miRNA display CGI


Results 1 - 12 of 12 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
28175 3' -52.3 NC_005887.1 + 9276 0.66 0.788321
Target:  5'- aCGGCGGUCGGcaCgGCGACGccgcAGGUUa -3'
miRNA:   3'- -GUCGCCAGUUcaGaCGUUGC----UCCAAg -5'
28175 3' -52.3 NC_005887.1 + 16874 0.66 0.777919
Target:  5'- -cGCGGaCGGcUCgacagGCAACGAGGUUg -3'
miRNA:   3'- guCGCCaGUUcAGa----CGUUGCUCCAAg -5'
28175 3' -52.3 NC_005887.1 + 18915 0.66 0.777919
Target:  5'- gCGGCGGgauggCGGGcggCUGCGACGAGcugaUCg -3'
miRNA:   3'- -GUCGCCa----GUUCa--GACGUUGCUCca--AG- -5'
28175 3' -52.3 NC_005887.1 + 40788 0.66 0.75663
Target:  5'- cCGGCGGUCGAGguUCgugGCGGCGAc---- -3'
miRNA:   3'- -GUCGCCAGUUC--AGa--CGUUGCUccaag -5'
28175 3' -52.3 NC_005887.1 + 14644 0.67 0.745769
Target:  5'- -cGCcGUCGAGUgCUacGCGGCGAGGUa- -3'
miRNA:   3'- guCGcCAGUUCA-GA--CGUUGCUCCAag -5'
28175 3' -52.3 NC_005887.1 + 36116 0.67 0.712478
Target:  5'- -cGCGGUCAuaucCUGCAagACcGGGUUCg -3'
miRNA:   3'- guCGCCAGUuca-GACGU--UGcUCCAAG- -5'
28175 3' -52.3 NC_005887.1 + 32036 0.67 0.70119
Target:  5'- -uGCGGcUCGucaucCUGCAgcGCGGGGUUCa -3'
miRNA:   3'- guCGCC-AGUuca--GACGU--UGCUCCAAG- -5'
28175 3' -52.3 NC_005887.1 + 38175 0.69 0.620807
Target:  5'- -cGCGGUCAuGUCgccgcUGuCGACGAGGaUCu -3'
miRNA:   3'- guCGCCAGUuCAG-----AC-GUUGCUCCaAG- -5'
28175 3' -52.3 NC_005887.1 + 38358 0.69 0.605818
Target:  5'- cCAGCGGaUCAGGUCcgccgucguuucguUGCAcauuGCGAucuccGGUUCg -3'
miRNA:   3'- -GUCGCC-AGUUCAG--------------ACGU----UGCU-----CCAAG- -5'
28175 3' -52.3 NC_005887.1 + 27222 0.69 0.586285
Target:  5'- gGGuCGGUCGGGUCcGUGACGccguacuugcgcAGGUUCu -3'
miRNA:   3'- gUC-GCCAGUUCAGaCGUUGC------------UCCAAG- -5'
28175 3' -52.3 NC_005887.1 + 33716 0.74 0.340036
Target:  5'- gCGGCGGUCGA-UCUGCucgaucgcGGCGAGGaUCa -3'
miRNA:   3'- -GUCGCCAGUUcAGACG--------UUGCUCCaAG- -5'
28175 3' -52.3 NC_005887.1 + 36468 1.1 0.001036
Target:  5'- gCAGCGGUCAAGUCUGCAACGAGGUUCg -3'
miRNA:   3'- -GUCGCCAGUUCAGACGUUGCUCCAAG- -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.