miRNA display CGI


Results 1 - 17 of 17 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
7318 5' -54.2 NC_001900.1 + 33339 0.7 0.504131
Target:  5'- uGCUGGgCaGGgggaucccaggGCGACUCAGUCGGcgucuGCUg -3'
miRNA:   3'- -CGACCgG-CCa----------UGCUGAGUCAGCU-----UGA- -5'
7318 5' -54.2 NC_001900.1 + 45434 0.66 0.774448
Target:  5'- --cGGCCaugccggGGUAgGGCUCaauguuggGGUCGAACUc -3'
miRNA:   3'- cgaCCGG-------CCAUgCUGAG--------UCAGCUUGA- -5'
7318 5' -54.2 NC_001900.1 + 4871 0.66 0.765248
Target:  5'- aCUGGaucggaaaCCGGUACGGCUCGacugaGAGCUu -3'
miRNA:   3'- cGACC--------GGCCAUGCUGAGUcag--CUUGA- -5'
7318 5' -54.2 NC_001900.1 + 23328 0.66 0.753851
Target:  5'- gGCUGGgccgaguucuauaCCGGcgGCGGCUaCGGaUCGGGCa -3'
miRNA:   3'- -CGACC-------------GGCCa-UGCUGA-GUC-AGCUUGa -5'
7318 5' -54.2 NC_001900.1 + 20969 0.67 0.690497
Target:  5'- cCUGGCUGGagACGGCcaGGUCGAAg- -3'
miRNA:   3'- cGACCGGCCa-UGCUGagUCAGCUUga -5'
7318 5' -54.2 NC_001900.1 + 23940 0.67 0.679496
Target:  5'- aGC-GGUcuCGGUGCGGCUCGGUCc---- -3'
miRNA:   3'- -CGaCCG--GCCAUGCUGAGUCAGcuuga -5'
7318 5' -54.2 NC_001900.1 + 23279 0.68 0.646259
Target:  5'- cGCUGGCgGGgAUGACU---UCGAGCg -3'
miRNA:   3'- -CGACCGgCCaUGCUGAgucAGCUUGa -5'
7318 5' -54.2 NC_001900.1 + 15421 0.68 0.645148
Target:  5'- --aGGCCGGUguccgucGCGACgacgCGaUCGAGCUg -3'
miRNA:   3'- cgaCCGGCCA-------UGCUGa---GUcAGCUUGA- -5'
7318 5' -54.2 NC_001900.1 + 23738 0.69 0.601805
Target:  5'- cGCUGGCaCGGUcgACGGCaUCgagaaGGUCGAGu- -3'
miRNA:   3'- -CGACCG-GCCA--UGCUG-AG-----UCAGCUUga -5'
7318 5' -54.2 NC_001900.1 + 4761 0.71 0.462883
Target:  5'- cGCUGGCaacaGGUACGGCUaCGG-CGGGg- -3'
miRNA:   3'- -CGACCGg---CCAUGCUGA-GUCaGCUUga -5'
7318 5' -54.2 NC_001900.1 + 23197 1.09 0.001119
Target:  5'- aGCUGGCCGGUACGACUCAGUCGAACUc -3'
miRNA:   3'- -CGACCGGCCAUGCUGAGUCAGCUUGA- -5'
7318 5' -54.2 NC_001900.1 + 37340 0.66 0.754894
Target:  5'- uGCgGGCCGuGUACGACggccCuGUCGGc-- -3'
miRNA:   3'- -CGaCCGGC-CAUGCUGa---GuCAGCUuga -5'
7318 5' -54.2 NC_001900.1 + 6389 0.71 0.433141
Target:  5'- -gUGGCCGGUGCGGCUgcgccgacCAGguugaGAGCg -3'
miRNA:   3'- cgACCGGCCAUGCUGA--------GUCag---CUUGa -5'
7318 5' -54.2 NC_001900.1 + 20316 0.69 0.568707
Target:  5'- cUUGGCCaGGUAgUGGCUCAGcgaGAGCUg -3'
miRNA:   3'- cGACCGG-CCAU-GCUGAGUCag-CUUGA- -5'
7318 5' -54.2 NC_001900.1 + 25529 0.69 0.590734
Target:  5'- gGCUcaGGCCGGUGCGACgacCAag-GAGCUg -3'
miRNA:   3'- -CGA--CCGGCCAUGCUGa--GUcagCUUGA- -5'
7318 5' -54.2 NC_001900.1 + 35136 0.68 0.657366
Target:  5'- cCUGGCCGagGCGGgUCAguuGUCGAGCc -3'
miRNA:   3'- cGACCGGCcaUGCUgAGU---CAGCUUGa -5'
7318 5' -54.2 NC_001900.1 + 38205 0.67 0.679496
Target:  5'- cGCUggGGUCGaGUACGACgUGGUCGAcCUg -3'
miRNA:   3'- -CGA--CCGGC-CAUGCUGaGUCAGCUuGA- -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.