miRNA display CGI


Results 1 - 13 of 13 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
12679 5' -57.8 NC_003345.1 + 63386 0.66 0.714068
Target:  5'- uCCACGAggucaaCCGCGACCgCGUagacCGGGUa -3'
miRNA:   3'- -GGUGUUga----GGCGCUGGaGCAc---GCCCA- -5'
12679 5' -57.8 NC_003345.1 + 67593 0.66 0.69358
Target:  5'- aCCGCGuuaUCCGCGACaugaaGCGGGa -3'
miRNA:   3'- -GGUGUug-AGGCGCUGgagcaCGCCCa -5'
12679 5' -57.8 NC_003345.1 + 11008 0.66 0.69358
Target:  5'- -gACGA--CCGCGACCUCGUGauuguggacgaGGGa -3'
miRNA:   3'- ggUGUUgaGGCGCUGGAGCACg----------CCCa -5'
12679 5' -57.8 NC_003345.1 + 40602 0.66 0.672878
Target:  5'- cCCcCcACUCUGUGuucCCgcgCGUGCGGGg -3'
miRNA:   3'- -GGuGuUGAGGCGCu--GGa--GCACGCCCa -5'
12679 5' -57.8 NC_003345.1 + 30623 0.67 0.652037
Target:  5'- aCCGauuuggaGGCgucCCGUGGCC-CGUGUGGGa -3'
miRNA:   3'- -GGUg------UUGa--GGCGCUGGaGCACGCCCa -5'
12679 5' -57.8 NC_003345.1 + 38675 0.67 0.652037
Target:  5'- -----uUUCCGCGACCUCGgcagaGCaGGGUu -3'
miRNA:   3'- gguguuGAGGCGCUGGAGCa----CG-CCCA- -5'
12679 5' -57.8 NC_003345.1 + 25526 0.68 0.599794
Target:  5'- aCCACGucuuCUUCGcCGcCCUCGgagaGCGGGa -3'
miRNA:   3'- -GGUGUu---GAGGC-GCuGGAGCa---CGCCCa -5'
12679 5' -57.8 NC_003345.1 + 35191 0.68 0.599794
Target:  5'- gCGuCGGCUcCCGUGAaguCCUCG-GCGGGg -3'
miRNA:   3'- gGU-GUUGA-GGCGCU---GGAGCaCGCCCa -5'
12679 5' -57.8 NC_003345.1 + 57916 0.69 0.537986
Target:  5'- -gGCGGCUcCCGaCGAcCCUCGUGUGuGGa -3'
miRNA:   3'- ggUGUUGA-GGC-GCU-GGAGCACGC-CCa -5'
12679 5' -57.8 NC_003345.1 + 16436 0.69 0.498002
Target:  5'- aCCAguAC-CCGUGGcCCUCGUGUucucGGGUa -3'
miRNA:   3'- -GGUguUGaGGCGCU-GGAGCACG----CCCA- -5'
12679 5' -57.8 NC_003345.1 + 52283 0.7 0.459403
Target:  5'- cCCACGagACUCCgGCGAgaacccgaCUCGaUGCGGGg -3'
miRNA:   3'- -GGUGU--UGAGG-CGCUg-------GAGC-ACGCCCa -5'
12679 5' -57.8 NC_003345.1 + 19850 0.78 0.161435
Target:  5'- aCCGCGACUaCCaCGACCUCG-GUGGGg -3'
miRNA:   3'- -GGUGUUGA-GGcGCUGGAGCaCGCCCa -5'
12679 5' -57.8 NC_003345.1 + 72266 1.09 0.001085
Target:  5'- aCCACAACUCCGCGACCUCGUGCGGGUc -3'
miRNA:   3'- -GGUGUUGAGGCGCUGGAGCACGCCCA- -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.