miRNA display CGI


Results 1 - 16 of 16 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
5273 3' -56.5 NC_001798.1 + 36315 0.66 0.91455
Target:  5'- cGGGgcgcgGgCCgggGCCGGGGCUCGc- -3'
miRNA:   3'- -CCCaua--CgGGagaUGGCCCUGAGCag -5'
5273 3' -56.5 NC_001798.1 + 22979 0.66 0.90865
Target:  5'- cGGGgagGCCgUCgacgagccUGCCGcGGACggCGUCg -3'
miRNA:   3'- -CCCauaCGGgAG--------AUGGC-CCUGa-GCAG- -5'
5273 3' -56.5 NC_001798.1 + 34989 0.66 0.902518
Target:  5'- cGGGg--GcCCCUCcgGCCGGGGCgcaccUCGg- -3'
miRNA:   3'- -CCCauaC-GGGAGa-UGGCCCUG-----AGCag -5'
5273 3' -56.5 NC_001798.1 + 147166 0.66 0.896158
Target:  5'- cGGGUAgccGCCCggcGCCGGG-CggaaggCGUCc -3'
miRNA:   3'- -CCCAUa--CGGGagaUGGCCCuGa-----GCAG- -5'
5273 3' -56.5 NC_001798.1 + 107644 0.66 0.892894
Target:  5'- cGGGUGucgagacgcccuguUGCgCCUCaccGCCGGGAUgaucccaacccgCGUCa -3'
miRNA:   3'- -CCCAU--------------ACG-GGAGa--UGGCCCUGa-----------GCAG- -5'
5273 3' -56.5 NC_001798.1 + 54973 0.66 0.889573
Target:  5'- cGGGUAuacgaaaacaucUGCCCUC-GCCGGcGuCUUGcCg -3'
miRNA:   3'- -CCCAU------------ACGGGAGaUGGCC-CuGAGCaG- -5'
5273 3' -56.5 NC_001798.1 + 153289 0.66 0.882766
Target:  5'- cGGGUccGCCgUCUucguggGCCcGGGCUCGg- -3'
miRNA:   3'- -CCCAuaCGGgAGA------UGGcCCUGAGCag -5'
5273 3' -56.5 NC_001798.1 + 74364 0.67 0.871424
Target:  5'- cGGGcgccaugguguuuuuUGUGCCCUCcgGCCcgGGGGC-CGUg -3'
miRNA:   3'- -CCC---------------AUACGGGAGa-UGG--CCCUGaGCAg -5'
5273 3' -56.5 NC_001798.1 + 71468 0.67 0.853411
Target:  5'- uGGGUGcauUGCCCU-UGCgGGGGCgaaCGUg -3'
miRNA:   3'- -CCCAU---ACGGGAgAUGgCCCUGa--GCAg -5'
5273 3' -56.5 NC_001798.1 + 18081 0.67 0.837534
Target:  5'- cGGGUAgGCCaCgucauCCGGGGCgucaUCGUCg -3'
miRNA:   3'- -CCCAUaCGG-Gagau-GGCCCUG----AGCAG- -5'
5273 3' -56.5 NC_001798.1 + 152201 0.68 0.829318
Target:  5'- gGGGgucGCCCUCUcaccguGCCGGGGgUCu-- -3'
miRNA:   3'- -CCCauaCGGGAGA------UGGCCCUgAGcag -5'
5273 3' -56.5 NC_001798.1 + 71234 0.68 0.803648
Target:  5'- aGGGgagccGCCCUCcGCCGGGGCcCa-- -3'
miRNA:   3'- -CCCaua--CGGGAGaUGGCCCUGaGcag -5'
5273 3' -56.5 NC_001798.1 + 21731 0.69 0.757939
Target:  5'- cGGUGUGCCC-CUggugcggcggcgACCGGGACgcCGg- -3'
miRNA:   3'- cCCAUACGGGaGA------------UGGCCCUGa-GCag -5'
5273 3' -56.5 NC_001798.1 + 42656 0.7 0.680615
Target:  5'- gGGGUccGUGUCCUCcucccacuccucgucGCCGGGACcaccggCGUCg -3'
miRNA:   3'- -CCCA--UACGGGAGa--------------UGGCCCUGa-----GCAG- -5'
5273 3' -56.5 NC_001798.1 + 4452 0.73 0.50978
Target:  5'- cGGGUAcGCCC-CgcggACCGcGGACgUCGUCu -3'
miRNA:   3'- -CCCAUaCGGGaGa---UGGC-CCUG-AGCAG- -5'
5273 3' -56.5 NC_001798.1 + 47736 1.11 0.002082
Target:  5'- uGGGUAUGCCCUCUACCGGGACUCGUCu -3'
miRNA:   3'- -CCCAUACGGGAGAUGGCCCUGAGCAG- -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.