miRNA display CGI


Results 1 - 10 of 10 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
18001 5' -53.9 NC_004665.1 + 17217 0.66 0.673746
Target:  5'- aGG-CUGCUCgugccAAGGGCAAGCGUg -3'
miRNA:   3'- -CCaGGCGAGguuc-UUUCCGUUCGCGu -5'
18001 5' -53.9 NC_004665.1 + 23000 0.66 0.627805
Target:  5'- aGGagCUGCUCaGAGAAcGGCAcAGCGUAu -3'
miRNA:   3'- -CCa-GGCGAGgUUCUUuCCGU-UCGCGU- -5'
18001 5' -53.9 NC_004665.1 + 25886 0.67 0.570543
Target:  5'- --aCCGC-CCGA---AGGCGAGUGCAu -3'
miRNA:   3'- ccaGGCGaGGUUcuuUCCGUUCGCGU- -5'
18001 5' -53.9 NC_004665.1 + 5904 0.68 0.547954
Target:  5'- cGGUCgGCaCCAAGuuccucgucaccAAGGGCAccuuuGCGCAa -3'
miRNA:   3'- -CCAGgCGaGGUUC------------UUUCCGUu----CGCGU- -5'
18001 5' -53.9 NC_004665.1 + 28492 0.68 0.514633
Target:  5'- cGGUCgGCUCU----GAGGCucuGCGCGa -3'
miRNA:   3'- -CCAGgCGAGGuucuUUCCGuu-CGCGU- -5'
18001 5' -53.9 NC_004665.1 + 1938 0.72 0.323979
Target:  5'- --aCCGUUCCAAGGcuucgGAGGCAcgaccauuggcugguAGCGCGg -3'
miRNA:   3'- ccaGGCGAGGUUCU-----UUCCGU---------------UCGCGU- -5'
18001 5' -53.9 NC_004665.1 + 35073 0.76 0.19217
Target:  5'- uGUCCGCuUCCAAGGAacGGGCAgacgccaacAGCGUg -3'
miRNA:   3'- cCAGGCG-AGGUUCUU--UCCGU---------UCGCGu -5'
18001 5' -53.9 NC_004665.1 + 4675 0.76 0.186318
Target:  5'- uGGUCgCGCUCCAcuggucaacgucgAGuggcugucccguGAGGGCAAGCGCu -3'
miRNA:   3'- -CCAG-GCGAGGU-------------UC------------UUUCCGUUCGCGu -5'
18001 5' -53.9 NC_004665.1 + 18743 0.76 0.176579
Target:  5'- uGGUCUGCUgcucaccgaggCCGAGAAGGcuCAAGCGCAa -3'
miRNA:   3'- -CCAGGCGA-----------GGUUCUUUCc-GUUCGCGU- -5'
18001 5' -53.9 NC_004665.1 + 3793 1.11 0.000509
Target:  5'- aGGUCCGCUCCAAGAAAGGCAAGCGCAa -3'
miRNA:   3'- -CCAGGCGAGGUUCUUUCCGUUCGCGU- -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.