.8739
Target:  5'- gCGUCUCGGCgggGCUGgagGCGGucguGGUCGu -3'
miRNA:   3'- aGCAGAGUCGg--CGACa--CGCU----CCAGUu -5'
14233 3' -57.3 NC_003521.1 + 126411 0.67 0.86672
Target:  5'- -gGUCUCGGCC-CUGcGCGAuggcggccaggcGGUCGAg -3'
miRNA:   3'- agCAGAGUCGGcGACaCGCU------------CCAGUU- -5'
14233 3' -57.3 NC_003521.1 + 53496 0.68 0.851767
Target:  5'- aCGUCgaGGCCGCUGcUGCGGcGUCGc -3'
miRNA:   3'- aGCAGagUCGGCGAC-ACGCUcCAGUu -5'
14233 3' -57.3 NC_003521.1 + 172555 0.68 0.827936
Target:  5'- --aUCUCGuGCCGCUGUccCGGGGUCGg -3'
miRNA:   3'- agcAGAGU-CGGCGACAc-GCUCCAGUu -5'
14233 3' -57.3 NC_003521.1 + 74063 0.69 0.792949
Target:  5'- cCGagCUCAcgcGCCGCUGUcuggcggGCGAGGUCu- -3'
miRNA:   3'- aGCa-GAGU---CGGCGACA-------CGCUCCAGuu -5'
14233 3' -57.3 NC_003521.1 + 150347 0.71 0.670484
Target:  5'- cCGUCUCGGCCGaggucugcGUGCGGaccguGGUCGAc -3'
miRNA:   3'- aGCAGAGUCGGCga------CACGCU-----CCAGUU- -5'
14233 3' -57.3 NC_003521.1 + 115219 0.72 0.617713
Target:  5'- gUCGUCUCGGCCgagaguuccuccguGUUGUGCGccgccguGGUCGGg -3'
miRNA:   3'- -AGCAGAGUCGG--------------CGACACGCu------CCAGUU- -5'
14233 3' -57.3 NC_003521.1 + 56778 0.72 0.590871
Target:  5'- cCGUC-CAGCUGCUGUgcGCGAGGgcucgCGAc -3'
miRNA:   3'- aGCAGaGUCGGCGACA--CGCUCCa----GUU- -5'
14233 3' -57.3 NC_003521.1 + 217619 0.73 0.559337
Target:  5'- gCGUCUCGGCCGCcaucuccucgGCGuGGUCGGg -3'
miRNA:   3'- aGCAGAGUCGGCGaca-------CGCuCCAGUU- -5'
14233 3' -57.3 NC_003521.1 + 47314 1.06 0.004517
Target:  5'- gUCGUCUCAGCCGCUGUGCGAGGUCAAg -3'
miRNA:   3'- -AGCAGAGUCGGCGACACGCUCCAGUU- -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.