miRNA display CGI


Results 1 - 20 of 86 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
19007 3' -65.8 NC_004684.1 + 482 0.66 0.286667
Target:  5'- uGuGGCCGccaagGCC-GCGCCgaagGCCGCgCCGAa -3'
miRNA:   3'- gC-CCGGC-----UGGaCGCGG----CGGCGaGGCU- -5'
19007 3' -65.8 NC_004684.1 + 717 0.66 0.300796
Target:  5'- uGGGaaGACCUGgGCaccgccggugaccggGCCGCcgCCGAg -3'
miRNA:   3'- gCCCggCUGGACgCGg--------------CGGCGa-GGCU- -5'
19007 3' -65.8 NC_004684.1 + 3208 0.67 0.243348
Target:  5'- cCGGcaacGCCGACgUGCGCCuggaagaggugcGCCGCaUCCu- -3'
miRNA:   3'- -GCC----CGGCUGgACGCGG------------CGGCG-AGGcu -5'
19007 3' -65.8 NC_004684.1 + 3487 0.7 0.168795
Target:  5'- cCGGGCCGcACCgugGcCGCCaggacGCCGCaaucgCCGAc -3'
miRNA:   3'- -GCCCGGC-UGGa--C-GCGG-----CGGCGa----GGCU- -5'
19007 3' -65.8 NC_004684.1 + 3693 0.68 0.226514
Target:  5'- -uGGCaggaGAUCgccaGCGCCGCCGCgcuggCCGGu -3'
miRNA:   3'- gcCCGg---CUGGa---CGCGGCGGCGa----GGCU- -5'
19007 3' -65.8 NC_004684.1 + 4159 0.7 0.168795
Target:  5'- uCGGGCCGACgCccgGCaacgaGCCGCCGguggCCGAg -3'
miRNA:   3'- -GCCCGGCUG-Ga--CG-----CGGCGGCga--GGCU- -5'
19007 3' -65.8 NC_004684.1 + 5692 0.66 0.314038
Target:  5'- gGGGcCCGGCCUGC-CCaCgGCaCCGAc -3'
miRNA:   3'- gCCC-GGCUGGACGcGGcGgCGaGGCU- -5'
19007 3' -65.8 NC_004684.1 + 6469 0.66 0.307014
Target:  5'- -uGGCCGagGCgUGCGaCGCCGUggCCGAg -3'
miRNA:   3'- gcCCGGC--UGgACGCgGCGGCGa-GGCU- -5'
19007 3' -65.8 NC_004684.1 + 6541 0.66 0.314038
Target:  5'- -cGGCCGACau-CGCCGCCGUggacaUCGAc -3'
miRNA:   3'- gcCCGGCUGgacGCGGCGGCGa----GGCU- -5'
19007 3' -65.8 NC_004684.1 + 7328 0.67 0.243348
Target:  5'- aCGGGCCG-CC-GgGCCGCgCGC-CaCGAg -3'
miRNA:   3'- -GCCCGGCuGGaCgCGGCG-GCGaG-GCU- -5'
19007 3' -65.8 NC_004684.1 + 7491 0.78 0.037032
Target:  5'- aGGGCCGGuuCgUGCGCCGCCGCaUCGGg -3'
miRNA:   3'- gCCCGGCU--GgACGCGGCGGCGaGGCU- -5'
19007 3' -65.8 NC_004684.1 + 7517 0.7 0.144072
Target:  5'- nGGGUgGACCUGCccggcaccgaccugGCCGCCGUggCGGc -3'
miRNA:   3'- gCCCGgCUGGACG--------------CGGCGGCGagGCU- -5'
19007 3' -65.8 NC_004684.1 + 7723 0.66 0.299427
Target:  5'- -uGGCCGugagccACCUgaucgguaucgccGCGCCGCUGUcgUCCGAc -3'
miRNA:   3'- gcCCGGC------UGGA-------------CGCGGCGGCG--AGGCU- -5'
19007 3' -65.8 NC_004684.1 + 8538 0.72 0.106486
Target:  5'- gCGGGCCggacgaggugGACCugUGCGCCGaCCGCaucaucccggacaUCCGAg -3'
miRNA:   3'- -GCCCGG----------CUGG--ACGCGGC-GGCG-------------AGGCU- -5'
19007 3' -65.8 NC_004684.1 + 8725 0.66 0.314038
Target:  5'- gCGGcGCUGAUCccgaUGUucGCCGCCGCgcCCGGc -3'
miRNA:   3'- -GCC-CGGCUGG----ACG--CGGCGGCGa-GGCU- -5'
19007 3' -65.8 NC_004684.1 + 9577 0.66 0.300111
Target:  5'- aCGuGGCCGACCUGauCCGUgGCUgggacagcaugcUCGAg -3'
miRNA:   3'- -GC-CCGGCUGGACgcGGCGgCGA------------GGCU- -5'
19007 3' -65.8 NC_004684.1 + 9942 0.69 0.195804
Target:  5'- cCGGGCUGACCaugcucUGgGUCGCCacggucauggagGCUUCGAc -3'
miRNA:   3'- -GCCCGGCUGG------ACgCGGCGG------------CGAGGCU- -5'
19007 3' -65.8 NC_004684.1 + 10097 0.69 0.177406
Target:  5'- aGGGCUGGCCgggGUGCggcuCGCCGUcacaggCCGAg -3'
miRNA:   3'- gCCCGGCUGGa--CGCG----GCGGCGa-----GGCU- -5'
19007 3' -65.8 NC_004684.1 + 10139 0.73 0.088988
Target:  5'- gCGGGCCGACg-GUGCCGCCcGC-CCa- -3'
miRNA:   3'- -GCCCGGCUGgaCGCGGCGG-CGaGGcu -5'
19007 3' -65.8 NC_004684.1 + 10183 0.66 0.300111
Target:  5'- -aGGCUGAgcaCCaucGCGCCGCCGCcuUCCa- -3'
miRNA:   3'- gcCCGGCU---GGa--CGCGGCGGCG--AGGcu -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.