miRNA display CGI


Results 1 - 20 of 25 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
11465 5' -53.1 NC_003085.1 + 38392 0.66 0.790134
Target:  5'- uGGCGGUGCAg--GC-CGAGGUUGGu- -3'
miRNA:   3'- -CUGCCGUGUugaCGuGCUCCAACUgu -5'
11465 5' -53.1 NC_003085.1 + 32119 0.66 0.790133
Target:  5'- cACGGCACucgguGgUGCgACGGGGgcGGCu -3'
miRNA:   3'- cUGCCGUGu----UgACG-UGCUCCaaCUGu -5'
11465 5' -53.1 NC_003085.1 + 7388 0.66 0.789121
Target:  5'- cGACGGCGCccgcgugAACUgGCACGAGuccGACu -3'
miRNA:   3'- -CUGCCGUG-------UUGA-CGUGCUCcaaCUGu -5'
11465 5' -53.1 NC_003085.1 + 21556 0.66 0.778909
Target:  5'- -cCGGCGCGAgcucguggacgccCUGCACcAGGUgacgGGCAu -3'
miRNA:   3'- cuGCCGUGUU-------------GACGUGcUCCAa---CUGU- -5'
11465 5' -53.1 NC_003085.1 + 46925 0.66 0.769579
Target:  5'- aGGCGGCACAGgUucggcGCGCGcAGGggccGACGc -3'
miRNA:   3'- -CUGCCGUGUUgA-----CGUGC-UCCaa--CUGU- -5'
11465 5' -53.1 NC_003085.1 + 48788 0.66 0.769579
Target:  5'- uGGCGGCGCuuCUuCGCGGGGcucacGGCAg -3'
miRNA:   3'- -CUGCCGUGuuGAcGUGCUCCaa---CUGU- -5'
11465 5' -53.1 NC_003085.1 + 10086 0.66 0.769579
Target:  5'- -uUGGCGCcgGACUGUGUGAGGUgGACGc -3'
miRNA:   3'- cuGCCGUG--UUGACGUGCUCCAaCUGU- -5'
11465 5' -53.1 NC_003085.1 + 35779 0.66 0.766441
Target:  5'- cGCGGCGCGACgGCcgguguccuuguccAUGGGGUUG-CGc -3'
miRNA:   3'- cUGCCGUGUUGaCG--------------UGCUCCAACuGU- -5'
11465 5' -53.1 NC_003085.1 + 22123 0.67 0.715776
Target:  5'- aGACGGCgACGAagacgaUGUugGccGGGUUGACc -3'
miRNA:   3'- -CUGCCG-UGUUg-----ACGugC--UCCAACUGu -5'
11465 5' -53.1 NC_003085.1 + 1219 0.67 0.715776
Target:  5'- -cCGGCGCcgcGCUGCugGAGGagUUGGa- -3'
miRNA:   3'- cuGCCGUGu--UGACGugCUCC--AACUgu -5'
11465 5' -53.1 NC_003085.1 + 19243 0.68 0.682338
Target:  5'- cGACGGCACAcACaUGCacuGCGAGGUg---- -3'
miRNA:   3'- -CUGCCGUGU-UG-ACG---UGCUCCAacugu -5'
11465 5' -53.1 NC_003085.1 + 16093 0.68 0.659771
Target:  5'- aGGCGGCACGaugacGCUGaagggcgacaucCugGAGGUcGACGc -3'
miRNA:   3'- -CUGCCGUGU-----UGAC------------GugCUCCAaCUGU- -5'
11465 5' -53.1 NC_003085.1 + 8818 0.69 0.625745
Target:  5'- cGCGGCGCAGCcagcgucaggGCgACGAGGacGGCAg -3'
miRNA:   3'- cUGCCGUGUUGa---------CG-UGCUCCaaCUGU- -5'
11465 5' -53.1 NC_003085.1 + 5392 0.69 0.6144
Target:  5'- gGACGGCG-AACcGCugGAGGgUGGCc -3'
miRNA:   3'- -CUGCCGUgUUGaCGugCUCCaACUGu -5'
11465 5' -53.1 NC_003085.1 + 7653 0.7 0.569283
Target:  5'- gGGCGGCGcCGACaUGCGCGAgccugugcuGGggGGCGa -3'
miRNA:   3'- -CUGCCGU-GUUG-ACGUGCU---------CCaaCUGU- -5'
11465 5' -53.1 NC_003085.1 + 44624 0.7 0.569283
Target:  5'- cGCcGCACuAUUGCgGCGAGGUUGGCu -3'
miRNA:   3'- cUGcCGUGuUGACG-UGCUCCAACUGu -5'
11465 5' -53.1 NC_003085.1 + 24594 0.7 0.569283
Target:  5'- --gGGCGCcGCUGCAggUGAGGUUGcCGg -3'
miRNA:   3'- cugCCGUGuUGACGU--GCUCCAACuGU- -5'
11465 5' -53.1 NC_003085.1 + 1582 0.7 0.565927
Target:  5'- uGCGGCGCGGCguacgcgugccgugUGCAUGAGGa-GACGc -3'
miRNA:   3'- cUGCCGUGUUG--------------ACGUGCUCCaaCUGU- -5'
11465 5' -53.1 NC_003085.1 + 26468 0.71 0.461343
Target:  5'- uGCGGCGCGcgcaccucugGCUGCuuGGGGgUGGCAg -3'
miRNA:   3'- cUGCCGUGU----------UGACGugCUCCaACUGU- -5'
11465 5' -53.1 NC_003085.1 + 20947 0.72 0.441024
Target:  5'- -cCGcGCGCGuCUGCACGAGGUgcggUGGCu -3'
miRNA:   3'- cuGC-CGUGUuGACGUGCUCCA----ACUGu -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.