miRNA display CGI


Results 1 - 20 of 82 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
23593 3' -59.8 NC_005261.1 + 82255 0.66 0.706652
Target:  5'- aCGCG-CAGGGUCUuCUCCAGCucccGCc- -3'
miRNA:   3'- -GCGUgGUCCCAGAuGGGGUCGu---CGua -5'
23593 3' -59.8 NC_005261.1 + 103281 0.66 0.700648
Target:  5'- gCGCGCCGGGuGcCgcgcgcaGCCCCgcgaagcccugcagcGGCAGCAg -3'
miRNA:   3'- -GCGUGGUCC-CaGa------UGGGG---------------UCGUCGUa -5'
23593 3' -59.8 NC_005261.1 + 36160 0.66 0.696633
Target:  5'- gCGCAUgcgCGGGGcuuuuaUGCCgCCGGCAGCGc -3'
miRNA:   3'- -GCGUG---GUCCCag----AUGG-GGUCGUCGUa -5'
23593 3' -59.8 NC_005261.1 + 110448 0.66 0.686561
Target:  5'- cCGCACCGGGcGUUugggUGCCUgGGCGGg-- -3'
miRNA:   3'- -GCGUGGUCC-CAG----AUGGGgUCGUCgua -5'
23593 3' -59.8 NC_005261.1 + 85994 0.66 0.685551
Target:  5'- uGCGCCgccgacgGGGcGUCgUGCgCCAGCAGCc- -3'
miRNA:   3'- gCGUGG-------UCC-CAG-AUGgGGUCGUCGua -5'
23593 3' -59.8 NC_005261.1 + 101735 0.66 0.676443
Target:  5'- cCGCgAUCAGGGcCUcgcucggcaGCUCCAGguGCAc -3'
miRNA:   3'- -GCG-UGGUCCCaGA---------UGGGGUCguCGUa -5'
23593 3' -59.8 NC_005261.1 + 39173 0.66 0.676443
Target:  5'- aCGCGCUcGGGcccgaCUcgcGCCCCGGCgAGCAg -3'
miRNA:   3'- -GCGUGGuCCCa----GA---UGGGGUCG-UCGUa -5'
23593 3' -59.8 NC_005261.1 + 39560 0.66 0.67543
Target:  5'- gCGCGCgCGGcGGUCUGucccccucucccuCCCCAGCgccgAGCGc -3'
miRNA:   3'- -GCGUG-GUC-CCAGAU-------------GGGGUCG----UCGUa -5'
23593 3' -59.8 NC_005261.1 + 102775 0.66 0.66629
Target:  5'- gCGCGCCcGaGGcCUcGCCCCGGCcGCGa -3'
miRNA:   3'- -GCGUGGuC-CCaGA-UGGGGUCGuCGUa -5'
23593 3' -59.8 NC_005261.1 + 104660 0.66 0.66629
Target:  5'- aCGCGCUggcGGGcGUgUGCUgCGGCAGCGc -3'
miRNA:   3'- -GCGUGG---UCC-CAgAUGGgGUCGUCGUa -5'
23593 3' -59.8 NC_005261.1 + 106803 0.66 0.66629
Target:  5'- cCGCACCAGcGcCgagugGCCcgCCAGCAGCGc -3'
miRNA:   3'- -GCGUGGUCcCaGa----UGG--GGUCGUCGUa -5'
23593 3' -59.8 NC_005261.1 + 58006 0.66 0.656109
Target:  5'- aGCGCCAGGacguggaagUGCCgCGGCGGCAg -3'
miRNA:   3'- gCGUGGUCCcag------AUGGgGUCGUCGUa -5'
23593 3' -59.8 NC_005261.1 + 33065 0.67 0.645909
Target:  5'- gGCGCCGGGGaCgcgGCgCUGGCGGCc- -3'
miRNA:   3'- gCGUGGUCCCaGa--UGgGGUCGUCGua -5'
23593 3' -59.8 NC_005261.1 + 31039 0.67 0.645909
Target:  5'- gCGCGCCGccGGGU---CCCCAGCgcGGCGg -3'
miRNA:   3'- -GCGUGGU--CCCAgauGGGGUCG--UCGUa -5'
23593 3' -59.8 NC_005261.1 + 15927 0.67 0.645909
Target:  5'- gGgGCCGGGGcCgggGCCCgGGCAGgAg -3'
miRNA:   3'- gCgUGGUCCCaGa--UGGGgUCGUCgUa -5'
23593 3' -59.8 NC_005261.1 + 96630 0.67 0.635698
Target:  5'- aGcCGCCGGGcGaUCUucucgcagGCCuCCAGCAGCAg -3'
miRNA:   3'- gC-GUGGUCC-C-AGA--------UGG-GGUCGUCGUa -5'
23593 3' -59.8 NC_005261.1 + 14926 0.67 0.635698
Target:  5'- gGCACCAGGaUCgACgCCAGCuGGCGc -3'
miRNA:   3'- gCGUGGUCCcAGaUGgGGUCG-UCGUa -5'
23593 3' -59.8 NC_005261.1 + 85235 0.67 0.635698
Target:  5'- cCGCGCCGGcaucuGGUUgcGCUgCAGCAGCGUc -3'
miRNA:   3'- -GCGUGGUC-----CCAGa-UGGgGUCGUCGUA- -5'
23593 3' -59.8 NC_005261.1 + 52436 0.67 0.625484
Target:  5'- cCGCGuCCAGGGcCacgagguCCCCGGCGcGCGUc -3'
miRNA:   3'- -GCGU-GGUCCCaGau-----GGGGUCGU-CGUA- -5'
23593 3' -59.8 NC_005261.1 + 124103 0.67 0.625484
Target:  5'- gCGCGCaCAGGGcCggcACCgCAGuCAGCAUc -3'
miRNA:   3'- -GCGUG-GUCCCaGa--UGGgGUC-GUCGUA- -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.