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
22722 3' -54.9 NC_005091.1 + 394 0.66 0.769889
Target:  5'- gCGGccAAGcGGCGGGGA---GAGCGCGCg -3'
miRNA:   3'- gGCC--UUC-UCGUCCUUuggCUCGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 57788 0.66 0.769889
Target:  5'- gCGGccAAGcGGCGGGGA---GAGCGCGCg -3'
miRNA:   3'- gGCC--UUC-UCGUCCUUuggCUCGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 11491 0.66 0.769889
Target:  5'- gCCGcGAaacaGGGGCAGG---CCGAaGCGCAg -3'
miRNA:   3'- -GGC-CU----UCUCGUCCuuuGGCU-CGCGUg -5'
22722 3' -54.9 NC_005091.1 + 6270 0.66 0.759726
Target:  5'- gUGGuGGuGCGGGuuGGCCGGGUGCu- -3'
miRNA:   3'- gGCCuUCuCGUCCu-UUGGCUCGCGug -5'
22722 3' -54.9 NC_005091.1 + 55055 0.66 0.749433
Target:  5'- gCCGGAcgaGGGGCgcagaaaacGGGAcAGCCGcGCgGCGCu -3'
miRNA:   3'- -GGCCU---UCUCG---------UCCU-UUGGCuCG-CGUG- -5'
22722 3' -54.9 NC_005091.1 + 10411 0.66 0.739022
Target:  5'- aCGGAAGA-CAGGGgcuGACCguGAGCGgcCGCa -3'
miRNA:   3'- gGCCUUCUcGUCCU---UUGG--CUCGC--GUG- -5'
22722 3' -54.9 NC_005091.1 + 15167 0.66 0.728503
Target:  5'- cCCGGAucGGGGac-GAGACCGGccGCGUGCg -3'
miRNA:   3'- -GGCCU--UCUCgucCUUUGGCU--CGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 53761 0.67 0.717888
Target:  5'- aCGGuuugcGAGCAuu--GCCGAGCGCAa -3'
miRNA:   3'- gGCCuu---CUCGUccuuUGGCUCGCGUg -5'
22722 3' -54.9 NC_005091.1 + 44829 0.67 0.700734
Target:  5'- gCCGGcAAGGGCGGcggcaaggcagcaacGAAGCCGAa-GCACu -3'
miRNA:   3'- -GGCC-UUCUCGUC---------------CUUUGGCUcgCGUG- -5'
22722 3' -54.9 NC_005091.1 + 56426 0.67 0.674697
Target:  5'- gCGGGAcGGCAGGAAAUCuGGCGgGg -3'
miRNA:   3'- gGCCUUcUCGUCCUUUGGcUCGCgUg -5'
22722 3' -54.9 NC_005091.1 + 28327 0.67 0.671423
Target:  5'- gCCGGuu--GCAccGGAAaccaucaucgucacGCCGGGCGCAUg -3'
miRNA:   3'- -GGCCuucuCGU--CCUU--------------UGGCUCGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 46198 0.67 0.663772
Target:  5'- uCCGGcacGAGCAGGAGuUUG-GCGUGCa -3'
miRNA:   3'- -GGCCuu-CUCGUCCUUuGGCuCGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 7497 0.68 0.641843
Target:  5'- gCCGGuucuucGGGCAGcucgaccAAGCCGAgGCGCACc -3'
miRNA:   3'- -GGCCuu----CUCGUCc------UUUGGCU-CGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 55830 0.68 0.641843
Target:  5'- gCGacGAAGAGCGGcGcAGCCGgucagcaacuGGCGCACg -3'
miRNA:   3'- gGC--CUUCUCGUC-CuUUGGC----------UCGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 8086 0.68 0.61988
Target:  5'- gCGGccGAuGUAGGAAcgGCCGAcGUGCAUg -3'
miRNA:   3'- gGCCuuCU-CGUCCUU--UGGCU-CGCGUG- -5'
22722 3' -54.9 NC_005091.1 + 24799 0.69 0.587036
Target:  5'- aCCGGGauGGAGCAGGccaAAACaCucGCGCAg -3'
miRNA:   3'- -GGCCU--UCUCGUCC---UUUG-GcuCGCGUg -5'
22722 3' -54.9 NC_005091.1 + 31780 0.69 0.565314
Target:  5'- aCGGcacGAGCAGGccGCCGAcgaGCGCGa -3'
miRNA:   3'- gGCCuu-CUCGUCCuuUGGCU---CGCGUg -5'
22722 3' -54.9 NC_005091.1 + 10294 0.69 0.565314
Target:  5'- aCGaAAGAGCuGGAAAUCG-GCGCGa -3'
miRNA:   3'- gGCcUUCUCGuCCUUUGGCuCGCGUg -5'
22722 3' -54.9 NC_005091.1 + 56364 0.69 0.543806
Target:  5'- cCCGGAuuuacAGCGGGAGACCGAuuauucggccgGCGUc- -3'
miRNA:   3'- -GGCCUuc---UCGUCCUUUGGCU-----------CGCGug -5'
22722 3' -54.9 NC_005091.1 + 6183 0.7 0.533152
Target:  5'- gCGGggGcuuGCGGGcgacGAGCCGAaGCgGCGCg -3'
miRNA:   3'- gGCCuuCu--CGUCC----UUUGGCU-CG-CGUG- -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.