miRNA display CGI


Results 1 - 20 of 29 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
2635 3' -59.5 NC_001491.2 + 2622 0.67 0.721506
Target:  5'- cGCGuCGCugGGCC-GCGGaGUGUGgCa -3'
miRNA:   3'- -UGC-GCGugCUGGuCGCCgCAUACgGc -5'
2635 3' -59.5 NC_001491.2 + 3353 0.66 0.786902
Target:  5'- -gGCGUuguaGCGcACCAGCGGCGccacgGuCCGg -3'
miRNA:   3'- ugCGCG----UGC-UGGUCGCCGCaua--C-GGC- -5'
2635 3' -59.5 NC_001491.2 + 3830 0.66 0.768754
Target:  5'- -gGC-CGCGG-CAGCGGCGgccuggGCCGg -3'
miRNA:   3'- ugCGcGUGCUgGUCGCCGCaua---CGGC- -5'
2635 3' -59.5 NC_001491.2 + 8464 0.68 0.662486
Target:  5'- uGC-CGCAUGGcCCAGCGGgGgacGCCGu -3'
miRNA:   3'- -UGcGCGUGCU-GGUCGCCgCauaCGGC- -5'
2635 3' -59.5 NC_001491.2 + 10367 0.66 0.776982
Target:  5'- uCGCGCcCGcagauguACgAGCGcGCGUGUGCgCGg -3'
miRNA:   3'- uGCGCGuGC-------UGgUCGC-CGCAUACG-GC- -5'
2635 3' -59.5 NC_001491.2 + 11472 0.68 0.63255
Target:  5'- gUGCGCGCGGCU-GCGG-GgcUGCCu -3'
miRNA:   3'- uGCGCGUGCUGGuCGCCgCauACGGc -5'
2635 3' -59.5 NC_001491.2 + 11727 0.77 0.201342
Target:  5'- cGCGCuGCugGcAUCGGCGGCGUcgGCCc -3'
miRNA:   3'- -UGCG-CGugC-UGGUCGCCGCAuaCGGc -5'
2635 3' -59.5 NC_001491.2 + 12189 0.7 0.505087
Target:  5'- aGCGCGCAgCGgaagaccucgguGCCGGCGGUGgcgGCUGu -3'
miRNA:   3'- -UGCGCGU-GC------------UGGUCGCCGCauaCGGC- -5'
2635 3' -59.5 NC_001491.2 + 12581 0.66 0.784212
Target:  5'- gGCGCGCauccccccccuccgACGGCCGccgccGCGGCagcgGCCGc -3'
miRNA:   3'- -UGCGCG--------------UGCUGGU-----CGCCGcauaCGGC- -5'
2635 3' -59.5 NC_001491.2 + 14554 0.66 0.768754
Target:  5'- cCGCGCACGugcagauaauaACCAGCaaaaaGGCGagguaGUGUCGa -3'
miRNA:   3'- uGCGCGUGC-----------UGGUCG-----CCGCa----UACGGC- -5'
2635 3' -59.5 NC_001491.2 + 26714 0.69 0.572857
Target:  5'- gGCGCGCAgGuacGCC-GCGGCGgcUGCg- -3'
miRNA:   3'- -UGCGCGUgC---UGGuCGCCGCauACGgc -5'
2635 3' -59.5 NC_001491.2 + 26797 0.67 0.702035
Target:  5'- -aGCGCucuGCGuccGCCGGCGGCGUcuccccgaucccGaGCCGg -3'
miRNA:   3'- ugCGCG---UGC---UGGUCGCCGCA------------UaCGGC- -5'
2635 3' -59.5 NC_001491.2 + 26998 0.71 0.486338
Target:  5'- cACG-GCGCGGCgCAGCGG-GUccGCCGa -3'
miRNA:   3'- -UGCgCGUGCUG-GUCGCCgCAuaCGGC- -5'
2635 3' -59.5 NC_001491.2 + 27154 0.71 0.449879
Target:  5'- gGCGCGCACGACC-GCGGCaaa-GUCc -3'
miRNA:   3'- -UGCGCGUGCUGGuCGCCGcauaCGGc -5'
2635 3' -59.5 NC_001491.2 + 27201 0.7 0.543462
Target:  5'- cCGCGUGCG-CC-GCGGUGUccGUGCUGg -3'
miRNA:   3'- uGCGCGUGCuGGuCGCCGCA--UACGGC- -5'
2635 3' -59.5 NC_001491.2 + 32184 0.68 0.622561
Target:  5'- gACGaGgACGACCAgGCGGaugGUGCCGg -3'
miRNA:   3'- -UGCgCgUGCUGGU-CGCCgcaUACGGC- -5'
2635 3' -59.5 NC_001491.2 + 34782 0.73 0.381784
Target:  5'- cGCGCGCuucggggagcugGCGGCCAGCGGCcc--GCUGa -3'
miRNA:   3'- -UGCGCG------------UGCUGGUCGCCGcauaCGGC- -5'
2635 3' -59.5 NC_001491.2 + 54079 0.67 0.710829
Target:  5'- cCGCGCAgCuGCUuuaucucuuuccuAGCGGCGUAUGCg- -3'
miRNA:   3'- uGCGCGU-GcUGG-------------UCGCCGCAUACGgc -5'
2635 3' -59.5 NC_001491.2 + 64240 0.77 0.211302
Target:  5'- aACGCGgcCACGGgCGGCGGCGUGUcGCCc -3'
miRNA:   3'- -UGCGC--GUGCUgGUCGCCGCAUA-CGGc -5'
2635 3' -59.5 NC_001491.2 + 64781 0.7 0.55321
Target:  5'- cACGCGCAUGAgagUCGGaC-GCGUGUGCCc -3'
miRNA:   3'- -UGCGCGUGCU---GGUC-GcCGCAUACGGc -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.