miRNA display CGI


Results 1 - 20 of 118 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
25573 3' -56.8 NC_005337.1 + 123538 0.69 0.726142
Target:  5'- uCGAGUgcacgucccaccgCCCUGAccACauggCCGUGGACGCg -3'
miRNA:   3'- uGUUCG-------------GGGACU--UGa---GGCACCUGCGg -5'
25573 3' -56.8 NC_005337.1 + 94089 0.7 0.636117
Target:  5'- cCGGGCaCCCgagGGGCg--GUGGACGCCu -3'
miRNA:   3'- uGUUCG-GGGa--CUUGaggCACCUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 130708 0.7 0.636117
Target:  5'- gACGGGCCC--GGACUCCGUGu-CGCUc -3'
miRNA:   3'- -UGUUCGGGgaCUUGAGGCACcuGCGG- -5'
25573 3' -56.8 NC_005337.1 + 13830 0.7 0.646354
Target:  5'- aGCGcGCCCCgcagGGACUCgGgGGGCGUg -3'
miRNA:   3'- -UGUuCGGGGa---CUUGAGgCaCCUGCGg -5'
25573 3' -56.8 NC_005337.1 + 131421 0.7 0.646354
Target:  5'- gGCGcgcGGCUCCgcGGACUCCGUcuccgcGGAgGCCg -3'
miRNA:   3'- -UGU---UCGGGGa-CUUGAGGCA------CCUgCGG- -5'
25573 3' -56.8 NC_005337.1 + 1984 0.7 0.666787
Target:  5'- gACGAGCUCC--AGCUCgCGUcGGACGaCCg -3'
miRNA:   3'- -UGUUCGGGGacUUGAG-GCA-CCUGC-GG- -5'
25573 3' -56.8 NC_005337.1 + 38550 0.69 0.672898
Target:  5'- aACGcGCUCCggaucuucucaucGGACUCCGUGcACGCCa -3'
miRNA:   3'- -UGUuCGGGGa------------CUUGAGGCACcUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 12528 0.69 0.697204
Target:  5'- -gAGGUUCCUgcGAGCUCCGUGaACGCg -3'
miRNA:   3'- ugUUCGGGGA--CUUGAGGCACcUGCGg -5'
25573 3' -56.8 NC_005337.1 + 31748 0.69 0.707245
Target:  5'- cGCAGGaagaUGGACUCCGUGG-CGUCg -3'
miRNA:   3'- -UGUUCggggACUUGAGGCACCuGCGG- -5'
25573 3' -56.8 NC_005337.1 + 103185 0.7 0.625876
Target:  5'- cGCucguGGCCUcgCUGAACcccgcgaUCGUGGACGCCu -3'
miRNA:   3'- -UGu---UCGGG--GACUUGa------GGCACCUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 43516 0.71 0.595213
Target:  5'- gACGAGUUCCgcAGCUCCGUGGaggaGCGCa -3'
miRNA:   3'- -UGUUCGGGGacUUGAGGCACC----UGCGg -5'
25573 3' -56.8 NC_005337.1 + 33600 0.71 0.595213
Target:  5'- uCGAGCCC--GAGCaCCGUcgcGGACGCCg -3'
miRNA:   3'- uGUUCGGGgaCUUGaGGCA---CCUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 121843 0.76 0.347217
Target:  5'- gACGuGCUCgUGAAgUCgGUGGGCGCCa -3'
miRNA:   3'- -UGUuCGGGgACUUgAGgCACCUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 68179 0.74 0.439721
Target:  5'- cCGAGUacgCCCUGAGCgcggccCCGgGGGCGCCg -3'
miRNA:   3'- uGUUCG---GGGACUUGa-----GGCaCCUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 52121 0.73 0.486158
Target:  5'- gACGGGCCggCCaUGGcCUUCGUGGACGCg -3'
miRNA:   3'- -UGUUCGG--GG-ACUuGAGGCACCUGCGg -5'
25573 3' -56.8 NC_005337.1 + 108867 0.73 0.495726
Target:  5'- uGCGAGCggaaCCC-GAACUCCGaGGcCGCCa -3'
miRNA:   3'- -UGUUCG----GGGaCUUGAGGCaCCuGCGG- -5'
25573 3' -56.8 NC_005337.1 + 88306 0.72 0.524918
Target:  5'- uCAAGCUCggGGACgucagCGUGGACGCCa -3'
miRNA:   3'- uGUUCGGGgaCUUGag---GCACCUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 29577 0.71 0.564793
Target:  5'- cACAgcAGCUCCUcggcGGugUCCGacgcGGACGCCa -3'
miRNA:   3'- -UGU--UCGGGGA----CUugAGGCa---CCUGCGG- -5'
25573 3' -56.8 NC_005337.1 + 29340 0.71 0.574894
Target:  5'- aGCAGGCCCa-GGAUcuggUCCGUGG-UGCCc -3'
miRNA:   3'- -UGUUCGGGgaCUUG----AGGCACCuGCGG- -5'
25573 3' -56.8 NC_005337.1 + 94719 0.71 0.585037
Target:  5'- gACGAGUaCCC-GAGCgcccgCCG-GGGCGCCg -3'
miRNA:   3'- -UGUUCG-GGGaCUUGa----GGCaCCUGCGG- -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.