miRNA display CGI


Results 1 - 20 of 31 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
12354 3' -58.3 NC_003324.1 + 54391 0.73 0.236845
Target:  5'- aCGAUCUaucaGGCGAaCGGCAACUCcCCGg -3'
miRNA:   3'- -GCUAGA----CCGCUaGCCGUUGGGcGGCa -5'
12354 3' -58.3 NC_003324.1 + 30725 0.66 0.590074
Target:  5'- --uUCuUGGCG-UCGGCcGCCUGCUGc -3'
miRNA:   3'- gcuAG-ACCGCuAGCCGuUGGGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 502 0.66 0.558329
Target:  5'- aGGUgaUGGCGAucaccaaggUCGGCAGCUCGaCCa- -3'
miRNA:   3'- gCUAg-ACCGCU---------AGCCGUUGGGC-GGca -5'
12354 3' -58.3 NC_003324.1 + 20505 0.66 0.54785
Target:  5'- gCGAUUgaGCGAg-GGCGuGCCCGCCGa -3'
miRNA:   3'- -GCUAGacCGCUagCCGU-UGGGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 41818 0.67 0.516814
Target:  5'- aGAgcaaUGGCGAUCGGCugcACCCaaaucgGCUGa -3'
miRNA:   3'- gCUag--ACCGCUAGCCGu--UGGG------CGGCa -5'
12354 3' -58.3 NC_003324.1 + 5460 0.67 0.506624
Target:  5'- gGGUCaGGCaggCGGCGucGCCCGCCc- -3'
miRNA:   3'- gCUAGaCCGcuaGCCGU--UGGGCGGca -5'
12354 3' -58.3 NC_003324.1 + 5937 0.67 0.495514
Target:  5'- uCGcugCUGGCuAUCaGGCAgcgaacuACCCGCCGa -3'
miRNA:   3'- -GCua-GACCGcUAG-CCGU-------UGGGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 13625 0.67 0.486508
Target:  5'- aCGcgCaGGCGAUCGGCA-UCCGauCCGa -3'
miRNA:   3'- -GCuaGaCCGCUAGCCGUuGGGC--GGCa -5'
12354 3' -58.3 NC_003324.1 + 44683 0.67 0.486508
Target:  5'- uCGAUCgUGGUG-UUGGCAGCCuCGaCGUg -3'
miRNA:   3'- -GCUAG-ACCGCuAGCCGUUGG-GCgGCA- -5'
12354 3' -58.3 NC_003324.1 + 49408 0.69 0.40123
Target:  5'- uCGAUC--GCGAUCGGCgAGCCCGgCa- -3'
miRNA:   3'- -GCUAGacCGCUAGCCG-UUGGGCgGca -5'
12354 3' -58.3 NC_003324.1 + 22592 0.7 0.358147
Target:  5'- aGAUC-GGCGGccuuUUGGCuGCCUGCCGc -3'
miRNA:   3'- gCUAGaCCGCU----AGCCGuUGGGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 28586 0.71 0.31841
Target:  5'- cCGuUUUGGCGGUucgCGGCuuccGCCCGCUGUc -3'
miRNA:   3'- -GCuAGACCGCUA---GCCGu---UGGGCGGCA- -5'
12354 3' -58.3 NC_003324.1 + 13002 0.71 0.310125
Target:  5'- gCGG-CUGGCGAUCuGCAgggcggcaucaacGCCCGCCc- -3'
miRNA:   3'- -GCUaGACCGCUAGcCGU-------------UGGGCGGca -5'
12354 3' -58.3 NC_003324.1 + 49229 0.67 0.520914
Target:  5'- uCGG--UGGCGAcguugaucaccucaaUCGaGCGGCCCGCCa- -3'
miRNA:   3'- -GCUagACCGCU---------------AGC-CGUUGGGCGGca -5'
12354 3' -58.3 NC_003324.1 + 713 0.67 0.537434
Target:  5'- aCGcgCUGGUGAaUGGCaAGCCCaGCUGc -3'
miRNA:   3'- -GCuaGACCGCUaGCCG-UUGGG-CGGCa -5'
12354 3' -58.3 NC_003324.1 + 50702 0.66 0.54785
Target:  5'- uCGAUCUGaucguugaCGAUCuGCAGCUCGUCGa -3'
miRNA:   3'- -GCUAGACc-------GCUAGcCGUUGGGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 17649 0.66 0.568865
Target:  5'- uCGAUCUGucgucGCGcAUCGGCAugCCGgaccuuugguuCCGa -3'
miRNA:   3'- -GCUAGAC-----CGC-UAGCCGUugGGC-----------GGCa -5'
12354 3' -58.3 NC_003324.1 + 17344 0.66 0.579449
Target:  5'- uGGUCgcacaGGCGcUCGGCuucacGCCUGCgCGUa -3'
miRNA:   3'- gCUAGa----CCGCuAGCCGu----UGGGCG-GCA- -5'
12354 3' -58.3 NC_003324.1 + 13156 0.66 0.600732
Target:  5'- gCGGUC-GGCGG-CGGCGguACCgGCUGc -3'
miRNA:   3'- -GCUAGaCCGCUaGCCGU--UGGgCGGCa -5'
12354 3' -58.3 NC_003324.1 + 25115 1.06 0.000898
Target:  5'- uCGAUCUGGCGAUCGGCAACCCGCCGUu -3'
miRNA:   3'- -GCUAGACCGCUAGCCGUUGGGCGGCA- -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.