miRNA display CGI


Results 1 - 20 of 41 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
27236 3' -56.2 NC_005832.1 + 97144 0.66 0.787953
Target:  5'- -aAGGCUgcGGCagaCGCCGUGGcAAAGa -3'
miRNA:   3'- ugUCCGAguCCGg--GUGGCACCuUUUC- -5'
27236 3' -56.2 NC_005832.1 + 24795 0.67 0.728986
Target:  5'- --cGGC-CAGGUCCACCGUGa----- -3'
miRNA:   3'- uguCCGaGUCCGGGUGGCACcuuuuc -5'
27236 3' -56.2 NC_005832.1 + 55832 0.67 0.739096
Target:  5'- aGCcGG-UCAGGgCCGCCGUGGugguGGGg -3'
miRNA:   3'- -UGuCCgAGUCCgGGUGGCACCuu--UUC- -5'
27236 3' -56.2 NC_005832.1 + 104857 0.67 0.753081
Target:  5'- -aGGGUUCAGGuagagugucccaaaaCCC-CCGUGGAGuGGa -3'
miRNA:   3'- ugUCCGAGUCC---------------GGGuGGCACCUUuUC- -5'
27236 3' -56.2 NC_005832.1 + 53985 0.67 0.758023
Target:  5'- --cGGCaagaccuUCAuGGCCCuggaGCUGUGGAGGAGg -3'
miRNA:   3'- uguCCG-------AGU-CCGGG----UGGCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 2041 0.67 0.768789
Target:  5'- -uGGGgUCu-GCCCuccucACCGUGGAGAGGg -3'
miRNA:   3'- ugUCCgAGucCGGG-----UGGCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 29243 0.67 0.768789
Target:  5'- gACGGGUUCGGcGCCCGgCC-UGGGGu-- -3'
miRNA:   3'- -UGUCCGAGUC-CGGGU-GGcACCUUuuc -5'
27236 3' -56.2 NC_005832.1 + 17045 0.66 0.787953
Target:  5'- gGCAgGGC-CAGG-CCGCUGUcucuGGAGAAGa -3'
miRNA:   3'- -UGU-CCGaGUCCgGGUGGCA----CCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 22905 0.66 0.787953
Target:  5'- -aGGGCcauuuuaaacagUUGGGCCCAUC-UGGAAAAGu -3'
miRNA:   3'- ugUCCG------------AGUCCGGGUGGcACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 97201 0.67 0.72797
Target:  5'- gACAGGCUCcuggagcAGGCCUcgGCCGUGu----- -3'
miRNA:   3'- -UGUCCGAG-------UCCGGG--UGGCACcuuuuc -5'
27236 3' -56.2 NC_005832.1 + 80277 0.68 0.70851
Target:  5'- cCAGGaCUCuAGGCCCGuguaCGUGGAc--- -3'
miRNA:   3'- uGUCC-GAG-UCCGGGUg---GCACCUuuuc -5'
27236 3' -56.2 NC_005832.1 + 9022 0.68 0.687758
Target:  5'- uGCAGGCcuccuugcuggUCAGGUCagaggACuCGUGGAGGGGa -3'
miRNA:   3'- -UGUCCG-----------AGUCCGGg----UG-GCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 42498 0.78 0.218914
Target:  5'- aGCAGGCcgaagacgccgaUCGGGCCU-CUGUGGAAGAGg -3'
miRNA:   3'- -UGUCCG------------AGUCCGGGuGGCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 28052 0.71 0.510589
Target:  5'- --uGGCUCAGGCCCugUccagggugGUGGGGAc- -3'
miRNA:   3'- uguCCGAGUCCGGGugG--------CACCUUUuc -5'
27236 3' -56.2 NC_005832.1 + 85344 0.71 0.520667
Target:  5'- uCA-GCUCAGaGUCCACCuUGGAAAAGa -3'
miRNA:   3'- uGUcCGAGUC-CGGGUGGcACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 27032 0.7 0.582536
Target:  5'- cACGucCUCAGGCCCGcgaaacguCCGUGGGAGAa -3'
miRNA:   3'- -UGUccGAGUCCGGGU--------GGCACCUUUUc -5'
27236 3' -56.2 NC_005832.1 + 65581 0.7 0.582536
Target:  5'- gGCAGGaC-CcuGCCCGCCG-GGggGAGa -3'
miRNA:   3'- -UGUCC-GaGucCGGGUGGCaCCuuUUC- -5'
27236 3' -56.2 NC_005832.1 + 104962 0.69 0.614075
Target:  5'- -aAGGCUCAGGCCU-CCGaggUGGAc--- -3'
miRNA:   3'- ugUCCGAGUCCGGGuGGC---ACCUuuuc -5'
27236 3' -56.2 NC_005832.1 + 37946 0.69 0.624627
Target:  5'- cCAGGCgugccaGGGCcguaccccaucgCCACCGUGGGAGGa -3'
miRNA:   3'- uGUCCGag----UCCG------------GGUGGCACCUUUUc -5'
27236 3' -56.2 NC_005832.1 + 6648 0.69 0.66681
Target:  5'- -gGGGCUCcuGGGCCagcaguaCGUGGGAGGGu -3'
miRNA:   3'- ugUCCGAG--UCCGGgug----GCACCUUUUC- -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.