miRNA display CGI


Results 1 - 20 of 204 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
13999 3' -55.5 NC_003521.1 + 193208 1.14 0.002086
Target:  5'- aGCGAGAGGGGCAGUAGCAGCAAGAGCa -3'
miRNA:   3'- -CGCUCUCCCCGUCAUCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 216904 0.82 0.24741
Target:  5'- gGUGAgGAGGGcGCGGUGGCAGCGGaGGCg -3'
miRNA:   3'- -CGCU-CUCCC-CGUCAUCGUCGUUcUCG- -5'
13999 3' -55.5 NC_003521.1 + 186775 0.82 0.253307
Target:  5'- gGCG-GAGGcGGCGGUgguggcGGCGGCGGGGGCa -3'
miRNA:   3'- -CGCuCUCC-CCGUCA------UCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 93972 0.78 0.393553
Target:  5'- gGCGGGAGGGGCGGaGGCgaggacgaGGCGccccccagacaggcGGAGCg -3'
miRNA:   3'- -CGCUCUCCCCGUCaUCG--------UCGU--------------UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 101120 0.78 0.396042
Target:  5'- cGCGAGGGGGGCGGgu-CGGCGGGcacGCg -3'
miRNA:   3'- -CGCUCUCCCCGUCaucGUCGUUCu--CG- -5'
13999 3' -55.5 NC_003521.1 + 177978 0.78 0.420617
Target:  5'- gGCGGGGcacaccuGGGGCGGU-GCGGguAGGGCg -3'
miRNA:   3'- -CGCUCU-------CCCCGUCAuCGUCguUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 69744 0.77 0.438978
Target:  5'- gGCgGGGAGGcGGCGGUGGCA-CAAGuGCa -3'
miRNA:   3'- -CG-CUCUCC-CCGUCAUCGUcGUUCuCG- -5'
13999 3' -55.5 NC_003521.1 + 167705 0.77 0.447881
Target:  5'- cGUGgaGGAGGcGGCGGUAGCAGCGGuAGUg -3'
miRNA:   3'- -CGC--UCUCC-CCGUCAUCGUCGUUcUCG- -5'
13999 3' -55.5 NC_003521.1 + 214556 0.77 0.456882
Target:  5'- aGCaccGGGGuGCAGUgAGCAGCAGGGGCg -3'
miRNA:   3'- -CGcucUCCC-CGUCA-UCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 215634 0.77 0.465066
Target:  5'- gGUGAGGacGGGGCuccgcauGGUcGCGGCGGGAGCa -3'
miRNA:   3'- -CGCUCU--CCCCG-------UCAuCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 186499 0.77 0.478873
Target:  5'- gGCGAGAGccccgucgggaucucGGGCGGUGucGcCAGCGGGGGCu -3'
miRNA:   3'- -CGCUCUC---------------CCCGUCAU--C-GUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 127675 0.76 0.493819
Target:  5'- cGCGAGcAGGcGGCGGguccAG-AGCGAGAGCa -3'
miRNA:   3'- -CGCUC-UCC-CCGUCa---UCgUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 98629 0.76 0.512793
Target:  5'- gGCGAGAgcggcGGcGGCGGUAGCGGCGucgacgacggcGAGCu -3'
miRNA:   3'- -CGCUCU-----CC-CCGUCAUCGUCGUu----------CUCG- -5'
13999 3' -55.5 NC_003521.1 + 196392 0.75 0.581249
Target:  5'- uGCGugguGAaGGGCGGcGGCAGguAGAGCa -3'
miRNA:   3'- -CGCu---CUcCCCGUCaUCGUCguUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 87326 0.75 0.581249
Target:  5'- aGCGccuGGAGGcGCAGcUGcGCGGCAAGGGCa -3'
miRNA:   3'- -CGC---UCUCCcCGUC-AU-CGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 165447 0.74 0.591216
Target:  5'- gGCGAGGGGuGGCAGgccuugAGCAcCAGGuGGCg -3'
miRNA:   3'- -CGCUCUCC-CCGUCa-----UCGUcGUUC-UCG- -5'
13999 3' -55.5 NC_003521.1 + 187901 0.74 0.601212
Target:  5'- gGCGGcGGGGGCAGgucgaucAGCAGCucgcGAGAGUc -3'
miRNA:   3'- -CGCUcUCCCCGUCa------UCGUCG----UUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 76462 0.74 0.601212
Target:  5'- cGCuGGAGGucGCuGUGGCGGUAGGAGCu -3'
miRNA:   3'- -CGcUCUCCc-CGuCAUCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 110154 0.74 0.61123
Target:  5'- cGCGAacgugacgcuGAGGcGGCGGUAGCA-CAGGAGg -3'
miRNA:   3'- -CGCU----------CUCC-CCGUCAUCGUcGUUCUCg -5'
13999 3' -55.5 NC_003521.1 + 234123 0.74 0.615242
Target:  5'- gGCGAGAcccagcagcgcucgcGGGcGCAGgcccuGCAGCAcGAGCg -3'
miRNA:   3'- -CGCUCU---------------CCC-CGUCau---CGUCGUuCUCG- -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.