miRNA display CGI


Results 1 - 20 of 28 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
25037 5' -56.5 NC_005336.1 + 58988 0.77 0.296294
Target:  5'- gGUCCUGG-CGCCcGC-UGGUGGAGGCu -3'
miRNA:   3'- -CAGGAUCaGCGGuUGcACCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 128105 0.66 0.885044
Target:  5'- aUCCg---CGCCuGCGaGGCGGAGGu -3'
miRNA:   3'- cAGGaucaGCGGuUGCaCCGCCUCUg -5'
25037 5' -56.5 NC_005336.1 + 65977 0.66 0.877979
Target:  5'- -aCCgcGUCGCgGcCGUGGCcggcgccguGGAGGCg -3'
miRNA:   3'- caGGauCAGCGgUuGCACCG---------CCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 64699 0.66 0.870692
Target:  5'- uUCCUGGacuucgaguUCGCC-----GGCGGAGACg -3'
miRNA:   3'- cAGGAUC---------AGCGGuugcaCCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 79727 0.66 0.855476
Target:  5'- uGUCCgcggcggAGUUcacgGCC-ACGUGGCGGAuGAg -3'
miRNA:   3'- -CAGGa------UCAG----CGGuUGCACCGCCU-CUg -5'
25037 5' -56.5 NC_005336.1 + 50396 0.66 0.847558
Target:  5'- -gCCUcGUCGCCcgccggcuGCGcGGCGGGcGACg -3'
miRNA:   3'- caGGAuCAGCGGu-------UGCaCCGCCU-CUG- -5'
25037 5' -56.5 NC_005336.1 + 74573 0.66 0.846756
Target:  5'- uGUCCggagAGUCGCCGcuggcguGCGUGcuGCGcGAGGu -3'
miRNA:   3'- -CAGGa---UCAGCGGU-------UGCAC--CGC-CUCUg -5'
25037 5' -56.5 NC_005336.1 + 73698 0.67 0.831138
Target:  5'- uUCCg---CGgCAACGUcGCGGAGGCg -3'
miRNA:   3'- cAGGaucaGCgGUUGCAcCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 125065 0.67 0.796169
Target:  5'- cUCgcGGUCGCCggUGUGGCuGGcGGCa -3'
miRNA:   3'- cAGgaUCAGCGGuuGCACCG-CCuCUG- -5'
25037 5' -56.5 NC_005336.1 + 125351 0.68 0.767394
Target:  5'- cGUCCgcacGUCGCgCGaaccgcaguguggACGcUGGCGGAGAUu -3'
miRNA:   3'- -CAGGau--CAGCG-GU-------------UGC-ACCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 105526 0.72 0.546418
Target:  5'- -cCCcAGUCGCCGcgcGCGUGcGCcGGGGGCa -3'
miRNA:   3'- caGGaUCAGCGGU---UGCAC-CG-CCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 123615 0.71 0.576735
Target:  5'- aGUCCgUGGgCGCCAACGUGGCGa---- -3'
miRNA:   3'- -CAGG-AUCaGCGGUUGCACCGCcucug -5'
25037 5' -56.5 NC_005336.1 + 56822 0.71 0.583867
Target:  5'- uUCCUGGUcuucgugaaaccggCGCCcuCGgaGGCGGAGGCg -3'
miRNA:   3'- cAGGAUCA--------------GCGGuuGCa-CCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 65141 0.7 0.669042
Target:  5'- -cCCUGGcCGCCAcgcuGCGccUGGCcucGGAGACg -3'
miRNA:   3'- caGGAUCaGCGGU----UGC--ACCG---CCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 114525 0.69 0.693493
Target:  5'- -cCCUAGUCGCUgggacagcgacagcgAGgGUGaCGGAGACa -3'
miRNA:   3'- caGGAUCAGCGG---------------UUgCACcGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 103549 0.68 0.749164
Target:  5'- cUCgUGGUCGagaaCGGCGUGcucgucauggacGCGGAGGCg -3'
miRNA:   3'- cAGgAUCAGCg---GUUGCAC------------CGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 131748 1.1 0.001935
Target:  5'- aGUCCUAGUCGCCAACGUGGCGGAGACg -3'
miRNA:   3'- -CAGGAUCAGCGGUUGCACCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 88597 0.66 0.885044
Target:  5'- uGUCCUcGGUgaaGCCGuagacGGCGGAGACc -3'
miRNA:   3'- -CAGGA-UCAg--CGGUugca-CCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 40194 0.66 0.877979
Target:  5'- -aCCcGGUCGCC-GCGc-GCGGAGAUc -3'
miRNA:   3'- caGGaUCAGCGGuUGCacCGCCUCUG- -5'
25037 5' -56.5 NC_005336.1 + 62054 0.66 0.870692
Target:  5'- cGUCaUGGUCGCCAGCGagccgcGGCGcGcGGCc -3'
miRNA:   3'- -CAGgAUCAGCGGUUGCa-----CCGC-CuCUG- -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.