miRNA display CGI


Results 1 - 20 of 20 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
12163 3' -56.7 NC_003309.1 + 36693 0.66 0.646404
Target:  5'- cGCUGAguguCCGCCcaUGAACCCccgcuUGAacuggcgccuguacgGGCCa -3'
miRNA:   3'- uCGGCU----GGCGG--ACUUGGGu----ACU---------------UCGG- -5'
12163 3' -56.7 NC_003309.1 + 41274 0.66 0.642027
Target:  5'- cGCUGGCgGCC-GGGCUCAggucGAGGCg -3'
miRNA:   3'- uCGGCUGgCGGaCUUGGGUa---CUUCGg -5'
12163 3' -56.7 NC_003309.1 + 17224 0.66 0.642027
Target:  5'- cGCCGuagauCCGCUUcAGCCCucuuucugcAUGGAGCUu -3'
miRNA:   3'- uCGGCu----GGCGGAcUUGGG---------UACUUCGG- -5'
12163 3' -56.7 NC_003309.1 + 3067 0.66 0.620133
Target:  5'- uGCUgGAUCGCCUGcgcauGCCCGauugcguucgcaUGAAGCa -3'
miRNA:   3'- uCGG-CUGGCGGACu----UGGGU------------ACUUCGg -5'
12163 3' -56.7 NC_003309.1 + 22315 0.66 0.620133
Target:  5'- cGCCGGCCGCC--AugCCAagcagcgcGGCCa -3'
miRNA:   3'- uCGGCUGGCGGacUugGGUacu-----UCGG- -5'
12163 3' -56.7 NC_003309.1 + 7481 0.66 0.61029
Target:  5'- cGCCGGCCGUCgccAACCCGgcgcauccuucuGCCg -3'
miRNA:   3'- uCGGCUGGCGGac-UUGGGUacuu--------CGG- -5'
12163 3' -56.7 NC_003309.1 + 32185 0.66 0.609197
Target:  5'- cGCCGacGCCGCCcGcACCCAaGAgAGCa -3'
miRNA:   3'- uCGGC--UGGCGGaCuUGGGUaCU-UCGg -5'
12163 3' -56.7 NC_003309.1 + 1757 0.66 0.598281
Target:  5'- uGCCG-CCGCCcgucGAugUCGUGccagaaAAGCCg -3'
miRNA:   3'- uCGGCuGGCGGa---CUugGGUAC------UUCGG- -5'
12163 3' -56.7 NC_003309.1 + 3851 0.66 0.598281
Target:  5'- aGGuuGAgCGCCUGAuucGCCCAUu--GCa -3'
miRNA:   3'- -UCggCUgGCGGACU---UGGGUAcuuCGg -5'
12163 3' -56.7 NC_003309.1 + 52637 0.67 0.53367
Target:  5'- uGCUGGCCGUCaaacCCCGUGGAgguGCCu -3'
miRNA:   3'- uCGGCUGGCGGacuuGGGUACUU---CGG- -5'
12163 3' -56.7 NC_003309.1 + 12675 0.67 0.53367
Target:  5'- cGCCGAcCCGCCaGucgGCCUgcaAUGcGAGCCg -3'
miRNA:   3'- uCGGCU-GGCGGaCu--UGGG---UAC-UUCGG- -5'
12163 3' -56.7 NC_003309.1 + 47735 0.68 0.480782
Target:  5'- gGGCCGGCCGCCUugacGAcgcgcgccuugaaACgCAUGAAcacuucGCCc -3'
miRNA:   3'- -UCGGCUGGCGGA----CU-------------UGgGUACUU------CGG- -5'
12163 3' -56.7 NC_003309.1 + 12933 0.68 0.478759
Target:  5'- cGCCGAcggcaucggagacaCCGCC-GAAuCCCAaagcGGAGCCg -3'
miRNA:   3'- uCGGCU--------------GGCGGaCUU-GGGUa---CUUCGG- -5'
12163 3' -56.7 NC_003309.1 + 11574 0.69 0.451866
Target:  5'- cAGCCGcacGCCGUCggcagcguCCCGUGcGGCCa -3'
miRNA:   3'- -UCGGC---UGGCGGacuu----GGGUACuUCGG- -5'
12163 3' -56.7 NC_003309.1 + 10321 0.69 0.422982
Target:  5'- cGCCGGgCGCC--GACCCAcgcUGucGCCg -3'
miRNA:   3'- uCGGCUgGCGGacUUGGGU---ACuuCGG- -5'
12163 3' -56.7 NC_003309.1 + 1196 0.7 0.413603
Target:  5'- cGCCG-UCGCCUGGguuGCCgAUGAucGGCUc -3'
miRNA:   3'- uCGGCuGGCGGACU---UGGgUACU--UCGG- -5'
12163 3' -56.7 NC_003309.1 + 7210 0.7 0.38625
Target:  5'- cGCCGgcaguACCGCCgUGAugUCGUaAAGCCu -3'
miRNA:   3'- uCGGC-----UGGCGG-ACUugGGUAcUUCGG- -5'
12163 3' -56.7 NC_003309.1 + 519 0.71 0.316267
Target:  5'- uGCCGGCuCGCCgggucGAGCCCcagcauugcgccGAAGCCg -3'
miRNA:   3'- uCGGCUG-GCGGa----CUUGGGua----------CUUCGG- -5'
12163 3' -56.7 NC_003309.1 + 16788 0.76 0.167088
Target:  5'- cGCCGGCCG-UUGAACacggcgaaCGUGAGGCCg -3'
miRNA:   3'- uCGGCUGGCgGACUUGg-------GUACUUCGG- -5'
12163 3' -56.7 NC_003309.1 + 38231 1.11 0.000504
Target:  5'- gAGCCGACCGCCUGAACCCAUGAAGCCc -3'
miRNA:   3'- -UCGGCUGGCGGACUUGGGUACUUCGG- -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.