miRNA display CGI


Results 1 - 20 of 30 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
11451 3' -55.7 NC_003085.1 + 2313 0.66 0.640456
Target:  5'- uGGCCUgCCUCgCCACcggccgCCGCUUCAUcGGUu -3'
miRNA:   3'- -UUGGA-GGAG-GGUGa-----GGUGGAGUA-UCG- -5'
11451 3' -55.7 NC_003085.1 + 5125 0.66 0.606887
Target:  5'- cGCCcUCUCCCGCgucgCCGCC-CA-GGCa -3'
miRNA:   3'- uUGGaGGAGGGUGa---GGUGGaGUaUCG- -5'
11451 3' -55.7 NC_003085.1 + 5839 0.76 0.174535
Target:  5'- uGGCCUCCcgugCCCGCUCUGCaCUCGggaUGGCa -3'
miRNA:   3'- -UUGGAGGa---GGGUGAGGUG-GAGU---AUCG- -5'
11451 3' -55.7 NC_003085.1 + 6910 0.67 0.562484
Target:  5'- cGACCgCUUCCCGCucauggUCCACCgCAUcccgGGCg -3'
miRNA:   3'- -UUGGaGGAGGGUG------AGGUGGaGUA----UCG- -5'
11451 3' -55.7 NC_003085.1 + 9784 0.66 0.651644
Target:  5'- gAGCCUCCagcgCCUGCUgCugCUCAcgcGCg -3'
miRNA:   3'- -UUGGAGGa---GGGUGAgGugGAGUau-CG- -5'
11451 3' -55.7 NC_003085.1 + 14308 0.67 0.573519
Target:  5'- gAACCUCCUgCCGCUCauguugcggcaGCCggcccacaAUGGCa -3'
miRNA:   3'- -UUGGAGGAgGGUGAGg----------UGGag------UAUCG- -5'
11451 3' -55.7 NC_003085.1 + 14449 0.67 0.562484
Target:  5'- gGGCUUCUUCCUugcCUCCagaGCCUCGgccAGCa -3'
miRNA:   3'- -UUGGAGGAGGGu--GAGG---UGGAGUa--UCG- -5'
11451 3' -55.7 NC_003085.1 + 14517 0.68 0.497756
Target:  5'- cGCCUCCgccggCCagcaACUCCGCCgCGUGcGCc -3'
miRNA:   3'- uUGGAGGa----GGg---UGAGGUGGaGUAU-CG- -5'
11451 3' -55.7 NC_003085.1 + 16605 0.68 0.528679
Target:  5'- gGGCCUCCcgggcggUCCCGCggcgcgCgGCCUCucgGGCc -3'
miRNA:   3'- -UUGGAGG-------AGGGUGa-----GgUGGAGua-UCG- -5'
11451 3' -55.7 NC_003085.1 + 17942 0.78 0.128237
Target:  5'- uGCCgUCUUCCCACUCCACgUCccUGGCg -3'
miRNA:   3'- uUGG-AGGAGGGUGAGGUGgAGu-AUCG- -5'
11451 3' -55.7 NC_003085.1 + 21686 0.72 0.280873
Target:  5'- cGCCUCCaggacgagguggCCCGCUUCGCCUCGgacauccAGCg -3'
miRNA:   3'- uUGGAGGa-----------GGGUGAGGUGGAGUa------UCG- -5'
11451 3' -55.7 NC_003085.1 + 21716 0.66 0.62926
Target:  5'- uGGCCgugacguacgUgUCCUugUCCACCUCGccAGCa -3'
miRNA:   3'- -UUGGa---------GgAGGGugAGGUGGAGUa-UCG- -5'
11451 3' -55.7 NC_003085.1 + 27210 0.67 0.584603
Target:  5'- cGGCCUgCUgCCGCUCCuucgUCUCGuUGGCc -3'
miRNA:   3'- -UUGGAgGAgGGUGAGGu---GGAGU-AUCG- -5'
11451 3' -55.7 NC_003085.1 + 27707 0.67 0.584603
Target:  5'- gGGCgUCCgCCCGCugUCgCGCCUCGUugcuGGCg -3'
miRNA:   3'- -UUGgAGGaGGGUG--AG-GUGGAGUA----UCG- -5'
11451 3' -55.7 NC_003085.1 + 28309 0.66 0.651644
Target:  5'- -cCCUCCacguaCCAgUCCACCUUccGGCc -3'
miRNA:   3'- uuGGAGGag---GGUgAGGUGGAGuaUCG- -5'
11451 3' -55.7 NC_003085.1 + 28670 1.1 0.000573
Target:  5'- cAACCUCCUCCCACUCCACCUCAUAGCg -3'
miRNA:   3'- -UUGGAGGAGGGUGAGGUGGAGUAUCG- -5'
11451 3' -55.7 NC_003085.1 + 29752 0.67 0.562484
Target:  5'- uGGCCgCCgUCgCGCcCCACCUCGUGcGCa -3'
miRNA:   3'- -UUGGaGG-AGgGUGaGGUGGAGUAU-CG- -5'
11451 3' -55.7 NC_003085.1 + 37757 0.66 0.62926
Target:  5'- cGGCgUCCUCCUGCUcgcCCAUgaaCUgGUAGCg -3'
miRNA:   3'- -UUGgAGGAGGGUGA---GGUG---GAgUAUCG- -5'
11451 3' -55.7 NC_003085.1 + 38180 0.69 0.446479
Target:  5'- cGCUUCCgaagccgggCCCACUCUGCCUUcgAGg -3'
miRNA:   3'- uUGGAGGa--------GGGUGAGGUGGAGuaUCg -5'
11451 3' -55.7 NC_003085.1 + 38886 0.66 0.606887
Target:  5'- uGCCUCgugcugcgCCCGCUCCuucGCCUCuu-GCg -3'
miRNA:   3'- uUGGAGga------GGGUGAGG---UGGAGuauCG- -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.