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
17142 5' -55.8 NC_004333.2 + 18616 0.66 0.658575
Target:  5'- cGCGcCGGCUgccGCAcccggguUGcCGCCGGCUg -3'
miRNA:   3'- -UGCaGCCGAacuCGU-------ACaGCGGCUGA- -5'
17142 5' -55.8 NC_004333.2 + 438 0.66 0.637497
Target:  5'- cUGUCGGCcUGcAGC-UGUucaaagCGCCGACg -3'
miRNA:   3'- uGCAGCCGaAC-UCGuACA------GCGGCUGa -5'
17142 5' -55.8 NC_004333.2 + 47829 0.67 0.599778
Target:  5'- uGCGgaCGGCgcuucuuuggaggUGAGCAUGUgGCuCGGCg -3'
miRNA:   3'- -UGCa-GCCGa------------ACUCGUACAgCG-GCUGa -5'
17142 5' -55.8 NC_004333.2 + 789 0.67 0.593145
Target:  5'- --uUCGacCUUGAGCGUgccgGUCGCCGGCg -3'
miRNA:   3'- ugcAGCc-GAACUCGUA----CAGCGGCUGa -5'
17142 5' -55.8 NC_004333.2 + 18072 0.67 0.571134
Target:  5'- uCGUCGGCUUGAGUuUGUUGaucuggGGCg -3'
miRNA:   3'- uGCAGCCGAACUCGuACAGCgg----CUGa -5'
17142 5' -55.8 NC_004333.2 + 35470 0.67 0.571134
Target:  5'- aACGUCGGCaccgUcaacgggccggUGAGCGUGcCGCCuGCg -3'
miRNA:   3'- -UGCAGCCG----A-----------ACUCGUACaGCGGcUGa -5'
17142 5' -55.8 NC_004333.2 + 9810 0.67 0.571134
Target:  5'- cGCGcaucCGGCgcu--CAUGUCGCCGACg -3'
miRNA:   3'- -UGCa---GCCGaacucGUACAGCGGCUGa -5'
17142 5' -55.8 NC_004333.2 + 42026 0.67 0.549324
Target:  5'- cGCG-CGGCcaacgagcgGGGCGUGcUCGCCGAa- -3'
miRNA:   3'- -UGCaGCCGaa-------CUCGUAC-AGCGGCUga -5'
17142 5' -55.8 NC_004333.2 + 28941 0.68 0.52778
Target:  5'- cGCG-CGGCacGAGCGcuUGagcgCGCCGGCUa -3'
miRNA:   3'- -UGCaGCCGaaCUCGU--ACa---GCGGCUGA- -5'
17142 5' -55.8 NC_004333.2 + 32201 0.68 0.52778
Target:  5'- gACGaCGaGCgcgaUGAGCAcGUCGCCGAg- -3'
miRNA:   3'- -UGCaGC-CGa---ACUCGUaCAGCGGCUga -5'
17142 5' -55.8 NC_004333.2 + 41079 0.68 0.496083
Target:  5'- cACGUgCGGUUUGuuGGCAUGacugCGaCCGACUu -3'
miRNA:   3'- -UGCA-GCCGAAC--UCGUACa---GC-GGCUGA- -5'
17142 5' -55.8 NC_004333.2 + 26639 0.69 0.444313
Target:  5'- uUGUCGcaccgccGCUcgUGAGCGUGaucgCGCCGGCUg -3'
miRNA:   3'- uGCAGC-------CGA--ACUCGUACa---GCGGCUGA- -5'
17142 5' -55.8 NC_004333.2 + 37250 0.7 0.425811
Target:  5'- cGCGUCGuGagc-GGCGUGUCGCCGcGCUg -3'
miRNA:   3'- -UGCAGC-CgaacUCGUACAGCGGC-UGA- -5'
17142 5' -55.8 NC_004333.2 + 18470 0.71 0.370533
Target:  5'- gGCGUUGcGCUUcggacggcacGAGCAUGaUGCCGGCg -3'
miRNA:   3'- -UGCAGC-CGAA----------CUCGUACaGCGGCUGa -5'
17142 5' -55.8 NC_004333.2 + 31368 0.74 0.235727
Target:  5'- gGCGUCGGCgcaggUGcGGCcgGucUCGCCGGCa -3'
miRNA:   3'- -UGCAGCCGa----AC-UCGuaC--AGCGGCUGa -5'
17142 5' -55.8 NC_004333.2 + 13161 1.08 0.000921
Target:  5'- uACGUCGGCUUGAGCAUGUCGCCGACUg -3'
miRNA:   3'- -UGCAGCCGAACUCGUACAGCGGCUGA- -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.