miRNA display CGI


Results 1 - 20 of 32 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
13292 5' -58.2 NC_003409.1 + 71125 0.65 0.791848
Target:  5'- -aGCCAGCGuaUGCuucaggaccaccAGGGaCGCUAAGAa -3'
miRNA:   3'- agCGGUCGU--ACGu-----------UCCCgGCGGUUCU- -5'
13292 5' -58.2 NC_003409.1 + 39548 0.66 0.784491
Target:  5'- gCGCCgcauGGCuagGUGCAGGGGUgGUCGAa- -3'
miRNA:   3'- aGCGG----UCG---UACGUUCCCGgCGGUUcu -5'
13292 5' -58.2 NC_003409.1 + 111997 0.66 0.784491
Target:  5'- gUGCCGG-AUGC-AGGGCCugGCCucGAa -3'
miRNA:   3'- aGCGGUCgUACGuUCCCGG--CGGuuCU- -5'
13292 5' -58.2 NC_003409.1 + 75668 0.66 0.784491
Target:  5'- gUGCCAGCA-GCcAGcGUCGCCAacGGAc -3'
miRNA:   3'- aGCGGUCGUaCGuUCcCGGCGGU--UCU- -5'
13292 5' -58.2 NC_003409.1 + 12013 0.66 0.784491
Target:  5'- -aGCCAGCcUG-GAGGGCCuGCUggAGGAc -3'
miRNA:   3'- agCGGUCGuACgUUCCCGG-CGG--UUCU- -5'
13292 5' -58.2 NC_003409.1 + 77091 0.66 0.765721
Target:  5'- cCGCUAcuguGgGUGCAcugagugcGGcGGCCGCUAAGAa -3'
miRNA:   3'- aGCGGU----CgUACGU--------UC-CCGGCGGUUCU- -5'
13292 5' -58.2 NC_003409.1 + 131819 0.66 0.765721
Target:  5'- -gGCCGGC-UGCAGGGGaCUGCa---- -3'
miRNA:   3'- agCGGUCGuACGUUCCC-GGCGguucu -5'
13292 5' -58.2 NC_003409.1 + 114396 0.66 0.756152
Target:  5'- gCGaCAGCggGguGGGGCUGgCAAGGc -3'
miRNA:   3'- aGCgGUCGuaCguUCCCGGCgGUUCU- -5'
13292 5' -58.2 NC_003409.1 + 95232 0.67 0.715862
Target:  5'- cCGCUAGCcaccgcaacggcgGUGUAucAGGcGCCGCCAAu- -3'
miRNA:   3'- aGCGGUCG-------------UACGU--UCC-CGGCGGUUcu -5'
13292 5' -58.2 NC_003409.1 + 118463 0.67 0.710852
Target:  5'- gCGCCggguuccuggggugcGGgGUGCGGGGGaccgCGCCGGGGu -3'
miRNA:   3'- aGCGG---------------UCgUACGUUCCCg---GCGGUUCU- -5'
13292 5' -58.2 NC_003409.1 + 43097 0.67 0.706832
Target:  5'- aCGCaAGCGgcgGCGAGGGCgGUCuccAGAa -3'
miRNA:   3'- aGCGgUCGUa--CGUUCCCGgCGGu--UCU- -5'
13292 5' -58.2 NC_003409.1 + 16632 0.67 0.706832
Target:  5'- aCGCUGGCcccGCGc-GGCCGCCAGGu -3'
miRNA:   3'- aGCGGUCGua-CGUucCCGGCGGUUCu -5'
13292 5' -58.2 NC_003409.1 + 19367 0.67 0.706832
Target:  5'- -aGCCgaggcaauAGCGUcauuucgcGCAAGGGUCGCCAGa- -3'
miRNA:   3'- agCGG--------UCGUA--------CGUUCCCGGCGGUUcu -5'
13292 5' -58.2 NC_003409.1 + 94671 0.68 0.676398
Target:  5'- cUCGUgAGCAUGCu--GGCCGCaauGGGg -3'
miRNA:   3'- -AGCGgUCGUACGuucCCGGCGgu-UCU- -5'
13292 5' -58.2 NC_003409.1 + 133036 0.68 0.676398
Target:  5'- gCGCCAGCGccUGCAGGuGCCucaccaccgggGCCGGGu -3'
miRNA:   3'- aGCGGUCGU--ACGUUCcCGG-----------CGGUUCu -5'
13292 5' -58.2 NC_003409.1 + 111850 0.68 0.635345
Target:  5'- gCGUCGGCcaccGCGGGGGCgGCCGu-- -3'
miRNA:   3'- aGCGGUCGua--CGUUCCCGgCGGUucu -5'
13292 5' -58.2 NC_003409.1 + 43641 0.68 0.625055
Target:  5'- aCGCCAGCuacguUGUcAGGGgUGCCAAc- -3'
miRNA:   3'- aGCGGUCGu----ACGuUCCCgGCGGUUcu -5'
13292 5' -58.2 NC_003409.1 + 113095 0.68 0.625055
Target:  5'- gCGaCgGGUGUGCGAGGGCaccuCCAGGAg -3'
miRNA:   3'- aGC-GgUCGUACGUUCCCGgc--GGUUCU- -5'
13292 5' -58.2 NC_003409.1 + 70207 0.69 0.61477
Target:  5'- aUGCCGGgGUGCGcgGGGGUC-CCGAGu -3'
miRNA:   3'- aGCGGUCgUACGU--UCCCGGcGGUUCu -5'
13292 5' -58.2 NC_003409.1 + 133702 0.69 0.61477
Target:  5'- cCGCCAGCGguaGCAGGucuGCCcCCAGGGa -3'
miRNA:   3'- aGCGGUCGUa--CGUUCc--CGGcGGUUCU- -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.