miRNA display CGI


Results 1 - 20 of 40 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
16212 3' -59.6 NC_004065.1 + 1157 0.67 0.818807
Target:  5'- uGCGCCgCGGUgGUCCCcauuGUGucgucGGCGCCg -3'
miRNA:   3'- uUGUGGgGCCA-CAGGGc---CAU-----CUGCGG- -5'
16212 3' -59.6 NC_004065.1 + 17325 0.72 0.529029
Target:  5'- -cCGCCuucgaguCCGGUGUCCuCGGUcuGAUGCCg -3'
miRNA:   3'- uuGUGG-------GGCCACAGG-GCCAu-CUGCGG- -5'
16212 3' -59.6 NC_004065.1 + 27487 0.72 0.511396
Target:  5'- -cCugCCCGGUGUagugagCGGUcaGGACGCCa -3'
miRNA:   3'- uuGugGGGCCACAgg----GCCA--UCUGCGG- -5'
16212 3' -59.6 NC_004065.1 + 29679 0.66 0.857534
Target:  5'- gGACGCCCaGGUccucguucuuGUCaucgCCGGUcgagcggcGGACGCCg -3'
miRNA:   3'- -UUGUGGGgCCA----------CAG----GGCCA--------UCUGCGG- -5'
16212 3' -59.6 NC_004065.1 + 30169 0.66 0.864754
Target:  5'- cGGCACCgaCGaGUGcCUgcggCGGUGGugGCCg -3'
miRNA:   3'- -UUGUGGg-GC-CACaGG----GCCAUCugCGG- -5'
16212 3' -59.6 NC_004065.1 + 41105 0.66 0.850131
Target:  5'- gAGCGCCaaGGUGaaaCCCGG-AGAC-CCg -3'
miRNA:   3'- -UUGUGGggCCACa--GGGCCaUCUGcGG- -5'
16212 3' -59.6 NC_004065.1 + 44273 0.7 0.635296
Target:  5'- aGACGCCCCacauGUGggCCCGGUcGAucCGCCu -3'
miRNA:   3'- -UUGUGGGGc---CACa-GGGCCAuCU--GCGG- -5'
16212 3' -59.6 NC_004065.1 + 47298 0.66 0.871787
Target:  5'- gGugGCCCCGGcGUCgCCcGU-GAgGCCg -3'
miRNA:   3'- -UugUGGGGCCaCAG-GGcCAuCUgCGG- -5'
16212 3' -59.6 NC_004065.1 + 53538 0.67 0.785055
Target:  5'- gGACACCCacc-GUCCCGGUGccucCGCCu -3'
miRNA:   3'- -UUGUGGGgccaCAGGGCCAUcu--GCGG- -5'
16212 3' -59.6 NC_004065.1 + 63453 0.67 0.826883
Target:  5'- uGCAUCCgagcgGGUGgacgaCCCGGUgcagccgccAGGCGCCg -3'
miRNA:   3'- uUGUGGGg----CCACa----GGGCCA---------UCUGCGG- -5'
16212 3' -59.6 NC_004065.1 + 65917 0.71 0.567783
Target:  5'- aGACGCCCCGG--UCUCGGUuaccGuCGCCg -3'
miRNA:   3'- -UUGUGGGGCCacAGGGCCAu---CuGCGG- -5'
16212 3' -59.6 NC_004065.1 + 71425 0.66 0.834799
Target:  5'- aAACAUCCCGGc--UCUGGUgGGugGCCc -3'
miRNA:   3'- -UUGUGGGGCCacaGGGCCA-UCugCGG- -5'
16212 3' -59.6 NC_004065.1 + 71957 0.7 0.635296
Target:  5'- cGACGCCgCCGGUGgagccgggcagCCCGGaggcGACGCa -3'
miRNA:   3'- -UUGUGG-GGCCACa----------GGGCCau--CUGCGg -5'
16212 3' -59.6 NC_004065.1 + 72044 0.68 0.752981
Target:  5'- uGCACCCgGaguacGUGUaCgccaucacgacccagCCGGUGGACGCCa -3'
miRNA:   3'- uUGUGGGgC-----CACA-G---------------GGCCAUCUGCGG- -5'
16212 3' -59.6 NC_004065.1 + 84932 0.69 0.721547
Target:  5'- gAACAUCgUGGUGUUCuCGGUGGcgGCGCa -3'
miRNA:   3'- -UUGUGGgGCCACAGG-GCCAUC--UGCGg -5'
16212 3' -59.6 NC_004065.1 + 93988 0.66 0.875231
Target:  5'- cGGCACCCUGGccggcuuuucgggGUCCCGGUuccGGCuucguugcucccuGCCc -3'
miRNA:   3'- -UUGUGGGGCCa------------CAGGGCCAu--CUG-------------CGG- -5'
16212 3' -59.6 NC_004065.1 + 102035 0.67 0.818807
Target:  5'- -cCACCUCGGUGaCCCGcGgcGgccgggcguuaGCGCCg -3'
miRNA:   3'- uuGUGGGGCCACaGGGC-CauC-----------UGCGG- -5'
16212 3' -59.6 NC_004065.1 + 108731 0.68 0.767411
Target:  5'- cGCugCCCGGUGagcaUCCUGGc-GAUGCg -3'
miRNA:   3'- uUGugGGGCCAC----AGGGCCauCUGCGg -5'
16212 3' -59.6 NC_004065.1 + 117116 0.71 0.567783
Target:  5'- cGCGCCCUGGUGUCgcaccugauCCGGacggAGACggGCCu -3'
miRNA:   3'- uUGUGGGGCCACAG---------GGCCa---UCUG--CGG- -5'
16212 3' -59.6 NC_004065.1 + 121599 0.69 0.683571
Target:  5'- cGACGgCCCGGgacccCCCGGUagggcaGGAUGCCc -3'
miRNA:   3'- -UUGUgGGGCCaca--GGGCCA------UCUGCGG- -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.