miRNA display CGI


Results 1 - 18 of 18 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
12465 5' -51.5 NC_003324.1 + 30915 0.66 0.91577
Target:  5'- aUCCGACcacGCCggauuuCAGGAGCGUCc -3'
miRNA:   3'- cAGGCUG---UGGaagcu-GUCCUUGUAGu -5'
12465 5' -51.5 NC_003324.1 + 49552 0.66 0.913842
Target:  5'- -aCCGGCACCUuggcauaguccucgUCGGCAGaGGugAUa- -3'
miRNA:   3'- caGGCUGUGGA--------------AGCUGUC-CUugUAgu -5'
12465 5' -51.5 NC_003324.1 + 44084 0.66 0.913842
Target:  5'- uGUCCugcuugcgcagcgaGAuCACCUUCcGCAGGAucuugGCAUCGa -3'
miRNA:   3'- -CAGG--------------CU-GUGGAAGcUGUCCU-----UGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 51197 0.66 0.909244
Target:  5'- aGUCCGGC-CCUcucgggUGACgAGGuACAUCGg -3'
miRNA:   3'- -CAGGCUGuGGAa-----GCUG-UCCuUGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 43859 0.66 0.902432
Target:  5'- -cCCGGCACCcugcucgaucugUUCGACcuGGAGCAg-- -3'
miRNA:   3'- caGGCUGUGG------------AAGCUGu-CCUUGUagu -5'
12465 5' -51.5 NC_003324.1 + 49285 0.66 0.902432
Target:  5'- cGUUCGG-AUCgUCGGCAGGAAgAUCGa -3'
miRNA:   3'- -CAGGCUgUGGaAGCUGUCCUUgUAGU- -5'
12465 5' -51.5 NC_003324.1 + 37562 0.66 0.902432
Target:  5'- cUCUGugACCUUgccCGugAGG-GCGUCGa -3'
miRNA:   3'- cAGGCugUGGAA---GCugUCCuUGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 34818 0.66 0.895338
Target:  5'- cUCCGcCACCgUCGuCAaGAACAUCGc -3'
miRNA:   3'- cAGGCuGUGGaAGCuGUcCUUGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 5451 0.66 0.887965
Target:  5'- -aUCGACGCUgggUCaGGCAGGcGGCGUCGc -3'
miRNA:   3'- caGGCUGUGGa--AG-CUGUCC-UUGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 21584 0.66 0.887965
Target:  5'- cGUCCGAC-CUUgagcaacgCGACGGGcgcGGCAUCc -3'
miRNA:   3'- -CAGGCUGuGGAa-------GCUGUCC---UUGUAGu -5'
12465 5' -51.5 NC_003324.1 + 18075 0.67 0.872405
Target:  5'- uUCC-ACACC-UCGGCGcgguGGAACAUCc -3'
miRNA:   3'- cAGGcUGUGGaAGCUGU----CCUUGUAGu -5'
12465 5' -51.5 NC_003324.1 + 33061 0.67 0.864231
Target:  5'- gGUUCGGCAUUggCGACGGcGAGCAgaugCAg -3'
miRNA:   3'- -CAGGCUGUGGaaGCUGUC-CUUGUa---GU- -5'
12465 5' -51.5 NC_003324.1 + 31309 0.67 0.855803
Target:  5'- --gCGGCGCUggcgcUGGCGGGGGCAUCGu -3'
miRNA:   3'- cagGCUGUGGaa---GCUGUCCUUGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 2611 0.69 0.770086
Target:  5'- cGUCCGuCGCCUguUCGuCGGuGGCGUCAc -3'
miRNA:   3'- -CAGGCuGUGGA--AGCuGUCcUUGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 54132 0.69 0.76905
Target:  5'- -gUUGGCGCCUgcgcauuggcUCGACGGGAgcuggccGCGUCAu -3'
miRNA:   3'- caGGCUGUGGA----------AGCUGUCCU-------UGUAGU- -5'
12465 5' -51.5 NC_003324.1 + 30898 0.69 0.759663
Target:  5'- cGUCCGACGCCaUCGACcguugggcacuGGGcgaGACGUUc -3'
miRNA:   3'- -CAGGCUGUGGaAGCUG-----------UCC---UUGUAGu -5'
12465 5' -51.5 NC_003324.1 + 36727 0.69 0.738419
Target:  5'- cUCCGgcgGCACCUUCGcCGGGGAaAUCu -3'
miRNA:   3'- cAGGC---UGUGGAAGCuGUCCUUgUAGu -5'
12465 5' -51.5 NC_003324.1 + 40165 1.09 0.002592
Target:  5'- uGUCCGACACCUUCGACAGGAACAUCAg -3'
miRNA:   3'- -CAGGCUGUGGAAGCUGUCCUUGUAGU- -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.