miRNA display CGI


Results 1 - 16 of 16 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
18557 3' -56.3 NC_004682.1 + 50757 0.66 0.623357
Target:  5'- -cGCCCGCga--GGGCggcUCUGAGCCu -3'
miRNA:   3'- cuCGGGCGaagaCCCGa--AGGUUUGGc -5'
18557 3' -56.3 NC_004682.1 + 45849 0.66 0.612271
Target:  5'- uAGCCCuGCggCUGGaagccGCUgucggcgaUCCAGACCGc -3'
miRNA:   3'- cUCGGG-CGaaGACC-----CGA--------AGGUUUGGC- -5'
18557 3' -56.3 NC_004682.1 + 18142 0.66 0.59016
Target:  5'- aGGCCCGCgaagCggccaGGGCggUCCu-GCCGa -3'
miRNA:   3'- cUCGGGCGaa--Ga----CCCGa-AGGuuUGGC- -5'
18557 3' -56.3 NC_004682.1 + 4899 0.66 0.59016
Target:  5'- uGAGCCCGCgcuaCUcGGGCggcaCCAcguACCa -3'
miRNA:   3'- -CUCGGGCGaa--GA-CCCGaa--GGUu--UGGc -5'
18557 3' -56.3 NC_004682.1 + 39607 0.67 0.557285
Target:  5'- cAGCCCGCguagcggUCUuGGCcUCCucGACCGc -3'
miRNA:   3'- cUCGGGCGa------AGAcCCGaAGGu-UUGGC- -5'
18557 3' -56.3 NC_004682.1 + 23006 0.67 0.557285
Target:  5'- gGGGCCguccuuuucgCGUUUCUggGGGUUUCC-GACCGg -3'
miRNA:   3'- -CUCGG----------GCGAAGA--CCCGAAGGuUUGGC- -5'
18557 3' -56.3 NC_004682.1 + 27070 0.67 0.535657
Target:  5'- -cGCCCuCcagUUCUGGGCUuagCCAGggGCCGa -3'
miRNA:   3'- cuCGGGcG---AAGACCCGAa--GGUU--UGGC- -5'
18557 3' -56.3 NC_004682.1 + 38011 0.67 0.524953
Target:  5'- gGGGCCU-CUgc-GGGCUUCUGAGCCGc -3'
miRNA:   3'- -CUCGGGcGAagaCCCGAAGGUUUGGC- -5'
18557 3' -56.3 NC_004682.1 + 46477 0.68 0.514331
Target:  5'- -cGCUCGCUcacggUCUGGGCgaagccugcgaUCCAGGCgCGg -3'
miRNA:   3'- cuCGGGCGA-----AGACCCGa----------AGGUUUG-GC- -5'
18557 3' -56.3 NC_004682.1 + 3906 0.68 0.493359
Target:  5'- cAGCCCGCUUCggcGGGCcUCauuGAUCu -3'
miRNA:   3'- cUCGGGCGAAGa--CCCGaAGgu-UUGGc -5'
18557 3' -56.3 NC_004682.1 + 13612 0.68 0.472787
Target:  5'- cGAGCaCgGCgUUCUGGGCgcucagUCCgAGAUCGa -3'
miRNA:   3'- -CUCG-GgCG-AAGACCCGa-----AGG-UUUGGC- -5'
18557 3' -56.3 NC_004682.1 + 2460 0.68 0.462665
Target:  5'- gGGGCgaUGCUcCUGGGCgaCCAGAUCGa -3'
miRNA:   3'- -CUCGg-GCGAaGACCCGaaGGUUUGGC- -5'
18557 3' -56.3 NC_004682.1 + 30740 0.69 0.433004
Target:  5'- cAGCCaguCGCcgCUGGGCagcgUCUGAGCCGg -3'
miRNA:   3'- cUCGG---GCGaaGACCCGa---AGGUUUGGC- -5'
18557 3' -56.3 NC_004682.1 + 10087 0.7 0.359667
Target:  5'- -uGCCCGCcagUC-GGGCUggccggUCCAGAUCGa -3'
miRNA:   3'- cuCGGGCGa--AGaCCCGA------AGGUUUGGC- -5'
18557 3' -56.3 NC_004682.1 + 19093 0.71 0.351131
Target:  5'- -cGUCCggGCUcaUCUGGGCUUCCucgGACUGg -3'
miRNA:   3'- cuCGGG--CGA--AGACCCGAAGGu--UUGGC- -5'
18557 3' -56.3 NC_004682.1 + 39993 1.09 0.000585
Target:  5'- aGAGCCCGCUUCUGGGCUUCCAAACCGg -3'
miRNA:   3'- -CUCGGGCGAAGACCCGAAGGUUUGGC- -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.