miRNA display CGI


Results 1 - 17 of 17 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
21233 3' -61.8 NC_004778.3 + 95404 0.66 0.63988
Target:  5'- cGGUCGCCGcggcgCACCauGCCCGaGUcCGCg- -3'
miRNA:   3'- -CUAGCGGCa----GUGG--CGGGC-CGaGCGac -5'
21233 3' -61.8 NC_004778.3 + 111733 0.66 0.63988
Target:  5'- cGcgCGCCGUCcgugacuuugGCgCGCCCGG-UCGCc- -3'
miRNA:   3'- -CuaGCGGCAG----------UG-GCGGGCCgAGCGac -5'
21233 3' -61.8 NC_004778.3 + 124516 0.66 0.629929
Target:  5'- cGUCaGCCGcCGCCgGUCCGGUcuUCGCg- -3'
miRNA:   3'- cUAG-CGGCaGUGG-CGGGCCG--AGCGac -5'
21233 3' -61.8 NC_004778.3 + 116744 0.66 0.623959
Target:  5'- uAUCGCCaaagcUCGCCGCCgguCGGCUgacuggcgacguguaCGCUGu -3'
miRNA:   3'- cUAGCGGc----AGUGGCGG---GCCGA---------------GCGAC- -5'
21233 3' -61.8 NC_004778.3 + 112507 0.66 0.619981
Target:  5'- ---aGCCGgugcaugugCGCCGCguaaCGGCUCGCg- -3'
miRNA:   3'- cuagCGGCa--------GUGGCGg---GCCGAGCGac -5'
21233 3' -61.8 NC_004778.3 + 68301 0.66 0.594172
Target:  5'- cGAUgCGCCGUCGCCGacgugcgagaguaCGGC-CGCUu -3'
miRNA:   3'- -CUA-GCGGCAGUGGCgg-----------GCCGaGCGAc -5'
21233 3' -61.8 NC_004778.3 + 121431 0.66 0.590214
Target:  5'- cGUCgGCCGugUCGCCGCCguCGGCgccgCGCa- -3'
miRNA:   3'- cUAG-CGGC--AGUGGCGG--GCCGa---GCGac -5'
21233 3' -61.8 NC_004778.3 + 90720 0.67 0.560706
Target:  5'- aAUCGgCG-CugCGCUCGGCggcgagCGCUGc -3'
miRNA:   3'- cUAGCgGCaGugGCGGGCCGa-----GCGAC- -5'
21233 3' -61.8 NC_004778.3 + 103899 0.67 0.541258
Target:  5'- uGUCGCUGUCGCUGCCCcacuGGUcuaugagcuccUCGCc- -3'
miRNA:   3'- cUAGCGGCAGUGGCGGG----CCG-----------AGCGac -5'
21233 3' -61.8 NC_004778.3 + 68464 0.67 0.530658
Target:  5'- --cCGCCGcCGCCGCCgcCGGCguugccgUCGUUGu -3'
miRNA:   3'- cuaGCGGCaGUGGCGG--GCCG-------AGCGAC- -5'
21233 3' -61.8 NC_004778.3 + 124184 0.68 0.502154
Target:  5'- uGggCGuuGUUgugaacaaACCGCaaagucaCCGGCUCGCUGg -3'
miRNA:   3'- -CuaGCggCAG--------UGGCG-------GGCCGAGCGAC- -5'
21233 3' -61.8 NC_004778.3 + 116911 0.69 0.430657
Target:  5'- cGUCGCCaGUCAgCCGCaCCGGCggcgaGCUu -3'
miRNA:   3'- cUAGCGG-CAGU-GGCG-GGCCGag---CGAc -5'
21233 3' -61.8 NC_004778.3 + 127066 0.7 0.388609
Target:  5'- cGAgcgUGCCGUCguGCaCGCCCGGCgagUGCUc -3'
miRNA:   3'- -CUa--GCGGCAG--UG-GCGGGCCGa--GCGAc -5'
21233 3' -61.8 NC_004778.3 + 76285 0.71 0.349347
Target:  5'- --aCGCCGcgCGCCGUgaaCGGCUCGCa- -3'
miRNA:   3'- cuaGCGGCa-GUGGCGg--GCCGAGCGac -5'
21233 3' -61.8 NC_004778.3 + 117961 0.72 0.299277
Target:  5'- cGUCGCUGgugCGCCGCuuGcGCUUGUUGg -3'
miRNA:   3'- cUAGCGGCa--GUGGCGggC-CGAGCGAC- -5'
21233 3' -61.8 NC_004778.3 + 43574 0.75 0.182513
Target:  5'- uGGUCGCUGUCGUCGCuguccgCCGGCUCGCa- -3'
miRNA:   3'- -CUAGCGGCAGUGGCG------GGCCGAGCGac -5'
21233 3' -61.8 NC_004778.3 + 65916 1.06 0.001118
Target:  5'- uGAUCGCCGUCACCGCCCGGCUCGCUGc -3'
miRNA:   3'- -CUAGCGGCAGUGGCGGGCCGAGCGAC- -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.