miRNA display CGI


Results 1 - 20 of 66 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
6880 3' -61.3 NC_001875.2 + 558 0.66 0.619683
Target:  5'- -gUAGCCGGuGGCGUUGUgcaagucguucaaCGCGucGCACa -3'
miRNA:   3'- ugGUCGGUCuCCGCAGCA-------------GCGC--CGUG- -5'
6880 3' -61.3 NC_001875.2 + 1164 1.08 0.000855
Target:  5'- gACCAGCCAGAGGCGUCGUCGCGGCACu -3'
miRNA:   3'- -UGGUCGGUCUCCGCAGCAGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 1385 0.7 0.412679
Target:  5'- cGCguGCUAGcGGUG-CGUCaGCGGCGCc -3'
miRNA:   3'- -UGguCGGUCuCCGCaGCAG-CGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 2537 0.68 0.493458
Target:  5'- cGCCgGGCCGGugaacaacGGCG-CGUCG-GGCGCa -3'
miRNA:   3'- -UGG-UCGGUCu-------CCGCaGCAGCgCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 3097 0.69 0.429933
Target:  5'- uGCaCGcGCCGG-GGCG-CGgcUCGCGGCGCa -3'
miRNA:   3'- -UG-GU-CGGUCuCCGCaGC--AGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 5532 0.66 0.640737
Target:  5'- cGCCGGCCGccguuGAGGCGcgCGUUaaGGUGCc -3'
miRNA:   3'- -UGGUCGGU-----CUCCGCa-GCAGcgCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 6363 0.67 0.560946
Target:  5'- cUCGGCCAcGAuGuCGUCGUCG-GGCACc -3'
miRNA:   3'- uGGUCGGU-CUcC-GCAGCAGCgCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 11915 0.66 0.630711
Target:  5'- -gCGGCgAGcAGGUGUUuugcgCGCGGCGCg -3'
miRNA:   3'- ugGUCGgUC-UCCGCAGca---GCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 12777 0.67 0.551119
Target:  5'- uCCAGCCGG-GGCGcCG-CGCacauGCGCa -3'
miRNA:   3'- uGGUCGGUCuCCGCaGCaGCGc---CGUG- -5'
6880 3' -61.3 NC_001875.2 + 12805 0.67 0.578748
Target:  5'- cGCCGGaCCAGucuacguAGGCGUCuUCgaacacaaacccgGCGGCGCc -3'
miRNA:   3'- -UGGUC-GGUC-------UCCGCAGcAG-------------CGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 20037 0.66 0.640737
Target:  5'- -gCAGCCAGGcGcCGUCGgcCGCGuGCACc -3'
miRNA:   3'- ugGUCGGUCUcC-GCAGCa-GCGC-CGUG- -5'
6880 3' -61.3 NC_001875.2 + 20793 0.71 0.325858
Target:  5'- aGCCGucgacGCgCAGugcgcGGGCGUCGUCGCaGCGCu -3'
miRNA:   3'- -UGGU-----CG-GUC-----UCCGCAGCAGCGcCGUG- -5'
6880 3' -61.3 NC_001875.2 + 21240 0.69 0.429933
Target:  5'- cACCAGUUGGcgaagcugguccAGGCGcgCG-CGCGGCGCg -3'
miRNA:   3'- -UGGUCGGUC------------UCCGCa-GCaGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 21932 0.67 0.570819
Target:  5'- --uGGCUAagcGGGGCGUuaaaCGuUCGCGGCGCg -3'
miRNA:   3'- uggUCGGU---CUCCGCA----GC-AGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 28511 0.67 0.570819
Target:  5'- gGCUAGCC-GucGCGcacgCGUCGCccGGCACg -3'
miRNA:   3'- -UGGUCGGuCucCGCa---GCAGCG--CCGUG- -5'
6880 3' -61.3 NC_001875.2 + 33072 0.66 0.630711
Target:  5'- cGCgCGGCucCAGAcuuugauggcGGCGcCGUCGCGGCu- -3'
miRNA:   3'- -UG-GUCG--GUCU----------CCGCaGCAGCGCCGug -5'
6880 3' -61.3 NC_001875.2 + 33461 0.68 0.512398
Target:  5'- gGCCGGCCAGuGGU--CGaaaGUGGCGCg -3'
miRNA:   3'- -UGGUCGGUCuCCGcaGCag-CGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 35380 0.71 0.333164
Target:  5'- -gCAGCUGGAGGCGcugcUGUcCGUGGCGCg -3'
miRNA:   3'- ugGUCGGUCUCCGCa---GCA-GCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 36598 0.7 0.382725
Target:  5'- gGCgCAGCCGcuGcGCGUCGcccuugcaccaccgaUCGCGGCACa -3'
miRNA:   3'- -UG-GUCGGUcuC-CGCAGC---------------AGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 37096 0.66 0.650758
Target:  5'- cACC-GCCGcguGGGUGUgCGggCGCGGCGCc -3'
miRNA:   3'- -UGGuCGGUc--UCCGCA-GCa-GCGCCGUG- -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.