miRNA display CGI


Results 1 - 20 of 77 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
23773 3' -57.5 NC_005261.1 + 103025 0.66 0.884435
Target:  5'- cUCUCGAagaACG-CGCGGGccGCAgggCCCa -3'
miRNA:   3'- -AGAGCUgc-UGCaGCGCCC--UGUa--GGGc -5'
23773 3' -57.5 NC_005261.1 + 123272 0.66 0.884435
Target:  5'- --gUGACGAgGU-GCGGGugGUCCg- -3'
miRNA:   3'- agaGCUGCUgCAgCGCCCugUAGGgc -5'
23773 3' -57.5 NC_005261.1 + 134742 0.66 0.883076
Target:  5'- aCUCGGCGACGgcacccgcgaccCGCGGcGGCAUggCGg -3'
miRNA:   3'- aGAGCUGCUGCa-----------GCGCC-CUGUAggGC- -5'
23773 3' -57.5 NC_005261.1 + 65352 0.66 0.877557
Target:  5'- --cCGuuGAUGaCGCGGGGCAUggCCCGc -3'
miRNA:   3'- agaGCugCUGCaGCGCCCUGUA--GGGC- -5'
23773 3' -57.5 NC_005261.1 + 64670 0.66 0.877557
Target:  5'- aCUCGucgcCGugGUgCGgcacCGGGcGCGUCCCGg -3'
miRNA:   3'- aGAGCu---GCugCA-GC----GCCC-UGUAGGGC- -5'
23773 3' -57.5 NC_005261.1 + 125976 0.66 0.877557
Target:  5'- gCUCGGCGACGggggcCGCaacauggccucuGGaGuCGUCCCGu -3'
miRNA:   3'- aGAGCUGCUGCa----GCG------------CC-CuGUAGGGC- -5'
23773 3' -57.5 NC_005261.1 + 2486 0.66 0.877557
Target:  5'- gCUCGGgGAaga-GCGGGugGUCCgCGa -3'
miRNA:   3'- aGAGCUgCUgcagCGCCCugUAGG-GC- -5'
23773 3' -57.5 NC_005261.1 + 90886 0.66 0.870471
Target:  5'- gCUgGGCGACGgcauggCGCGGcAgGUCUCGg -3'
miRNA:   3'- aGAgCUGCUGCa-----GCGCCcUgUAGGGC- -5'
23773 3' -57.5 NC_005261.1 + 55174 0.66 0.870471
Target:  5'- --cCGGCGGC-UCGCGGGGCGgaUCGg -3'
miRNA:   3'- agaGCUGCUGcAGCGCCCUGUagGGC- -5'
23773 3' -57.5 NC_005261.1 + 38414 0.66 0.870471
Target:  5'- cCUCGcCGcUGUCGCGGG-CG-CCCu -3'
miRNA:   3'- aGAGCuGCuGCAGCGCCCuGUaGGGc -5'
23773 3' -57.5 NC_005261.1 + 128504 0.66 0.870471
Target:  5'- gCUCGACG-CGgcgGCGGaGGCAgccUCCUGg -3'
miRNA:   3'- aGAGCUGCuGCag-CGCC-CUGU---AGGGC- -5'
23773 3' -57.5 NC_005261.1 + 136440 0.66 0.870471
Target:  5'- cCUCG-CgGGCGUCGCaGGGGCAcgcggcagCCCc -3'
miRNA:   3'- aGAGCuG-CUGCAGCG-CCCUGUa-------GGGc -5'
23773 3' -57.5 NC_005261.1 + 84952 0.66 0.870471
Target:  5'- cCUCGGCGGCcgccgaggCGuCGGGcGCGUCCgCGa -3'
miRNA:   3'- aGAGCUGCUGca------GC-GCCC-UGUAGG-GC- -5'
23773 3' -57.5 NC_005261.1 + 132118 0.66 0.870471
Target:  5'- gCUCGugGAgCGggacgCGCGGcuGACcgCCCu -3'
miRNA:   3'- aGAGCugCU-GCa----GCGCC--CUGuaGGGc -5'
23773 3' -57.5 NC_005261.1 + 50908 0.66 0.86758
Target:  5'- cCUUGAuCGGCGccgccucgccgggCGCGGGGC-UCCCc -3'
miRNA:   3'- aGAGCU-GCUGCa------------GCGCCCUGuAGGGc -5'
23773 3' -57.5 NC_005261.1 + 127743 0.66 0.86392
Target:  5'- gCUUGGCGGCGggaGCGGGccGCGgcgggcgcgaagacgCCCGg -3'
miRNA:   3'- aGAGCUGCUGCag-CGCCC--UGUa--------------GGGC- -5'
23773 3' -57.5 NC_005261.1 + 33601 0.66 0.863182
Target:  5'- ---gGGCGGCGccggCGCGGGcgGCGgggCCCGg -3'
miRNA:   3'- agagCUGCUGCa---GCGCCC--UGUa--GGGC- -5'
23773 3' -57.5 NC_005261.1 + 63006 0.66 0.863182
Target:  5'- cCUCGGCGGCcgcgcccgCGCGGGcgccgGCG-CCCGc -3'
miRNA:   3'- aGAGCUGCUGca------GCGCCC-----UGUaGGGC- -5'
23773 3' -57.5 NC_005261.1 + 94407 0.66 0.863182
Target:  5'- cCUCGacgaagggcGCGACGUcCGCGGcGCcgCCCc -3'
miRNA:   3'- aGAGC---------UGCUGCA-GCGCCcUGuaGGGc -5'
23773 3' -57.5 NC_005261.1 + 60840 0.66 0.863182
Target:  5'- aUCggcggCGGCGAgGUCGCGcgccGGGCcgagCCCGc -3'
miRNA:   3'- -AGa----GCUGCUgCAGCGC----CCUGua--GGGC- -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.