miRNA display CGI


Results 1 - 20 of 38 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
12790 3' -54.9 NC_003387.1 + 23926 0.66 0.757375
Target:  5'- cGUCGAGCUgccCGGcuGGCucGACCggggcacggcgacaUGGGCCg -3'
miRNA:   3'- -CAGCUUGAa--GCC--CCG--CUGGa-------------ACUCGG- -5'
12790 3' -54.9 NC_003387.1 + 44602 0.66 0.757375
Target:  5'- aGUCGAGCgacgccgUCGGGccguggcgcgagcguGUGGCCcUG-GCCg -3'
miRNA:   3'- -CAGCUUGa------AGCCC---------------CGCUGGaACuCGG- -5'
12790 3' -54.9 NC_003387.1 + 21654 0.66 0.753248
Target:  5'- cGUCG-ACcgCGGcGGCGGCC--GAGCa -3'
miRNA:   3'- -CAGCuUGaaGCC-CCGCUGGaaCUCGg -5'
12790 3' -54.9 NC_003387.1 + 3075 0.66 0.747021
Target:  5'- cGUCGAcccAC-UCGGGGCcaagcucgccGACCggcucguaaaucgGGGCCg -3'
miRNA:   3'- -CAGCU---UGaAGCCCCG----------CUGGaa-----------CUCGG- -5'
12790 3' -54.9 NC_003387.1 + 38507 0.66 0.742845
Target:  5'- -gUGGGCgugCGaGGGCGGCaagUGAGCg -3'
miRNA:   3'- caGCUUGaa-GC-CCCGCUGga-ACUCGg -5'
12790 3' -54.9 NC_003387.1 + 9302 0.66 0.732331
Target:  5'- cGUCGAACUugcugUCGGcGuuGACCUccGAGCa -3'
miRNA:   3'- -CAGCUUGA-----AGCC-CcgCUGGAa-CUCGg -5'
12790 3' -54.9 NC_003387.1 + 16644 0.66 0.732331
Target:  5'- cUCGGcguGCgccUCGGGGUgcaGGCuCUUGAGCa -3'
miRNA:   3'- cAGCU---UGa--AGCCCCG---CUG-GAACUCGg -5'
12790 3' -54.9 NC_003387.1 + 928 0.66 0.732331
Target:  5'- aGUCccAC-UCGGGGCGAUCgacgcccAGCCa -3'
miRNA:   3'- -CAGcuUGaAGCCCCGCUGGaac----UCGG- -5'
12790 3' -54.9 NC_003387.1 + 43905 0.66 0.731273
Target:  5'- cGUCGAuaggccaAgUUCGGGcGCGAgC-UGAGCg -3'
miRNA:   3'- -CAGCU-------UgAAGCCC-CGCUgGaACUCGg -5'
12790 3' -54.9 NC_003387.1 + 35151 0.66 0.711011
Target:  5'- gGUCGAcCagCGGGGCGuugucgcCCUUGucacccuucgGGCCg -3'
miRNA:   3'- -CAGCUuGaaGCCCCGCu------GGAAC----------UCGG- -5'
12790 3' -54.9 NC_003387.1 + 12449 0.67 0.700228
Target:  5'- -cCGAGgUUCgcuGGcGGCGGCCUggccgcGGGCCu -3'
miRNA:   3'- caGCUUgAAG---CC-CCGCUGGAa-----CUCGG- -5'
12790 3' -54.9 NC_003387.1 + 16196 0.67 0.700228
Target:  5'- cGUCGGuGCUgUCGGGGCucaGCCUgcgcuGCCa -3'
miRNA:   3'- -CAGCU-UGA-AGCCCCGc--UGGAacu--CGG- -5'
12790 3' -54.9 NC_003387.1 + 24252 0.67 0.666431
Target:  5'- cGUCGAGCUugaccUCGGGGgccgccgccagcuCGucgaucguguacACCaUGAGCCg -3'
miRNA:   3'- -CAGCUUGA-----AGCCCC-------------GC------------UGGaACUCGG- -5'
12790 3' -54.9 NC_003387.1 + 22570 0.67 0.656546
Target:  5'- -gCGGGCcuggUCGaGGGUGGCCUcggUGcGGCCa -3'
miRNA:   3'- caGCUUGa---AGC-CCCGCUGGA---AC-UCGG- -5'
12790 3' -54.9 NC_003387.1 + 29203 0.67 0.645542
Target:  5'- aGUUGAACgauUCGGGGuCGGCgCgguuGGCCg -3'
miRNA:   3'- -CAGCUUGa--AGCCCC-GCUG-Gaac-UCGG- -5'
12790 3' -54.9 NC_003387.1 + 45065 0.68 0.634526
Target:  5'- -cCGAGCgcgUCGaGGGcCGuCCU-GGGCCg -3'
miRNA:   3'- caGCUUGa--AGC-CCC-GCuGGAaCUCGG- -5'
12790 3' -54.9 NC_003387.1 + 28085 0.68 0.623507
Target:  5'- cGUCGAACcuaUCGaccaGGGCggcaacGACCUUGAGgCg -3'
miRNA:   3'- -CAGCUUGa--AGC----CCCG------CUGGAACUCgG- -5'
12790 3' -54.9 NC_003387.1 + 10217 0.68 0.612497
Target:  5'- -gCGAGCUugagUCGGGcauccGCGACgCgaUGAGCCg -3'
miRNA:   3'- caGCUUGA----AGCCC-----CGCUG-Ga-ACUCGG- -5'
12790 3' -54.9 NC_003387.1 + 25802 0.68 0.612497
Target:  5'- cUCGGcgGCcUCGGuGGCGGCCUgcucgGcGGCCu -3'
miRNA:   3'- cAGCU--UGaAGCC-CCGCUGGAa----C-UCGG- -5'
12790 3' -54.9 NC_003387.1 + 34047 0.68 0.590536
Target:  5'- gGUCG-GCgugUGGGGCGGCCUaagcgcccagGAGCg -3'
miRNA:   3'- -CAGCuUGaa-GCCCCGCUGGAa---------CUCGg -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.