miRNA display CGI


Results 1 - 20 of 22 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
21425 5' -54.9 NC_004812.1 + 88197 0.66 0.920821
Target:  5'- cUCGGCCGCGGGgcgaGC-CGCGGc---- -3'
miRNA:   3'- aAGCCGGUGUCCa---UGaGCGUCaagua -5'
21425 5' -54.9 NC_004812.1 + 135846 0.66 0.914947
Target:  5'- cUCGGCguCGGGggGCUCGgAGggCAa -3'
miRNA:   3'- aAGCCGguGUCCa-UGAGCgUCaaGUa -5'
21425 5' -54.9 NC_004812.1 + 98435 0.66 0.908821
Target:  5'- -gCGGCCGCGGGgcgGCaggCGCGGgggCGc -3'
miRNA:   3'- aaGCCGGUGUCCa--UGa--GCGUCaa-GUa -5'
21425 5' -54.9 NC_004812.1 + 66407 0.66 0.908821
Target:  5'- gUCGGCCACGGuGcGCUC-CAGgUCGa -3'
miRNA:   3'- aAGCCGGUGUC-CaUGAGcGUCaAGUa -5'
21425 5' -54.9 NC_004812.1 + 135637 0.66 0.908821
Target:  5'- gUUCGGUCGCAcgacgccguaucGGUACUCGUAGc---- -3'
miRNA:   3'- -AAGCCGGUGU------------CCAUGAGCGUCaagua -5'
21425 5' -54.9 NC_004812.1 + 19014 0.66 0.902447
Target:  5'- -gCGGCCGCGGGccgGCgcagCGCGGgcggCAg -3'
miRNA:   3'- aaGCCGGUGUCCa--UGa---GCGUCaa--GUa -5'
21425 5' -54.9 NC_004812.1 + 98400 0.66 0.895825
Target:  5'- -gCGGCCGCGGGgcgGCgcCGCAGcgUCu- -3'
miRNA:   3'- aaGCCGGUGUCCa--UGa-GCGUCa-AGua -5'
21425 5' -54.9 NC_004812.1 + 46151 0.67 0.888959
Target:  5'- aUgGGCCGCAGGcGCUCggccaGCAGgUCGa -3'
miRNA:   3'- aAgCCGGUGUCCaUGAG-----CGUCaAGUa -5'
21425 5' -54.9 NC_004812.1 + 123078 0.67 0.874515
Target:  5'- -aCGG-CGCAGGU-CUCGCGGggCGg -3'
miRNA:   3'- aaGCCgGUGUCCAuGAGCGUCaaGUa -5'
21425 5' -54.9 NC_004812.1 + 153979 0.67 0.874515
Target:  5'- -aCGG-CGCAGGU-CUCGCGGggCGg -3'
miRNA:   3'- aaGCCgGUGUCCAuGAGCGUCaaGUa -5'
21425 5' -54.9 NC_004812.1 + 26988 0.67 0.866946
Target:  5'- cUCGGCgCGCucguuguucAGGUACUUgaucaGCAGUUCGg -3'
miRNA:   3'- aAGCCG-GUG---------UCCAUGAG-----CGUCAAGUa -5'
21425 5' -54.9 NC_004812.1 + 127831 0.68 0.833648
Target:  5'- -aCGGCCgaaaagaGCGGGgcgUGCUCGCAGcagUCGUg -3'
miRNA:   3'- aaGCCGG-------UGUCC---AUGAGCGUCa--AGUA- -5'
21425 5' -54.9 NC_004812.1 + 135826 0.68 0.817079
Target:  5'- -gCGcGCCGCAGGUGCUccaggaacggaaCGCAGaggUCAg -3'
miRNA:   3'- aaGC-CGGUGUCCAUGA------------GCGUCa--AGUa -5'
21425 5' -54.9 NC_004812.1 + 109363 0.69 0.798947
Target:  5'- cUCGGCCACcgggaugcuGGGUcgGCUCGCGGa---- -3'
miRNA:   3'- aAGCCGGUG---------UCCA--UGAGCGUCaagua -5'
21425 5' -54.9 NC_004812.1 + 60355 0.69 0.780176
Target:  5'- gUCGGCCgGCAGGgcggccccCUCGUGGUUCu- -3'
miRNA:   3'- aAGCCGG-UGUCCau------GAGCGUCAAGua -5'
21425 5' -54.9 NC_004812.1 + 99649 0.7 0.720809
Target:  5'- aUCGGCCGCGGcaaGCUCGCGGcgCu- -3'
miRNA:   3'- aAGCCGGUGUCca-UGAGCGUCaaGua -5'
21425 5' -54.9 NC_004812.1 + 76756 0.71 0.689903
Target:  5'- gUCGGCCGuCGGGUGCUC-CAGggCc- -3'
miRNA:   3'- aAGCCGGU-GUCCAUGAGcGUCaaGua -5'
21425 5' -54.9 NC_004812.1 + 111713 0.71 0.648027
Target:  5'- cUgGGCCACGGGcgaGCUCGC-GUUCGg -3'
miRNA:   3'- aAgCCGGUGUCCa--UGAGCGuCAAGUa -5'
21425 5' -54.9 NC_004812.1 + 101100 0.72 0.584975
Target:  5'- -aCGGCCACGcGGcACUCGCGGUcgagCAUg -3'
miRNA:   3'- aaGCCGGUGU-CCaUGAGCGUCAa---GUA- -5'
21425 5' -54.9 NC_004812.1 + 48892 0.73 0.533336
Target:  5'- -gCGGCCGCuacagcgcgGGGUGCUCGCGGgcCAc -3'
miRNA:   3'- aaGCCGGUG---------UCCAUGAGCGUCaaGUa -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.