miRNA display CGI


Results 1 - 20 of 40 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
13112 3' -53.2 NC_003401.1 + 116091 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115548 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115612 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115676 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115771 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115835 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115899 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115963 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 116027 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115484 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115420 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115356 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 27665 0.69 0.881747
Target:  5'- gGCGGGggcUGGAGuugcCGGCUgcGUGGCGAGa- -3'
miRNA:   3'- gUGCCC---AUCUU----GCCGA--UACCGCUUgc -5'
13112 3' -53.2 NC_003401.1 + 23633 0.68 0.908574
Target:  5'- aCACGGGcgccgcGAGCGGCcggcagGUGGCGccGCGc -3'
miRNA:   3'- -GUGCCCau----CUUGCCGa-----UACCGCu-UGC- -5'
13112 3' -53.2 NC_003401.1 + 108835 0.68 0.920523
Target:  5'- aACGGGcAGAuccaacGCGuGCUGUGGCaAACa -3'
miRNA:   3'- gUGCCCaUCU------UGC-CGAUACCGcUUGc -5'
13112 3' -53.2 NC_003401.1 + 117806 0.67 0.941427
Target:  5'- cCAUGGGUGcGAugGGCaccGGCGGcaACa -3'
miRNA:   3'- -GUGCCCAU-CUugCCGauaCCGCU--UGc -5'
13112 3' -53.2 NC_003401.1 + 21 0.67 0.946032
Target:  5'- aGCGGGggacagGGGACGGC-GUGuGCGuGCu -3'
miRNA:   3'- gUGCCCa-----UCUUGCCGaUAC-CGCuUGc -5'
13112 3' -53.2 NC_003401.1 + 129060 0.67 0.946032
Target:  5'- --aGGGUGGGAgGGgaauguuagGUGGCGAACc -3'
miRNA:   3'- gugCCCAUCUUgCCga-------UACCGCUUGc -5'
13112 3' -53.2 NC_003401.1 + 132756 0.67 0.946032
Target:  5'- aGCGGGggacagGGGACGGC-GUGuGCGuGCu -3'
miRNA:   3'- gUGCCCa-----UCUUGCCGaUAC-CGCuUGc -5'
13112 3' -53.2 NC_003401.1 + 115292 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -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.