miRNA display CGI


Results 1 - 13 of 13 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
13278 3' -51.7 NC_003409.1 + 106148 0.66 0.987458
Target:  5'- uGCGCACGC-UCguggagcacCUGAcccUGGuuGAGGCg -3'
miRNA:   3'- -CGCGUGCGcAGaa-------GACU---ACCu-CUUCG- -5'
13278 3' -51.7 NC_003409.1 + 4436 0.66 0.981995
Target:  5'- aUGUugGCGUCUccucUCUGAUucuucuGAGGCa -3'
miRNA:   3'- cGCGugCGCAGA----AGACUAccu---CUUCG- -5'
13278 3' -51.7 NC_003409.1 + 74153 0.66 0.979599
Target:  5'- uGUGCACGCcacggauGUCgccacgUCUGAgGGAccaucgGAGGCa -3'
miRNA:   3'- -CGCGUGCG-------CAGa-----AGACUaCCU------CUUCG- -5'
13278 3' -51.7 NC_003409.1 + 100019 0.67 0.971867
Target:  5'- cCGCAgacaccugagaccCGCGUCgcUCUGGUGGGacAGCu -3'
miRNA:   3'- cGCGU-------------GCGCAGa-AGACUACCUcuUCG- -5'
13278 3' -51.7 NC_003409.1 + 104843 0.67 0.965991
Target:  5'- cGCGgGCGCGUUUcgUCUugugauugGGUGGAGucccuGCg -3'
miRNA:   3'- -CGCgUGCGCAGA--AGA--------CUACCUCuu---CG- -5'
13278 3' -51.7 NC_003409.1 + 6935 0.7 0.914997
Target:  5'- cGUGUGCGUuuuGUCgUCUGAggaGGGGGAGUa -3'
miRNA:   3'- -CGCGUGCG---CAGaAGACUa--CCUCUUCG- -5'
13278 3' -51.7 NC_003409.1 + 109743 0.7 0.908852
Target:  5'- cGCGCggggaaaaacagACGCG-CUUCUGGcgUGGcGAAGUg -3'
miRNA:   3'- -CGCG------------UGCGCaGAAGACU--ACCuCUUCG- -5'
13278 3' -51.7 NC_003409.1 + 59013 0.71 0.866818
Target:  5'- gGCGCGgGCucugGUCUUUgcugGGAGggGCg -3'
miRNA:   3'- -CGCGUgCG----CAGAAGacuaCCUCuuCG- -5'
13278 3' -51.7 NC_003409.1 + 107993 0.71 0.850951
Target:  5'- aUGCGCGCGUacUCUG-UGGcaGGGAGCu -3'
miRNA:   3'- cGCGUGCGCAgaAGACuACC--UCUUCG- -5'
13278 3' -51.7 NC_003409.1 + 79891 0.72 0.834238
Target:  5'- aGUGCACGCGUC--CUGAuuUGGuGguGCg -3'
miRNA:   3'- -CGCGUGCGCAGaaGACU--ACCuCuuCG- -5'
13278 3' -51.7 NC_003409.1 + 134660 0.72 0.825584
Target:  5'- aCGCACGCGU----UGGUGGAGgcGUg -3'
miRNA:   3'- cGCGUGCGCAgaagACUACCUCuuCG- -5'
13278 3' -51.7 NC_003409.1 + 12077 0.74 0.740362
Target:  5'- uCGUACGCGcgcaagauuuuUUUUCUGAccggcucggUGGAGAAGCc -3'
miRNA:   3'- cGCGUGCGC-----------AGAAGACU---------ACCUCUUCG- -5'
13278 3' -51.7 NC_003409.1 + 22388 1.15 0.002799
Target:  5'- gGCGCACGCGUCUUCUGAUGGAGAAGCa -3'
miRNA:   3'- -CGCGUGCGCAGAAGACUACCUCUUCG- -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.