miRNA display CGI


Results 1 - 16 of 16 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
16372 3' -58.9 NC_004084.1 + 37313 0.66 0.580506
Target:  5'- cGACCUCAucgacgacgcugaacGCUUCGGCGaucccgacgacgCCcagcucgaagcacuGCGGUGGc -3'
miRNA:   3'- -CUGGAGU---------------UGGAGCCGCa-----------GG--------------CGCCACC- -5'
16372 3' -58.9 NC_004084.1 + 47637 0.66 0.560661
Target:  5'- aACCUCAccgACUUCGGCGUCga-GGUcGGc -3'
miRNA:   3'- cUGGAGU---UGGAGCCGCAGgcgCCA-CC- -5'
16372 3' -58.9 NC_004084.1 + 21809 0.66 0.539979
Target:  5'- cACCUCAACgUCaGCGUC-GaCGGUGa -3'
miRNA:   3'- cUGGAGUUGgAGcCGCAGgC-GCCACc -5'
16372 3' -58.9 NC_004084.1 + 21609 0.67 0.529734
Target:  5'- -uCCUCAAgCUCGGCGaacUCgGCGGcGa -3'
miRNA:   3'- cuGGAGUUgGAGCCGC---AGgCGCCaCc -5'
16372 3' -58.9 NC_004084.1 + 11698 0.67 0.529734
Target:  5'- uACUUCAccgaaCUCGGCGUCCgGCGGc-- -3'
miRNA:   3'- cUGGAGUug---GAGCCGCAGG-CGCCacc -5'
16372 3' -58.9 NC_004084.1 + 50312 0.67 0.519561
Target:  5'- cGCCUCAGag-UGGgGUUCGCGGaUGGc -3'
miRNA:   3'- cUGGAGUUggaGCCgCAGGCGCC-ACC- -5'
16372 3' -58.9 NC_004084.1 + 45844 0.67 0.508461
Target:  5'- uGACCUCca--UCGGCGUCCcgaucgaGCGGacUGGu -3'
miRNA:   3'- -CUGGAGuuggAGCCGCAGG-------CGCC--ACC- -5'
16372 3' -58.9 NC_004084.1 + 2677 0.67 0.499454
Target:  5'- cGACUUC-ACCUCGGCGUCgucCGGg-- -3'
miRNA:   3'- -CUGGAGuUGGAGCCGCAGgc-GCCacc -5'
16372 3' -58.9 NC_004084.1 + 26832 0.67 0.489531
Target:  5'- cGACCUCucgauGGCCgUCGGgaaGUUCGCuGUGGg -3'
miRNA:   3'- -CUGGAG-----UUGG-AGCCg--CAGGCGcCACC- -5'
16372 3' -58.9 NC_004084.1 + 29838 0.68 0.445148
Target:  5'- aGAUCUCGGCUaCGGUGUUguagcugaucguccaCGCGGUGa -3'
miRNA:   3'- -CUGGAGUUGGaGCCGCAG---------------GCGCCACc -5'
16372 3' -58.9 NC_004084.1 + 29288 0.68 0.432091
Target:  5'- cGCCagGugUUCGGCGUCUGUGGg-- -3'
miRNA:   3'- cUGGagUugGAGCCGCAGGCGCCacc -5'
16372 3' -58.9 NC_004084.1 + 55614 0.69 0.396057
Target:  5'- -uUCUCGGCCUCGGCGUCU--GGUa- -3'
miRNA:   3'- cuGGAGUUGGAGCCGCAGGcgCCAcc -5'
16372 3' -58.9 NC_004084.1 + 35924 0.71 0.3075
Target:  5'- cGGCgUUCGGCCgaUCGGCGUCUGgGG-GGg -3'
miRNA:   3'- -CUG-GAGUUGG--AGCCGCAGGCgCCaCC- -5'
16372 3' -58.9 NC_004084.1 + 27820 0.73 0.234897
Target:  5'- gGACaUCGACCgCGGCGUCCGCGaGgucacGGa -3'
miRNA:   3'- -CUGgAGUUGGaGCCGCAGGCGC-Ca----CC- -5'
16372 3' -58.9 NC_004084.1 + 29127 0.77 0.115832
Target:  5'- aGGCCUCcuCCUCGGCGgugUCgGCGGUGc -3'
miRNA:   3'- -CUGGAGuuGGAGCCGC---AGgCGCCACc -5'
16372 3' -58.9 NC_004084.1 + 2828 1.1 0.00045
Target:  5'- cGACCUCAACCUCGGCGUCCGCGGUGGa -3'
miRNA:   3'- -CUGGAGUUGGAGCCGCAGGCGCCACC- -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.