miRNA display CGI


Results 1 - 20 of 80 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
12127 3' -60.5 NC_003309.1 + 16711 1.11 0.000222
Target:  5'- cACCGACAGCGCGCGCACCGCCUUCGCg -3'
miRNA:   3'- -UGGCUGUCGCGCGCGUGGCGGAAGCG- -5'
12127 3' -60.5 NC_003309.1 + 4910 0.8 0.04437
Target:  5'- gACCGACAGCGC-CGUACCGCCcaccUCGa -3'
miRNA:   3'- -UGGCUGUCGCGcGCGUGGCGGa---AGCg -5'
12127 3' -60.5 NC_003309.1 + 7362 0.78 0.067641
Target:  5'- cACCaGcCAGCGuCGCGCGCCuaagcGCCUUCGCc -3'
miRNA:   3'- -UGG-CuGUCGC-GCGCGUGG-----CGGAAGCG- -5'
12127 3' -60.5 NC_003309.1 + 53271 0.78 0.071521
Target:  5'- cACCGcaACcGCuCGCGCGCCGUCUUCGCc -3'
miRNA:   3'- -UGGC--UGuCGcGCGCGUGGCGGAAGCG- -5'
12127 3' -60.5 NC_003309.1 + 16919 0.77 0.086856
Target:  5'- cGCCGACAGCGacgaGUGCGgCGCCgagaaUCGUg -3'
miRNA:   3'- -UGGCUGUCGCg---CGCGUgGCGGa----AGCG- -5'
12127 3' -60.5 NC_003309.1 + 22644 0.76 0.096976
Target:  5'- cGCCGGCGGCGCuggaaGCGCcggGCaCGCCgUCGCc -3'
miRNA:   3'- -UGGCUGUCGCG-----CGCG---UG-GCGGaAGCG- -5'
12127 3' -60.5 NC_003309.1 + 12966 0.76 0.102445
Target:  5'- aGCCGACAGcCGCGCuugccGCACCaCCgagCGCg -3'
miRNA:   3'- -UGGCUGUC-GCGCG-----CGUGGcGGaa-GCG- -5'
12127 3' -60.5 NC_003309.1 + 5328 0.75 0.111195
Target:  5'- -gCGGCAGCGUGCGCG-CGCCgagcUUGCg -3'
miRNA:   3'- ugGCUGUCGCGCGCGUgGCGGa---AGCG- -5'
12127 3' -60.5 NC_003309.1 + 9524 0.75 0.120642
Target:  5'- cGCCGcguCgAGCGCGCGCACCGugaCCUgcaCGCu -3'
miRNA:   3'- -UGGCu--G-UCGCGCGCGUGGC---GGAa--GCG- -5'
12127 3' -60.5 NC_003309.1 + 8535 0.75 0.120642
Target:  5'- cGCCGGCGGCgGCacgagcuucgGCGCACCGCUcacaCGCa -3'
miRNA:   3'- -UGGCUGUCG-CG----------CGCGUGGCGGaa--GCG- -5'
12127 3' -60.5 NC_003309.1 + 11984 0.75 0.120642
Target:  5'- cGCgCGGCAGCcgcgGCGCGCGCCGCg-UCGg -3'
miRNA:   3'- -UG-GCUGUCG----CGCGCGUGGCGgaAGCg -5'
12127 3' -60.5 NC_003309.1 + 22490 0.74 0.138058
Target:  5'- gUCGACGGCG-GC-CACCGCCgaCGCg -3'
miRNA:   3'- uGGCUGUCGCgCGcGUGGCGGaaGCG- -5'
12127 3' -60.5 NC_003309.1 + 26956 0.74 0.141808
Target:  5'- uCCGACgucAGCGCGCGaaCACCGCCgaCGg -3'
miRNA:   3'- uGGCUG---UCGCGCGC--GUGGCGGaaGCg -5'
12127 3' -60.5 NC_003309.1 + 44857 0.73 0.14565
Target:  5'- cGCCGGCGGCGaucCGCGCAagguucgcUCGCUUugUCGCa -3'
miRNA:   3'- -UGGCUGUCGC---GCGCGU--------GGCGGA--AGCG- -5'
12127 3' -60.5 NC_003309.1 + 8632 0.73 0.153622
Target:  5'- aACCGGuCAGCGgGUucaGCACCGCUgcaCGCa -3'
miRNA:   3'- -UGGCU-GUCGCgCG---CGUGGCGGaa-GCG- -5'
12127 3' -60.5 NC_003309.1 + 8700 0.73 0.157755
Target:  5'- gACCGuCGGCuCGCGCACUGCgaucuUUUCGCc -3'
miRNA:   3'- -UGGCuGUCGcGCGCGUGGCG-----GAAGCG- -5'
12127 3' -60.5 NC_003309.1 + 43694 0.72 0.170761
Target:  5'- gGCUaGCAGCGCGCGCGCCagaucgaacacGCCgaccaGCg -3'
miRNA:   3'- -UGGcUGUCGCGCGCGUGG-----------CGGaag--CG- -5'
12127 3' -60.5 NC_003309.1 + 10610 0.72 0.179956
Target:  5'- uGCCGGCAacguuCGCGCGUGCCGUCgcgacaugCGCu -3'
miRNA:   3'- -UGGCUGUc----GCGCGCGUGGCGGaa------GCG- -5'
12127 3' -60.5 NC_003309.1 + 52318 0.71 0.204358
Target:  5'- cCCGGCAGCGCGUcgguacuaccgacGUGCUGUCUaagaUCGCc -3'
miRNA:   3'- uGGCUGUCGCGCG-------------CGUGGCGGA----AGCG- -5'
12127 3' -60.5 NC_003309.1 + 3938 0.71 0.210216
Target:  5'- -gCGGCAGCcaucUGCGCGCCGCUgucgaaUUCGCc -3'
miRNA:   3'- ugGCUGUCGc---GCGCGUGGCGG------AAGCG- -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.