miRNA display CGI


Results 1 - 20 of 28 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
22704 3' -56.2 NC_005091.1 + 6644 0.66 0.707754
Target:  5'- uUCGAUGUGgGccuucgauuUCG-GGCUGCCCCa- -3'
miRNA:   3'- uAGCUGCACgU---------AGCgCUGAUGGGGcu -5'
22704 3' -56.2 NC_005091.1 + 655 0.66 0.696005
Target:  5'- aAUCGACcggGCAUCGCGgaaaucuacgcggACUGCgCCGc -3'
miRNA:   3'- -UAGCUGca-CGUAGCGC-------------UGAUGgGGCu -5'
22704 3' -56.2 NC_005091.1 + 55909 0.66 0.686338
Target:  5'- -cCGGC-UGCgccgcucuucGUCGCGuACUugCCCGAg -3'
miRNA:   3'- uaGCUGcACG----------UAGCGC-UGAugGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 44574 0.66 0.675548
Target:  5'- cUCGACGUGCA--GCGAagaAgCCCGGu -3'
miRNA:   3'- uAGCUGCACGUagCGCUga-UgGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 2589 0.66 0.664718
Target:  5'- cUCGAUG-GCAUCGC-ACUgguugGCUCCGGu -3'
miRNA:   3'- uAGCUGCaCGUAGCGcUGA-----UGGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 34184 0.66 0.664718
Target:  5'- uAUCGGCaaUGCcgCGCGACUGaUCCGGu -3'
miRNA:   3'- -UAGCUGc-ACGuaGCGCUGAUgGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 9085 0.66 0.653859
Target:  5'- -cCGugGgucgGCGUCGUG-CUgaagcgcaACCCCGAu -3'
miRNA:   3'- uaGCugCa---CGUAGCGCuGA--------UGGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 49489 0.67 0.63209
Target:  5'- gAUCGAaauugcuaagaGUGCcgCGCGugUucagcgcgaGCCCCGGc -3'
miRNA:   3'- -UAGCUg----------CACGuaGCGCugA---------UGGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 50665 0.67 0.621201
Target:  5'- -gCGACGcUGUugCGCGACUACCgcaCCGGc -3'
miRNA:   3'- uaGCUGC-ACGuaGCGCUGAUGG---GGCU- -5'
22704 3' -56.2 NC_005091.1 + 2384 0.67 0.621201
Target:  5'- uUCGGCGUcgucgcgauGCGUCGUGGCUucuuGCCaCUGGa -3'
miRNA:   3'- uAGCUGCA---------CGUAGCGCUGA----UGG-GGCU- -5'
22704 3' -56.2 NC_005091.1 + 77 0.67 0.621201
Target:  5'- --aGGCGUGCGcCaCGGCUGCCUCGu -3'
miRNA:   3'- uagCUGCACGUaGcGCUGAUGGGGCu -5'
22704 3' -56.2 NC_005091.1 + 57471 0.67 0.621201
Target:  5'- --aGGCGUGCGcCaCGGCUGCCUCGu -3'
miRNA:   3'- uagCUGCACGUaGcGCUGAUGGGGCu -5'
22704 3' -56.2 NC_005091.1 + 16021 0.67 0.621201
Target:  5'- -cCGACaaGCGUCGUG-CUGCCgCCGGc -3'
miRNA:   3'- uaGCUGcaCGUAGCGCuGAUGG-GGCU- -5'
22704 3' -56.2 NC_005091.1 + 52125 0.67 0.603803
Target:  5'- -gCGGCGcGUAucUCGCGAUUgaggaagucacgcucGCCCCGAa -3'
miRNA:   3'- uaGCUGCaCGU--AGCGCUGA---------------UGGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 33642 0.67 0.599461
Target:  5'- -cCGGCG-GCAUCGgGACUucaccaGCCgCGAu -3'
miRNA:   3'- uaGCUGCaCGUAGCgCUGA------UGGgGCU- -5'
22704 3' -56.2 NC_005091.1 + 57424 0.67 0.599461
Target:  5'- cAUCGACc-GUA-CGCGuACUGCCCCGu -3'
miRNA:   3'- -UAGCUGcaCGUaGCGC-UGAUGGGGCu -5'
22704 3' -56.2 NC_005091.1 + 27890 0.68 0.545729
Target:  5'- cUCGGCGacgGag-CGCGugUACCUCGAc -3'
miRNA:   3'- uAGCUGCa--CguaGCGCugAUGGGGCU- -5'
22704 3' -56.2 NC_005091.1 + 2304 0.69 0.503884
Target:  5'- -aCGAC--GCAUCGCGACgACgCCGAa -3'
miRNA:   3'- uaGCUGcaCGUAGCGCUGaUGgGGCU- -5'
22704 3' -56.2 NC_005091.1 + 52649 0.69 0.493636
Target:  5'- uUCGuuaccGCGUGCGUCGCGcCgAUCCCGu -3'
miRNA:   3'- uAGC-----UGCACGUAGCGCuGaUGGGGCu -5'
22704 3' -56.2 NC_005091.1 + 14051 0.69 0.473434
Target:  5'- -aCGACG-GUAUCGCGuaucACUGcgacCCCCGAg -3'
miRNA:   3'- uaGCUGCaCGUAGCGC----UGAU----GGGGCU- -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.