miRNA display CGI


Results 1 - 20 of 26 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
13293 3' -56.2 NC_003409.1 + 113869 0.66 0.896739
Target:  5'- uUGGGCggGC-CAGGgGgGuaggacGGUGCGGa -3'
miRNA:   3'- -ACCCGuaCGuGUCUgCgCu-----CUACGCC- -5'
13293 3' -56.2 NC_003409.1 + 27214 0.66 0.896739
Target:  5'- uUGGGCAcGCugGgGACGUGGGAUa--- -3'
miRNA:   3'- -ACCCGUaCGugU-CUGCGCUCUAcgcc -5'
13293 3' -56.2 NC_003409.1 + 45496 0.66 0.888017
Target:  5'- uUGGuGCGUuCGCGGugGCGgaccgcucucgcgaGGcgGCGGa -3'
miRNA:   3'- -ACC-CGUAcGUGUCugCGC--------------UCuaCGCC- -5'
13293 3' -56.2 NC_003409.1 + 117156 0.66 0.883161
Target:  5'- uUGcGGCGcuagacUGCACcGA--CGAGAUGCGGg -3'
miRNA:   3'- -AC-CCGU------ACGUGuCUgcGCUCUACGCC- -5'
13293 3' -56.2 NC_003409.1 + 45917 0.66 0.868683
Target:  5'- gUGGGCuUGCcuucggugguACGG-CGCGAGGUacguucggacGCGGu -3'
miRNA:   3'- -ACCCGuACG----------UGUCuGCGCUCUA----------CGCC- -5'
13293 3' -56.2 NC_003409.1 + 93157 0.66 0.867936
Target:  5'- aUGGGCccUGCACcuggcucguggagGGACGCGGGGaaucCGGa -3'
miRNA:   3'- -ACCCGu-ACGUG-------------UCUGCGCUCUac--GCC- -5'
13293 3' -56.2 NC_003409.1 + 21629 0.66 0.861119
Target:  5'- -cGGCuugcUGCACAGuuGgGAGGUGgGGu -3'
miRNA:   3'- acCCGu---ACGUGUCugCgCUCUACgCC- -5'
13293 3' -56.2 NC_003409.1 + 132801 0.66 0.861119
Target:  5'- -uGGCAcgcGCACAGGCGCGcGgcGCGc -3'
miRNA:   3'- acCCGUa--CGUGUCUGCGCuCuaCGCc -5'
13293 3' -56.2 NC_003409.1 + 6397 0.67 0.837199
Target:  5'- cGGGgGUGcCAUGGACGgcCGAGgGUGUGGc -3'
miRNA:   3'- aCCCgUAC-GUGUCUGC--GCUC-UACGCC- -5'
13293 3' -56.2 NC_003409.1 + 121963 0.67 0.828839
Target:  5'- aGGGUgcgGUGCugcccaGGACgGCcGGAUGCGGg -3'
miRNA:   3'- aCCCG---UACGug----UCUG-CGcUCUACGCC- -5'
13293 3' -56.2 NC_003409.1 + 16631 0.67 0.826295
Target:  5'- cGGGCGuuuccUGCGCAGGCGCaGucaccgauauccgcAGGUGUGu -3'
miRNA:   3'- aCCCGU-----ACGUGUCUGCG-C--------------UCUACGCc -5'
13293 3' -56.2 NC_003409.1 + 25145 0.68 0.802707
Target:  5'- gGGGUuauAUGCGCGugcuUGCGAcgGAUGCGGu -3'
miRNA:   3'- aCCCG---UACGUGUcu--GCGCU--CUACGCC- -5'
13293 3' -56.2 NC_003409.1 + 86988 0.68 0.802707
Target:  5'- gGGGCGUGgaugcUACAGugGU-AGAUGgGGu -3'
miRNA:   3'- aCCCGUAC-----GUGUCugCGcUCUACgCC- -5'
13293 3' -56.2 NC_003409.1 + 20723 0.68 0.784491
Target:  5'- gGGGCGgcGUACguGGACGCG-GAUGCu- -3'
miRNA:   3'- aCCCGUa-CGUG--UCUGCGCuCUACGcc -5'
13293 3' -56.2 NC_003409.1 + 75495 0.68 0.765721
Target:  5'- gUGGGCuGUGCugGGcguugaacGCGCGGGGaGgGGg -3'
miRNA:   3'- -ACCCG-UACGugUC--------UGCGCUCUaCgCC- -5'
13293 3' -56.2 NC_003409.1 + 88690 0.69 0.756152
Target:  5'- -cGGCAgGCAgGGGCGCGGGGgcUGCa- -3'
miRNA:   3'- acCCGUaCGUgUCUGCGCUCU--ACGcc -5'
13293 3' -56.2 NC_003409.1 + 112799 0.69 0.736691
Target:  5'- aGGGCc-GCGCGGgccACGCGAGAacagaUGaCGGg -3'
miRNA:   3'- aCCCGuaCGUGUC---UGCGCUCU-----AC-GCC- -5'
13293 3' -56.2 NC_003409.1 + 111253 0.69 0.716861
Target:  5'- -uGGCGUGUGgGGGCGUG-GAUGgGGg -3'
miRNA:   3'- acCCGUACGUgUCUGCGCuCUACgCC- -5'
13293 3' -56.2 NC_003409.1 + 51803 0.69 0.706832
Target:  5'- aGGGCAggaaaUGCGCAGuAC-CGAGAUGUcaaauGGa -3'
miRNA:   3'- aCCCGU-----ACGUGUC-UGcGCUCUACG-----CC- -5'
13293 3' -56.2 NC_003409.1 + 39157 0.7 0.686592
Target:  5'- gGGGCAUGUAUagaAGACGCGcAGccaGUGCu- -3'
miRNA:   3'- aCCCGUACGUG---UCUGCGC-UC---UACGcc -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.