miRNA display CGI


Results 1 - 20 of 43 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
31857 3' -55.2 NC_006938.1 + 33539 1.08 0.001793
Target:  5'- cCACGUCGGCGACGAGACCAGAUACCGc -3'
miRNA:   3'- -GUGCAGCCGCUGCUCUGGUCUAUGGC- -5'
31857 3' -55.2 NC_006938.1 + 9346 0.78 0.19537
Target:  5'- uCACGuUCGGCGGCGAGACCuaucGGUccaucaacGCCGa -3'
miRNA:   3'- -GUGC-AGCCGCUGCUCUGGu---CUA--------UGGC- -5'
31857 3' -55.2 NC_006938.1 + 41744 0.76 0.265655
Target:  5'- aCGCGUCcaGGCGAagacUGAGACCAGAgACCu -3'
miRNA:   3'- -GUGCAG--CCGCU----GCUCUGGUCUaUGGc -5'
31857 3' -55.2 NC_006938.1 + 19935 0.75 0.28616
Target:  5'- -cCGUCGGCGugGAGGacuCCAGGgagGCCu -3'
miRNA:   3'- guGCAGCCGCugCUCU---GGUCUa--UGGc -5'
31857 3' -55.2 NC_006938.1 + 55847 0.75 0.315412
Target:  5'- cUACGaCGGCGGgGAgGACCAGcUGCCGg -3'
miRNA:   3'- -GUGCaGCCGCUgCU-CUGGUCuAUGGC- -5'
31857 3' -55.2 NC_006938.1 + 40506 0.74 0.346865
Target:  5'- gGCGUCGGUGAucuggccucgcuUGAGAUCcuuGAUGCCGg -3'
miRNA:   3'- gUGCAGCCGCU------------GCUCUGGu--CUAUGGC- -5'
31857 3' -55.2 NC_006938.1 + 6781 0.73 0.416248
Target:  5'- aCAUGgucgcUGGCGGCGAGGCCAag-GCCGa -3'
miRNA:   3'- -GUGCa----GCCGCUGCUCUGGUcuaUGGC- -5'
31857 3' -55.2 NC_006938.1 + 27576 0.7 0.544937
Target:  5'- ----aCGGUGACgGAGACCGGGUAuCCGc -3'
miRNA:   3'- gugcaGCCGCUG-CUCUGGUCUAU-GGC- -5'
31857 3' -55.2 NC_006938.1 + 53103 0.7 0.544937
Target:  5'- uGCG-CGGCGAgCGAGcuGCCAagcguuauGAUGCCGg -3'
miRNA:   3'- gUGCaGCCGCU-GCUC--UGGU--------CUAUGGC- -5'
31857 3' -55.2 NC_006938.1 + 57382 0.7 0.555449
Target:  5'- gAgGUCGGUGACGAGAgCgAGGUcauuCCGg -3'
miRNA:   3'- gUgCAGCCGCUGCUCU-GgUCUAu---GGC- -5'
31857 3' -55.2 NC_006938.1 + 25420 0.7 0.566018
Target:  5'- cCACGgcuacaUCGGCGACGAG-CCGG-UGCaCGu -3'
miRNA:   3'- -GUGC------AGCCGCUGCUCuGGUCuAUG-GC- -5'
31857 3' -55.2 NC_006938.1 + 23858 0.7 0.566018
Target:  5'- aCACGagaaCGGCGACGAGGCaCAG-UGCa- -3'
miRNA:   3'- -GUGCa---GCCGCUGCUCUG-GUCuAUGgc -5'
31857 3' -55.2 NC_006938.1 + 23687 0.69 0.587304
Target:  5'- gACGUCGGCcagGGCGGcauGGCCgAGAUGCuCGa -3'
miRNA:   3'- gUGCAGCCG---CUGCU---CUGG-UCUAUG-GC- -5'
31857 3' -55.2 NC_006938.1 + 36379 0.69 0.587304
Target:  5'- gCAgGUCGGCccGACGAGucgguGCCuuGAUGCCa -3'
miRNA:   3'- -GUgCAGCCG--CUGCUC-----UGGu-CUAUGGc -5'
31857 3' -55.2 NC_006938.1 + 58471 0.69 0.608732
Target:  5'- -uUGUCGGCcuGGCcaGGGACCuGAUGCCa -3'
miRNA:   3'- guGCAGCCG--CUG--CUCUGGuCUAUGGc -5'
31857 3' -55.2 NC_006938.1 + 34947 0.69 0.61948
Target:  5'- aACGUCGGCGcuccgaucuccuACGAGACCAu---CCa -3'
miRNA:   3'- gUGCAGCCGC------------UGCUCUGGUcuauGGc -5'
31857 3' -55.2 NC_006938.1 + 12732 0.69 0.630238
Target:  5'- gAUGUCGGCGACGucacuCCAGucaGCCu -3'
miRNA:   3'- gUGCAGCCGCUGCucu--GGUCua-UGGc -5'
31857 3' -55.2 NC_006938.1 + 52587 0.68 0.65175
Target:  5'- gACGUgGaGCGugGAGcCCAGGgugGCCc -3'
miRNA:   3'- gUGCAgC-CGCugCUCuGGUCUa--UGGc -5'
31857 3' -55.2 NC_006938.1 + 48584 0.68 0.65175
Target:  5'- aCGCGaagagUGGCGAUGGGgccGCCAGGUuuGCCa -3'
miRNA:   3'- -GUGCa----GCCGCUGCUC---UGGUCUA--UGGc -5'
31857 3' -55.2 NC_006938.1 + 10156 0.68 0.661413
Target:  5'- cCGCGuguUCGGCGuCGAgggaaagaccucgGACCAGGUcacgGCCGa -3'
miRNA:   3'- -GUGC---AGCCGCuGCU-------------CUGGUCUA----UGGC- -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.