miRNA display CGI


Results 1 - 20 of 31 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
2656 3' -57.7 NC_001491.2 + 94321 1.14 0.000976
Target:  5'- aCCUCCGUCUCGCAGCCUCGCAAGCGCg -3'
miRNA:   3'- -GGAGGCAGAGCGUCGGAGCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 115580 0.78 0.238131
Target:  5'- cCCgCUGUUggCGguGCUUCGCAGGCGCg -3'
miRNA:   3'- -GGaGGCAGa-GCguCGGAGCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 84355 0.77 0.289765
Target:  5'- gCCUCUGUCUcCGCAGCaagagcggcgauaugCaCGCAAGCGCc -3'
miRNA:   3'- -GGAGGCAGA-GCGUCG---------------GaGCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 2426 0.75 0.37486
Target:  5'- cCCUCCGUCUCaGCgGGCCgcuggcCGCcagcuccccgAAGCGCg -3'
miRNA:   3'- -GGAGGCAGAG-CG-UCGGa-----GCG----------UUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 114316 0.75 0.390317
Target:  5'- cCCUCCGUUUUGacagccagGGCCUCGCAcucuugcAGUGCc -3'
miRNA:   3'- -GGAGGCAGAGCg-------UCGGAGCGU-------UCGCG- -5'
2656 3' -57.7 NC_001491.2 + 66761 0.72 0.536186
Target:  5'- aCUCCGgCUCGguGCUagcuUCGCAGGaGCu -3'
miRNA:   3'- gGAGGCaGAGCguCGG----AGCGUUCgCG- -5'
2656 3' -57.7 NC_001491.2 + 27098 0.71 0.564663
Target:  5'- gCCUCCG-CggGCGGCCcggCGCcgcuccgGAGCGCg -3'
miRNA:   3'- -GGAGGCaGagCGUCGGa--GCG-------UUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 52863 0.71 0.605537
Target:  5'- gCCgCgGUCUgCGCGGCgCUgGCAAcGCGCg -3'
miRNA:   3'- -GGaGgCAGA-GCGUCG-GAgCGUU-CGCG- -5'
2656 3' -57.7 NC_001491.2 + 147167 0.7 0.62562
Target:  5'- aCCUCCGUUUCuuCGGCCagggCGgCGAGCGa -3'
miRNA:   3'- -GGAGGCAGAGc-GUCGGa---GC-GUUCGCg -5'
2656 3' -57.7 NC_001491.2 + 33822 0.7 0.655762
Target:  5'- gCUCCGaCgagcUGC-GCCUCGCGGuGCGCg -3'
miRNA:   3'- gGAGGCaGa---GCGuCGGAGCGUU-CGCG- -5'
2656 3' -57.7 NC_001491.2 + 95234 0.7 0.665783
Target:  5'- gCCUCCGgaggUUGCuGGCCUCGCAGGa-- -3'
miRNA:   3'- -GGAGGCag--AGCG-UCGGAGCGUUCgcg -5'
2656 3' -57.7 NC_001491.2 + 108993 0.68 0.725067
Target:  5'- gCUCCGagcggCUUcggcuugaguaGCAGCCUCGC--GCGCc -3'
miRNA:   3'- gGAGGCa----GAG-----------CGUCGGAGCGuuCGCG- -5'
2656 3' -57.7 NC_001491.2 + 35140 0.68 0.734728
Target:  5'- aCCUCUGcCUgCGCcugGGCUcCGCcAGGCGCa -3'
miRNA:   3'- -GGAGGCaGA-GCG---UCGGaGCG-UUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 110772 0.68 0.76316
Target:  5'- aCUCUGg--CGCGGCUUCGCGAGa-- -3'
miRNA:   3'- gGAGGCagaGCGUCGGAGCGUUCgcg -5'
2656 3' -57.7 NC_001491.2 + 28645 0.68 0.76316
Target:  5'- uCCgagCCGcCggGgAGCCUCGCGGGCacGCg -3'
miRNA:   3'- -GGa--GGCaGagCgUCGGAGCGUUCG--CG- -5'
2656 3' -57.7 NC_001491.2 + 60970 0.67 0.781569
Target:  5'- gCCUCCa-CUCGCug---CGCGAGCGCu -3'
miRNA:   3'- -GGAGGcaGAGCGucggaGCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 3889 0.67 0.816767
Target:  5'- uCC-CCGcCUCGUcucucggguaGGCCauguccgCGUAGGCGCg -3'
miRNA:   3'- -GGaGGCaGAGCG----------UCGGa------GCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 120828 0.67 0.825182
Target:  5'- uCC-CCGggagugCGCGcGCCU-GCAGGCGCu -3'
miRNA:   3'- -GGaGGCaga---GCGU-CGGAgCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 32949 0.67 0.825182
Target:  5'- uCCUggCCGcCUCGC-GCUaCGCcgAGGCGCa -3'
miRNA:   3'- -GGA--GGCaGAGCGuCGGaGCG--UUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 79331 0.66 0.833428
Target:  5'- aCUCagGUUgCGCAGCUUUaGCAucAGCGCg -3'
miRNA:   3'- gGAGg-CAGaGCGUCGGAG-CGU--UCGCG- -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.