miRNA display CGI


Results 1 - 20 of 56 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
23816 3' -57.1 NC_005261.1 + 4945 0.66 0.847836
Target:  5'- ---cCGCGCCGCGGcccAGGCGCCc- -3'
miRNA:   3'- agaaGUGUGGCGCUccaUCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 70641 0.66 0.847836
Target:  5'- ----aGCGCCGCggcgcuGAGGUucGGCGCCg- -3'
miRNA:   3'- agaagUGUGGCG------CUCCAu-CCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 120300 0.66 0.839698
Target:  5'- uUCUUCGaggGCgGCGAGGcugucugcgAGGCGCgCUGc -3'
miRNA:   3'- -AGAAGUg--UGgCGCUCCa--------UCCGCG-GAU- -5'
23816 3' -57.1 NC_005261.1 + 58156 0.66 0.839698
Target:  5'- aUCUUCACGCgCGagucgcugcgcaCGAGGUgcAGGCaGCCc- -3'
miRNA:   3'- -AGAAGUGUG-GC------------GCUCCA--UCCG-CGGau -5'
23816 3' -57.1 NC_005261.1 + 15141 0.66 0.822855
Target:  5'- cCUUCGCccccGCCGUccgcggugGGGGUGGGCGUa-- -3'
miRNA:   3'- aGAAGUG----UGGCG--------CUCCAUCCGCGgau -5'
23816 3' -57.1 NC_005261.1 + 19231 0.66 0.822855
Target:  5'- gUCcUCACcCCGCGAGacugcggGGGCGCUg- -3'
miRNA:   3'- -AGaAGUGuGGCGCUCca-----UCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 68076 0.66 0.814164
Target:  5'- gUCUcggUCGC-CCGCGGGGgcgGGGagGCCg- -3'
miRNA:   3'- -AGA---AGUGuGGCGCUCCa--UCCg-CGGau -5'
23816 3' -57.1 NC_005261.1 + 4530 0.66 0.814164
Target:  5'- ----gGCGCCGCGGcGaGGGCGCCg- -3'
miRNA:   3'- agaagUGUGGCGCUcCaUCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 32277 0.66 0.814164
Target:  5'- ----gGCGCCGCcgcuggugcugGAGGcGGGCGCCg- -3'
miRNA:   3'- agaagUGUGGCG-----------CUCCaUCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 50631 0.66 0.805306
Target:  5'- gCUcCACGCgggcgGCGGGGU-GGCGCCg- -3'
miRNA:   3'- aGAaGUGUGg----CGCUCCAuCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 99003 0.66 0.805306
Target:  5'- aUCUUCAgCGUCGCGAGcGgcGGCGCg-- -3'
miRNA:   3'- -AGAAGU-GUGGCGCUC-CauCCGCGgau -5'
23816 3' -57.1 NC_005261.1 + 41445 0.66 0.805306
Target:  5'- aCUUCGCAgUGCGGuGGacuGGCGuCCUGg -3'
miRNA:   3'- aGAAGUGUgGCGCU-CCau-CCGC-GGAU- -5'
23816 3' -57.1 NC_005261.1 + 13427 0.66 0.805306
Target:  5'- ---gCGCACCGCGcgucgaccGGGUGcaggcaggccGGCGCCUc -3'
miRNA:   3'- agaaGUGUGGCGC--------UCCAU----------CCGCGGAu -5'
23816 3' -57.1 NC_005261.1 + 118913 0.67 0.796288
Target:  5'- gUCUgggUCcgGCGCCGCGGGcgcGGCGCCg- -3'
miRNA:   3'- -AGA---AG--UGUGGCGCUCcauCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 75201 0.67 0.796288
Target:  5'- cCUUCAUggcgGCCGCGGuGgcGGCGCUg- -3'
miRNA:   3'- aGAAGUG----UGGCGCUcCauCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 103914 0.67 0.796288
Target:  5'- ---cCGCGCCGCcAGGUcGGGCGCg-- -3'
miRNA:   3'- agaaGUGUGGCGcUCCA-UCCGCGgau -5'
23816 3' -57.1 NC_005261.1 + 16277 0.67 0.787119
Target:  5'- gCUUCGgcuCGCC-CGGGG-GGGCGCCg- -3'
miRNA:   3'- aGAAGU---GUGGcGCUCCaUCCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 126759 0.67 0.787119
Target:  5'- ----gGCACCGCcAGGUAcauGGCGCCc- -3'
miRNA:   3'- agaagUGUGGCGcUCCAU---CCGCGGau -5'
23816 3' -57.1 NC_005261.1 + 121376 0.67 0.787119
Target:  5'- aCUgcaggCGCcCCGCGGcGgcGGCGCCUGc -3'
miRNA:   3'- aGAa----GUGuGGCGCUcCauCCGCGGAU- -5'
23816 3' -57.1 NC_005261.1 + 124241 0.67 0.787119
Target:  5'- ---cCGcCGCCGCG-GGcAGGCGCCg- -3'
miRNA:   3'- agaaGU-GUGGCGCuCCaUCCGCGGau -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.