miRNA display CGI


Results 1 - 20 of 39 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
13442 3' -61.9 NC_003409.1 + 8520 0.66 0.644358
Target:  5'- cGCCUCAGGGCuCACCGgGGuuugaggaaccgaaaCCCGCa- -3'
miRNA:   3'- -UGGGGUUCCGcGUGGCaUC---------------GGGCGcu -5'
13442 3' -61.9 NC_003409.1 + 58546 0.66 0.640386
Target:  5'- uCCCCGAGGCGCAaaGcaucGUCUGCu- -3'
miRNA:   3'- uGGGGUUCCGCGUggCau--CGGGCGcu -5'
13442 3' -61.9 NC_003409.1 + 115806 0.66 0.640386
Target:  5'- gGCaCCCAAGGCGCugC--AGaCCCuucaguGCGAg -3'
miRNA:   3'- -UG-GGGUUCCGCGugGcaUC-GGG------CGCU- -5'
13442 3' -61.9 NC_003409.1 + 38611 0.66 0.640386
Target:  5'- --gCCAAGuuGCGCGCCGaGGCgCCGCa- -3'
miRNA:   3'- uggGGUUC--CGCGUGGCaUCG-GGCGcu -5'
13442 3' -61.9 NC_003409.1 + 24159 0.66 0.640386
Target:  5'- cACCCaGAGGCGagauuCCa-GGCCCGUGAc -3'
miRNA:   3'- -UGGGgUUCCGCgu---GGcaUCGGGCGCU- -5'
13442 3' -61.9 NC_003409.1 + 87891 0.66 0.630455
Target:  5'- gGCCUCAGGGCGCGuCUGgucuCCCG-GAg -3'
miRNA:   3'- -UGGGGUUCCGCGU-GGCauc-GGGCgCU- -5'
13442 3' -61.9 NC_003409.1 + 57893 0.66 0.630455
Target:  5'- aGCCCaAAGGCaaGCg--GGCCCGCGAc -3'
miRNA:   3'- -UGGGgUUCCGcgUGgcaUCGGGCGCU- -5'
13442 3' -61.9 NC_003409.1 + 49118 0.66 0.619532
Target:  5'- cACCCCAcuaggcaGGGC-CACCGUGGCguaucagguccuUCGCa- -3'
miRNA:   3'- -UGGGGU-------UCCGcGUGGCAUCG------------GGCGcu -5'
13442 3' -61.9 NC_003409.1 + 46436 0.66 0.610603
Target:  5'- aACCCguGGGCuucGCAgCGUGGCUCccucgGCGAc -3'
miRNA:   3'- -UGGGguUCCG---CGUgGCAUCGGG-----CGCU- -5'
13442 3' -61.9 NC_003409.1 + 24750 0.66 0.600696
Target:  5'- cCCCCuccggggagGGGGCGCGCCGgGGCUCcUGGg -3'
miRNA:   3'- uGGGG---------UUCCGCGUGGCaUCGGGcGCU- -5'
13442 3' -61.9 NC_003409.1 + 31969 0.66 0.599706
Target:  5'- cGCCCCAGGGCGCAUagugauaCGUguugaaacacgGGaCCGCu- -3'
miRNA:   3'- -UGGGGUUCCGCGUG-------GCA-----------UCgGGCGcu -5'
13442 3' -61.9 NC_003409.1 + 103267 0.66 0.590811
Target:  5'- gGCCaCCAgggAGGC-CACCGUAGCCa-UGAc -3'
miRNA:   3'- -UGG-GGU---UCCGcGUGGCAUCGGgcGCU- -5'
13442 3' -61.9 NC_003409.1 + 87594 0.66 0.590811
Target:  5'- uCCUCAGGGUGCugCG-AGUgaGCGGg -3'
miRNA:   3'- uGGGGUUCCGCGugGCaUCGggCGCU- -5'
13442 3' -61.9 NC_003409.1 + 113678 0.67 0.580955
Target:  5'- aGCUCCAcugaaAGGCGCccagaauccgcACCGUccuaccccccuGGCCCGCc- -3'
miRNA:   3'- -UGGGGU-----UCCGCG-----------UGGCA-----------UCGGGCGcu -5'
13442 3' -61.9 NC_003409.1 + 131414 0.67 0.580955
Target:  5'- uGCCCCAccucccCGCGCCGUGuGgCCGCGu -3'
miRNA:   3'- -UGGGGUucc---GCGUGGCAU-CgGGCGCu -5'
13442 3' -61.9 NC_003409.1 + 87744 0.67 0.571133
Target:  5'- cGCCCUGAGGC-CACCau--CCCGUGAc -3'
miRNA:   3'- -UGGGGUUCCGcGUGGcaucGGGCGCU- -5'
13442 3' -61.9 NC_003409.1 + 133139 0.67 0.561351
Target:  5'- uACCCgaCGAGGUGCGCacccaccuGCCUGCGGa -3'
miRNA:   3'- -UGGG--GUUCCGCGUGgcau----CGGGCGCU- -5'
13442 3' -61.9 NC_003409.1 + 67964 0.67 0.541933
Target:  5'- cGCCCCcu-GCGCGCCGcacccaCCGCGAu -3'
miRNA:   3'- -UGGGGuucCGCGUGGCaucg--GGCGCU- -5'
13442 3' -61.9 NC_003409.1 + 131670 0.67 0.532307
Target:  5'- cACaCCCAcuGgGCACCGuUGGCCC-CGAg -3'
miRNA:   3'- -UG-GGGUucCgCGUGGC-AUCGGGcGCU- -5'
13442 3' -61.9 NC_003409.1 + 22308 0.67 0.532307
Target:  5'- uGCCCCuAGcCGUugCGUaacGGCCCGUGu -3'
miRNA:   3'- -UGGGGuUCcGCGugGCA---UCGGGCGCu -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.