miRNA display CGI


Results 1 - 20 of 23 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
27671 3' -56.6 NC_005882.1 + 19859 0.66 0.535128
Target:  5'- -uCACGcCGGCGC-GCUCGCGcGUGGc -3'
miRNA:   3'- auGUGUcGCUGCGaCGAGCGC-UACCc -5'
27671 3' -56.6 NC_005882.1 + 12723 0.66 0.535128
Target:  5'- cGCGCGGCGGCGCUcGC-CgGCGAc--- -3'
miRNA:   3'- aUGUGUCGCUGCGA-CGaG-CGCUaccc -5'
27671 3' -56.6 NC_005882.1 + 19595 0.66 0.524252
Target:  5'- cGCGuCGGCGAgcUGCUGCUUGaGcUGGGu -3'
miRNA:   3'- aUGU-GUCGCU--GCGACGAGCgCuACCC- -5'
27671 3' -56.6 NC_005882.1 + 26564 0.66 0.524252
Target:  5'- gUGCGCcGCG-CGgaGCUgGCGAccgucgcgUGGGg -3'
miRNA:   3'- -AUGUGuCGCuGCgaCGAgCGCU--------ACCC- -5'
27671 3' -56.6 NC_005882.1 + 15818 0.66 0.513462
Target:  5'- gACGCuggAGCGGCGCcGC-CGCGAcuUGcGGu -3'
miRNA:   3'- aUGUG---UCGCUGCGaCGaGCGCU--AC-CC- -5'
27671 3' -56.6 NC_005882.1 + 27595 0.66 0.502764
Target:  5'- gGCAUGGCGACGCagGC-CGCGGc--- -3'
miRNA:   3'- aUGUGUCGCUGCGa-CGaGCGCUaccc -5'
27671 3' -56.6 NC_005882.1 + 12542 0.66 0.502764
Target:  5'- gGCgGCGGcCGGCGCUGCg-GCGAUcGGc -3'
miRNA:   3'- aUG-UGUC-GCUGCGACGagCGCUAcCC- -5'
27671 3' -56.6 NC_005882.1 + 12659 0.66 0.502764
Target:  5'- aUACGCAGaCGGCGCg---CGCGAUGc- -3'
miRNA:   3'- -AUGUGUC-GCUGCGacgaGCGCUACcc -5'
27671 3' -56.6 NC_005882.1 + 22415 0.66 0.502764
Target:  5'- --aGCAGCGuCGCUGUguacUCGUGGUcuucGGGc -3'
miRNA:   3'- augUGUCGCuGCGACG----AGCGCUA----CCC- -5'
27671 3' -56.6 NC_005882.1 + 27875 0.66 0.502764
Target:  5'- gUACGC-GCGGCGCUcGCgcuUCGCGAgcaGGu -3'
miRNA:   3'- -AUGUGuCGCUGCGA-CG---AGCGCUa--CCc -5'
27671 3' -56.6 NC_005882.1 + 33287 0.66 0.5017
Target:  5'- gGCGCuGGCGACGaCUGCauUCGUGAagcagucUGGa -3'
miRNA:   3'- aUGUG-UCGCUGC-GACG--AGCGCU-------ACCc -5'
27671 3' -56.6 NC_005882.1 + 29175 0.67 0.461013
Target:  5'- cUACGcCGGCGcgcCGUUGCUCGCG-UGcGGc -3'
miRNA:   3'- -AUGU-GUCGCu--GCGACGAGCGCuAC-CC- -5'
27671 3' -56.6 NC_005882.1 + 22519 0.67 0.450862
Target:  5'- -uCACGGCGAcCGC-GUUCGCGgcGGu -3'
miRNA:   3'- auGUGUCGCU-GCGaCGAGCGCuaCCc -5'
27671 3' -56.6 NC_005882.1 + 25582 0.67 0.440834
Target:  5'- cGCGCGGCGccGCGCUGCgugagcaaCGCcagGGGc -3'
miRNA:   3'- aUGUGUCGC--UGCGACGa-------GCGcuaCCC- -5'
27671 3' -56.6 NC_005882.1 + 7995 0.67 0.430935
Target:  5'- gUACAUGGCgcucGACGUUGC-CGCGAUGc- -3'
miRNA:   3'- -AUGUGUCG----CUGCGACGaGCGCUACcc -5'
27671 3' -56.6 NC_005882.1 + 7871 0.68 0.391754
Target:  5'- cACGCGguaugucGCGACGCuUGag-GCGAUGGGg -3'
miRNA:   3'- aUGUGU-------CGCUGCG-ACgagCGCUACCC- -5'
27671 3' -56.6 NC_005882.1 + 29325 0.68 0.38347
Target:  5'- cACGCuGGCGACGaucgcgGCUCGCG-UGGc -3'
miRNA:   3'- aUGUG-UCGCUGCga----CGAGCGCuACCc -5'
27671 3' -56.6 NC_005882.1 + 1782 0.69 0.360198
Target:  5'- gACACGGUGACGCUGacgggauucggcguaUUCaGCG-UGGGc -3'
miRNA:   3'- aUGUGUCGCUGCGAC---------------GAG-CGCuACCC- -5'
27671 3' -56.6 NC_005882.1 + 10110 0.69 0.339606
Target:  5'- gAUugGGCGGCGCUuggUGCGGUGGa -3'
miRNA:   3'- aUGugUCGCUGCGAcgaGCGCUACCc -5'
27671 3' -56.6 NC_005882.1 + 26343 0.69 0.334594
Target:  5'- cGCGCGGCGACGC-GUUCaugaagcaguggaaaGCGgcGGGc -3'
miRNA:   3'- aUGUGUCGCUGCGaCGAG---------------CGCuaCCC- -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.