miRNA display CGI


Results 1 - 15 of 15 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
30468 3' -57.5 NC_006548.1 + 7994 0.66 0.477167
Target:  5'- -cGGAUGAUGCagGCGGCgcucaaauaccuguCUCCUGCAc -3'
miRNA:   3'- ucCUUGCUAUGg-CGCCG--------------GAGGACGUc -5'
30468 3' -57.5 NC_006548.1 + 14287 0.66 0.469988
Target:  5'- -uGGACGAgcugAUCGCGGa--CCUGCAGg -3'
miRNA:   3'- ucCUUGCUa---UGGCGCCggaGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 28108 0.67 0.43987
Target:  5'- gAGGc-UGG-ACCauaGGCCUCCUGCAGg -3'
miRNA:   3'- -UCCuuGCUaUGGcg-CCGGAGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 27040 0.67 0.430077
Target:  5'- cAGGGccAUGGUG--GCGGCCUCgCUGCAa -3'
miRNA:   3'- -UCCU--UGCUAUggCGCCGGAG-GACGUc -5'
30468 3' -57.5 NC_006548.1 + 22942 0.67 0.414678
Target:  5'- cGGGGugGAcugGCCGcCGGCCucaaggaccgcuucaUCgUGCAGc -3'
miRNA:   3'- -UCCUugCUa--UGGC-GCCGG---------------AGgACGUC- -5'
30468 3' -57.5 NC_006548.1 + 3450 0.68 0.392228
Target:  5'- gAGGAGCagcGCCGUGGCCUUCacCAGg -3'
miRNA:   3'- -UCCUUGcuaUGGCGCCGGAGGacGUC- -5'
30468 3' -57.5 NC_006548.1 + 18448 0.68 0.392228
Target:  5'- cGGGugGcaGCggCGUGGUCUUCUGCAGg -3'
miRNA:   3'- uCCUugCuaUG--GCGCCGGAGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 11593 0.68 0.3653
Target:  5'- --cGAUGAUGuCCG-GGCgUCCUGCAGg -3'
miRNA:   3'- uccUUGCUAU-GGCgCCGgAGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 20024 0.7 0.292423
Target:  5'- cGGAuCGuagGUCGCGGCgauCUCCUGCAGg -3'
miRNA:   3'- uCCUuGCua-UGGCGCCG---GAGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 26337 0.7 0.270791
Target:  5'- uGGAuguCGGUcagcguuuccgGCCG-GGUCUCCUGCAGc -3'
miRNA:   3'- uCCUu--GCUA-----------UGGCgCCGGAGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 29385 0.7 0.263872
Target:  5'- cAGGAG----GCCGCGGUaucgUUCCUGCAGg -3'
miRNA:   3'- -UCCUUgcuaUGGCGCCG----GAGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 3868 0.7 0.257097
Target:  5'- cGGAGCugcaGUGCaugGCGGUCUaCCUGCAGg -3'
miRNA:   3'- uCCUUGc---UAUGg--CGCCGGA-GGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 20610 0.71 0.250465
Target:  5'- gGGGuGACGGUGCCcuGCGGCuCUUCcGCAGc -3'
miRNA:   3'- -UCC-UUGCUAUGG--CGCCG-GAGGaCGUC- -5'
30468 3' -57.5 NC_006548.1 + 22087 0.81 0.045564
Target:  5'- gAGGGcAUGGUGCCGaUGGCCuUCCUGCAGg -3'
miRNA:   3'- -UCCU-UGCUAUGGC-GCCGG-AGGACGUC- -5'
30468 3' -57.5 NC_006548.1 + 29446 1.08 0.000462
Target:  5'- cAGGAACGAUACCGCGGCCUCCUGCAGc -3'
miRNA:   3'- -UCCUUGCUAUGGCGCCGGAGGACGUC- -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.