miRNA display CGI


Results 1 - 20 of 27 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
7268 3' -54.1 NC_001900.1 + 39130 0.66 0.746203
Target:  5'- cCACCGGCAUCgCgGAGgUcaUCCAGCg- -3'
miRNA:   3'- aGUGGCUGUGG-GaCUUgA--AGGUCGag -5'
7268 3' -54.1 NC_001900.1 + 40498 0.77 0.180769
Target:  5'- gCACCGGCGCCCcgcUGGugUUCCugcacgGGCUCu -3'
miRNA:   3'- aGUGGCUGUGGG---ACUugAAGG------UCGAG- -5'
7268 3' -54.1 NC_001900.1 + 47883 0.69 0.568417
Target:  5'- aCACCGuucguCGCaCCUGAGCUgucgaCGGUUCg -3'
miRNA:   3'- aGUGGCu----GUG-GGACUUGAag---GUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 21618 0.68 0.579543
Target:  5'- cCGCgucaGACACCUUGAGCgugugagccgUUCgGGCUCg -3'
miRNA:   3'- aGUGg---CUGUGGGACUUG----------AAGgUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 44628 0.68 0.624407
Target:  5'- uUCACCGAggagACCCcGAACUUCgAGUg- -3'
miRNA:   3'- -AGUGGCUg---UGGGaCUUGAAGgUCGag -5'
7268 3' -54.1 NC_001900.1 + 33748 0.67 0.691689
Target:  5'- -gGCCGACaacGCUgUGAGCUUCaCGGC-Ca -3'
miRNA:   3'- agUGGCUG---UGGgACUUGAAG-GUCGaG- -5'
7268 3' -54.1 NC_001900.1 + 3818 0.66 0.724674
Target:  5'- gCGCCGcgagguCACCUUGAGCUggaAGUUCa -3'
miRNA:   3'- aGUGGCu-----GUGGGACUUGAaggUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 43207 0.66 0.724674
Target:  5'- -aGgCGGCACCC-GAGCg--CAGCUCg -3'
miRNA:   3'- agUgGCUGUGGGaCUUGaagGUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 32571 0.66 0.735493
Target:  5'- gUCACaGGCA-CCUGAGCUUCuCGGUg- -3'
miRNA:   3'- -AGUGgCUGUgGGACUUGAAG-GUCGag -5'
7268 3' -54.1 NC_001900.1 + 44356 0.66 0.735493
Target:  5'- -gACCGGgaACCaaccggGAgacgACUUCCAGCUCg -3'
miRNA:   3'- agUGGCUg-UGGga----CU----UGAAGGUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 26594 0.68 0.624407
Target:  5'- aCGCCGACcCCCUu-ACUUCCaaacuAGCUa -3'
miRNA:   3'- aGUGGCUGuGGGAcuUGAAGG-----UCGAg -5'
7268 3' -54.1 NC_001900.1 + 23269 0.68 0.601921
Target:  5'- aCACCGGCAUCgCUGGcggggaugACUUCgAGCg- -3'
miRNA:   3'- aGUGGCUGUGG-GACU--------UGAAGgUCGag -5'
7268 3' -54.1 NC_001900.1 + 27032 0.68 0.590714
Target:  5'- -gACCGugGCCCUGAGCcgacaCGGUUg -3'
miRNA:   3'- agUGGCugUGGGACUUGaag--GUCGAg -5'
7268 3' -54.1 NC_001900.1 + 23657 0.68 0.590714
Target:  5'- cUACCGGCguagagGCUCUGAccACUUCguCGGCUCg -3'
miRNA:   3'- aGUGGCUG------UGGGACU--UGAAG--GUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 40035 0.68 0.589594
Target:  5'- gUCGCCGACgaugucggucacgGCCUccccGAGCUUCuuggCAGCUCg -3'
miRNA:   3'- -AGUGGCUG-------------UGGGa---CUUGAAG----GUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 4889 0.69 0.557346
Target:  5'- ---aCGGCucgACUgaGAGCUUCCGGCUCg -3'
miRNA:   3'- agugGCUG---UGGgaCUUGAAGGUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 10998 0.7 0.50308
Target:  5'- aUCAUCGGCGCUgUcaaGAACgacCCAGCUCc -3'
miRNA:   3'- -AGUGGCUGUGGgA---CUUGaa-GGUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 41630 0.72 0.365936
Target:  5'- gCACCGA--CCCUGGAUcUCCAGCa- -3'
miRNA:   3'- aGUGGCUguGGGACUUGaAGGUCGag -5'
7268 3' -54.1 NC_001900.1 + 35111 0.73 0.357168
Target:  5'- gUCGCaGACGaUgUGGACUUCCAGCUCc -3'
miRNA:   3'- -AGUGgCUGUgGgACUUGAAGGUCGAG- -5'
7268 3' -54.1 NC_001900.1 + 7262 0.66 0.713759
Target:  5'- aUCAUCGACGCCCUcacguuCUucgCCcGCUCu -3'
miRNA:   3'- -AGUGGCUGUGGGAcuu---GAa--GGuCGAG- -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.