miRNA display CGI


Results 1 - 20 of 30 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
6001 3' -58.7 NC_001806.1 + 1946 0.67 0.749346
Target:  5'- gGUCccgCGCCGcCGGcCAGCgcacGGCgcaCUGCa -3'
miRNA:   3'- gCAGa--GCGGC-GCU-GUCGa---CCGa--GACG- -5'
6001 3' -58.7 NC_001806.1 + 2777 0.68 0.661225
Target:  5'- gGcCUgCGCCGCGGCGGCccggGGCgCcGCg -3'
miRNA:   3'- gCaGA-GCGGCGCUGUCGa---CCGaGaCG- -5'
6001 3' -58.7 NC_001806.1 + 3087 0.69 0.641181
Target:  5'- gGUC-CGCgGCGGCGGCggccgcgGaGCUCgGCa -3'
miRNA:   3'- gCAGaGCGgCGCUGUCGa------C-CGAGaCG- -5'
6001 3' -58.7 NC_001806.1 + 3619 0.67 0.737922
Target:  5'- gCG-CUCGCCcggugcggcggcgGCGACGGC-GGCgacccccucgucaUCUGCg -3'
miRNA:   3'- -GCaGAGCGG-------------CGCUGUCGaCCG-------------AGACG- -5'
6001 3' -58.7 NC_001806.1 + 4650 0.69 0.611082
Target:  5'- aCGUCU--CCGCGGCGGCUgGGC-CgGCg -3'
miRNA:   3'- -GCAGAgcGGCGCUGUCGA-CCGaGaCG- -5'
6001 3' -58.7 NC_001806.1 + 16489 0.68 0.671217
Target:  5'- gGgggCUUGCCGCcGCGGCugaUGGCUCgaGCc -3'
miRNA:   3'- gCa--GAGCGGCGcUGUCG---ACCGAGa-CG- -5'
6001 3' -58.7 NC_001806.1 + 20030 0.66 0.804029
Target:  5'- cCGUC-CGCUcCGACGGCc--CUCUGCg -3'
miRNA:   3'- -GCAGaGCGGcGCUGUCGaccGAGACG- -5'
6001 3' -58.7 NC_001806.1 + 21345 1.11 0.00118
Target:  5'- cCGUCUCGCCGCGACAGCUGGCUCUGCu -3'
miRNA:   3'- -GCAGAGCGGCGCUGUCGACCGAGACG- -5'
6001 3' -58.7 NC_001806.1 + 23970 0.66 0.795241
Target:  5'- gGUC-CGCCGagcGCGGCgGGCUgucCUGCc -3'
miRNA:   3'- gCAGaGCGGCgc-UGUCGaCCGA---GACG- -5'
6001 3' -58.7 NC_001806.1 + 29954 0.67 0.749346
Target:  5'- aGUCgcgaGCCGCGGCGccGCggggGGCgUCUGg -3'
miRNA:   3'- gCAGag--CGGCGCUGU--CGa---CCG-AGACg -5'
6001 3' -58.7 NC_001806.1 + 33717 0.67 0.758758
Target:  5'- uGcCUCuGCCGCuuguGAguGCgcgcgccGGCUCUGCg -3'
miRNA:   3'- gCaGAG-CGGCG----CUguCGa------CCGAGACG- -5'
6001 3' -58.7 NC_001806.1 + 38068 0.73 0.412865
Target:  5'- gCGUC-CGCCGCGGgcaGGCUgGGCUUUGg -3'
miRNA:   3'- -GCAGaGCGGCGCUg--UCGA-CCGAGACg -5'
6001 3' -58.7 NC_001806.1 + 38376 0.67 0.719579
Target:  5'- uGUCcgauuccaggUCGUCGCGGCGGCUcuccgccGGCUCg-- -3'
miRNA:   3'- gCAG----------AGCGGCGCUGUCGA-------CCGAGacg -5'
6001 3' -58.7 NC_001806.1 + 42232 0.67 0.768062
Target:  5'- cCGgC-CGCCGCGGCcccgcgGGCguacUGGCUCgUGCa -3'
miRNA:   3'- -GCaGaGCGGCGCUG------UCG----ACCGAG-ACG- -5'
6001 3' -58.7 NC_001806.1 + 42648 0.67 0.730235
Target:  5'- gCGUC-CGgUGCGGgGGCUGGCgUUGUu -3'
miRNA:   3'- -GCAGaGCgGCGCUgUCGACCGaGACG- -5'
6001 3' -58.7 NC_001806.1 + 46420 0.67 0.749346
Target:  5'- gCGUCUucugCGCCGCGGuCGGgcgcCUGGCggccaUGCa -3'
miRNA:   3'- -GCAGA----GCGGCGCU-GUC----GACCGag---ACG- -5'
6001 3' -58.7 NC_001806.1 + 50717 0.7 0.581119
Target:  5'- uCGUCcUGCaGCGGCuGCUGGgCUUUGCc -3'
miRNA:   3'- -GCAGaGCGgCGCUGuCGACC-GAGACG- -5'
6001 3' -58.7 NC_001806.1 + 60036 0.7 0.571193
Target:  5'- cCGUC-CGCCGCGcccucgaAGCcGGCcCUGCg -3'
miRNA:   3'- -GCAGaGCGGCGCug-----UCGaCCGaGACG- -5'
6001 3' -58.7 NC_001806.1 + 69259 0.77 0.241686
Target:  5'- cCGcCggCGCCcagcaGCGGCuGCUGGCUCUGCu -3'
miRNA:   3'- -GCaGa-GCGG-----CGCUGuCGACCGAGACG- -5'
6001 3' -58.7 NC_001806.1 + 82703 0.67 0.748399
Target:  5'- aG-CUCGCCGUGcacacacGCGGUguccgGGgUCUGCg -3'
miRNA:   3'- gCaGAGCGGCGC-------UGUCGa----CCgAGACG- -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.