miRNA display CGI


Results 1 - 20 of 31 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
1825 5' -57.7 NC_001347.2 + 191552 0.66 0.908619
Target:  5'- cAGCAACGUcugucggAGCGCC-GGCuGAggcagcagcgucgcGCGCGGg -3'
miRNA:   3'- -UUGUUGCA-------UCGCGGaCCG-CU--------------CGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 164333 0.66 0.905025
Target:  5'- -uCAGCGUccGGCcucggguuGCCUGGacgccuGGGCGCGAc -3'
miRNA:   3'- uuGUUGCA--UCG--------CGGACCg-----CUCGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 52196 0.66 0.904418
Target:  5'- gGGCAAgGUGGCGCUUcgcuacgcGGUGAggaaacugaugaaGCGCGGa -3'
miRNA:   3'- -UUGUUgCAUCGCGGA--------CCGCU-------------CGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 165140 0.66 0.898858
Target:  5'- cACAGCGccGCGCUggaugacGGUGAuGCGCGGc -3'
miRNA:   3'- uUGUUGCauCGCGGa------CCGCU-CGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 56765 0.66 0.898858
Target:  5'- gAACAGCGgcaAGuCGCgUGGCG-GCgGCGGu -3'
miRNA:   3'- -UUGUUGCa--UC-GCGgACCGCuCG-CGCU- -5'
1825 5' -57.7 NC_001347.2 + 87784 0.66 0.892471
Target:  5'- uGCuuCGgcGUGCCcGGCGAGaCGgGAg -3'
miRNA:   3'- uUGuuGCauCGCGGaCCGCUC-GCgCU- -5'
1825 5' -57.7 NC_001347.2 + 190608 0.66 0.885197
Target:  5'- cAGCGACGUgcacGGCGCgugCUGGCGccgccuuGGCGCc- -3'
miRNA:   3'- -UUGUUGCA----UCGCG---GACCGC-------UCGCGcu -5'
1825 5' -57.7 NC_001347.2 + 58155 0.66 0.879053
Target:  5'- cGACGAgGUGGCGCauCUGuG-GGGCGUGAc -3'
miRNA:   3'- -UUGUUgCAUCGCG--GAC-CgCUCGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 217135 0.66 0.879053
Target:  5'- uGCGGCGUuacAGCGUCUGGUGcGGCaUGAg -3'
miRNA:   3'- uUGUUGCA---UCGCGGACCGC-UCGcGCU- -5'
1825 5' -57.7 NC_001347.2 + 199396 0.67 0.872029
Target:  5'- uACu-CGUGGcCGCCUGGCuuGUGCGu -3'
miRNA:   3'- uUGuuGCAUC-GCGGACCGcuCGCGCu -5'
1825 5' -57.7 NC_001347.2 + 77063 0.67 0.864801
Target:  5'- uGCAGCGUgaGGCGCg-GGCGcGCGuCGGc -3'
miRNA:   3'- uUGUUGCA--UCGCGgaCCGCuCGC-GCU- -5'
1825 5' -57.7 NC_001347.2 + 228301 0.67 0.841948
Target:  5'- gGACGACGUccCGCCagcGGCGAGCgGCa- -3'
miRNA:   3'- -UUGUUGCAucGCGGa--CCGCUCG-CGcu -5'
1825 5' -57.7 NC_001347.2 + 227932 0.67 0.841948
Target:  5'- --gGGCGUgcugGGCGCgCUGGCGcugGGaCGCGAg -3'
miRNA:   3'- uugUUGCA----UCGCG-GACCGC---UC-GCGCU- -5'
1825 5' -57.7 NC_001347.2 + 152309 0.67 0.841158
Target:  5'- cGCuuguACGUGGCgGCCgaaccgcUGGCuuauGAGCGCGAc -3'
miRNA:   3'- uUGu---UGCAUCG-CGG-------ACCG----CUCGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 185841 0.68 0.808983
Target:  5'- uAUAugGUAGC-UCUGcCGAGCGCGGg -3'
miRNA:   3'- uUGUugCAUCGcGGACcGCUCGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 130312 0.68 0.808983
Target:  5'- gGGCaAGCGaAGCGCCaucaugacGCGGGCGCGGu -3'
miRNA:   3'- -UUG-UUGCaUCGCGGac------CGCUCGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 63969 0.68 0.791559
Target:  5'- --gAACGUuGCGCCUGcuCGAGCGCc- -3'
miRNA:   3'- uugUUGCAuCGCGGACc-GCUCGCGcu -5'
1825 5' -57.7 NC_001347.2 + 30996 0.68 0.791559
Target:  5'- aGACGGgGUcGacgaGgCUGGUGAGCGCGAa -3'
miRNA:   3'- -UUGUUgCAuCg---CgGACCGCUCGCGCU- -5'
1825 5' -57.7 NC_001347.2 + 32740 0.68 0.791559
Target:  5'- cGCAGCGUGGCcgGCgUGGCG-GC-CGAc -3'
miRNA:   3'- uUGUUGCAUCG--CGgACCGCuCGcGCU- -5'
1825 5' -57.7 NC_001347.2 + 134875 0.69 0.77359
Target:  5'- cAGCAACGaguucaUGGCGgCugUGGCGGGuCGCGAc -3'
miRNA:   3'- -UUGUUGC------AUCGCgG--ACCGCUC-GCGCU- -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.