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
16362 3' -50.4 NC_004084.1 + 37744 0.66 0.94373
Target:  5'- uGGAGUagCUCguacGCGcGCGAUCGugAg -3'
miRNA:   3'- -CCUCAa-GAGacu-CGUuCGCUAGCugU- -5'
16362 3' -50.4 NC_004084.1 + 24013 0.66 0.933727
Target:  5'- aGGAGaUCcgCggcguaguugcguggGAGCAAGCGGgacUCGACGg -3'
miRNA:   3'- -CCUCaAGa-Ga--------------CUCGUUCGCU---AGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 27475 0.66 0.933172
Target:  5'- cGGcGUcCUC-GAGCucgacgucgacgAGGCGAUCGACGu -3'
miRNA:   3'- -CCuCAaGAGaCUCG------------UUCGCUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 1460 0.66 0.927455
Target:  5'- cGGAccgcUUCgCUGAuGC-GGCGAUCGACGa -3'
miRNA:   3'- -CCUc---AAGaGACU-CGuUCGCUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 31341 0.67 0.921444
Target:  5'- cGGAgcaGUUCgUCgucgacgucGAGCAucgcGCGAUCGACAc -3'
miRNA:   3'- -CCU---CAAG-AGa--------CUCGUu---CGCUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 11778 0.67 0.908546
Target:  5'- aGGAGgaa-CUGAGCGauGGCGAcaccaUCGAUAa -3'
miRNA:   3'- -CCUCaagaGACUCGU--UCGCU-----AGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 10380 0.67 0.908546
Target:  5'- aGAGUc----GAGCAGGCGAUCGAg- -3'
miRNA:   3'- cCUCAagagaCUCGUUCGCUAGCUgu -5'
16362 3' -50.4 NC_004084.1 + 40804 0.67 0.901662
Target:  5'- cGAGcugCUCgcgaAGCuGGCGAUCGACGu -3'
miRNA:   3'- cCUCaa-GAGac--UCGuUCGCUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 42018 0.69 0.836785
Target:  5'- cGAGUggccgUCgc-GAGCgAGGCGGUCGACAu -3'
miRNA:   3'- cCUCA-----AGagaCUCG-UUCGCUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 35566 0.69 0.827557
Target:  5'- cGGGGUUCgUC-GAGCAucacgaGGCcGUCGACGa -3'
miRNA:   3'- -CCUCAAG-AGaCUCGU------UCGcUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 50248 0.69 0.818111
Target:  5'- uGAGgcgUCgCUgGAGCGGGCuGGUCGGCAc -3'
miRNA:   3'- cCUCa--AGaGA-CUCGUUCG-CUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 52029 0.7 0.757487
Target:  5'- cGAGcaggCUGAGCGAGCGGUCuACGg -3'
miRNA:   3'- cCUCaagaGACUCGUUCGCUAGcUGU- -5'
16362 3' -50.4 NC_004084.1 + 24336 0.71 0.714193
Target:  5'- uGGAGUUggaUCUGAGCAAcGCGAccacgcUCGAg- -3'
miRNA:   3'- -CCUCAAg--AGACUCGUU-CGCU------AGCUgu -5'
16362 3' -50.4 NC_004084.1 + 7397 0.72 0.691981
Target:  5'- ----aUCgacgagCUGAGCAAgGCGAUCGACGa -3'
miRNA:   3'- ccucaAGa-----GACUCGUU-CGCUAGCUGU- -5'
16362 3' -50.4 NC_004084.1 + 3125 1.11 0.002479
Target:  5'- gGGAGUUCUCUGAGCAAGCGAUCGACAc -3'
miRNA:   3'- -CCUCAAGAGACUCGUUCGCUAGCUGU- -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.