miRNA display CGI


Results 1 - 20 of 42 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
12216 5' -50.7 NC_003309.1 + 4183 0.66 0.934266
Target:  5'- aGGCaGCGCGGaugucguccGCCAGC-UCGAacgcgcCGGUCg -3'
miRNA:   3'- -CCG-CGCGCU---------UGGUUGuAGCU------GUUAGa -5'
12216 5' -50.7 NC_003309.1 + 45353 0.66 0.933158
Target:  5'- cGGCGCGCGAucucucgcaguuCCAACuuccCGGCGu--- -3'
miRNA:   3'- -CCGCGCGCUu-----------GGUUGua--GCUGUuaga -5'
12216 5' -50.7 NC_003309.1 + 22713 0.66 0.932599
Target:  5'- cGGCGaCGcCGAaaacgcguuccgcaACCGcuGCGUCGAC-GUCUg -3'
miRNA:   3'- -CCGC-GC-GCU--------------UGGU--UGUAGCUGuUAGA- -5'
12216 5' -50.7 NC_003309.1 + 31775 0.66 0.928608
Target:  5'- cGCGCGgGAuaugauuuCCAGCGuccUCGGCAgcAUCa -3'
miRNA:   3'- cCGCGCgCUu-------GGUUGU---AGCUGU--UAGa -5'
12216 5' -50.7 NC_003309.1 + 44771 0.66 0.928608
Target:  5'- aGCGCGCGAGgCAAauaGUCGAgCGcgUa -3'
miRNA:   3'- cCGCGCGCUUgGUUg--UAGCU-GUuaGa -5'
12216 5' -50.7 NC_003309.1 + 29942 0.66 0.912524
Target:  5'- uGCGCGCGuuccuguCCGguuucuuccagugguGCGUCGACAAg-- -3'
miRNA:   3'- cCGCGCGCuu-----GGU---------------UGUAGCUGUUaga -5'
12216 5' -50.7 NC_003309.1 + 29584 0.66 0.909875
Target:  5'- cGGCGUGCGggUCGAUuUCaa-GAUCa -3'
miRNA:   3'- -CCGCGCGCuuGGUUGuAGcugUUAGa -5'
12216 5' -50.7 NC_003309.1 + 43687 0.67 0.903049
Target:  5'- aGCGCGCGcGCCAG-AUCGAaCAcgCc -3'
miRNA:   3'- cCGCGCGCuUGGUUgUAGCU-GUuaGa -5'
12216 5' -50.7 NC_003309.1 + 47423 0.67 0.903049
Target:  5'- cGGUGCucgcaccaGuCGAGCCAcGCGUCGACGggCa -3'
miRNA:   3'- -CCGCG--------C-GCUUGGU-UGUAGCUGUuaGa -5'
12216 5' -50.7 NC_003309.1 + 43178 0.67 0.903049
Target:  5'- cGuCGCGCGAACC-GCGUCaGCGAg-- -3'
miRNA:   3'- cC-GCGCGCUUGGuUGUAGcUGUUaga -5'
12216 5' -50.7 NC_003309.1 + 16704 0.67 0.903049
Target:  5'- aGCGCGCGcACCGcCuUCG-CGGUCg -3'
miRNA:   3'- cCGCGCGCuUGGUuGuAGCuGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 35661 0.67 0.903049
Target:  5'- -cCGCGCGAGauCCAGCG-CGACGAc-- -3'
miRNA:   3'- ccGCGCGCUU--GGUUGUaGCUGUUaga -5'
12216 5' -50.7 NC_003309.1 + 6077 0.67 0.903049
Target:  5'- cGUGaCGCGGGCCGAaGUCGuucuuuGCGAUCa -3'
miRNA:   3'- cCGC-GCGCUUGGUUgUAGC------UGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 50233 0.67 0.888544
Target:  5'- cGCGCGUGAuucacauacaGCCgAGCAagcaGACAGUCg -3'
miRNA:   3'- cCGCGCGCU----------UGG-UUGUag--CUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 22458 0.67 0.888544
Target:  5'- cGUGCGCGGcgaucgcacgcuGCCGGCGUCGAg----- -3'
miRNA:   3'- cCGCGCGCU------------UGGUUGUAGCUguuaga -5'
12216 5' -50.7 NC_003309.1 + 10046 0.67 0.888544
Target:  5'- cGCGCGCG--UCAGCGccUCGACGAg-- -3'
miRNA:   3'- cCGCGCGCuuGGUUGU--AGCUGUUaga -5'
12216 5' -50.7 NC_003309.1 + 11828 0.67 0.87293
Target:  5'- cGCGCGCccGCCGcgGCuuucgaauccuuGUCGGCGAUCg -3'
miRNA:   3'- cCGCGCGcuUGGU--UG------------UAGCUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 5063 0.68 0.85626
Target:  5'- gGGCGCgGCG-GCCGgugccGCGaCGGCGGUCg -3'
miRNA:   3'- -CCGCG-CGCuUGGU-----UGUaGCUGUUAGa -5'
12216 5' -50.7 NC_003309.1 + 30265 0.68 0.85626
Target:  5'- cGGCGCcugguauuggaGCGAGCCAGUAUCGGgAAg-- -3'
miRNA:   3'- -CCGCG-----------CGCUUGGUUGUAGCUgUUaga -5'
12216 5' -50.7 NC_003309.1 + 26947 0.68 0.85626
Target:  5'- aGCGCGCGAACac-CGcCGACGGUg- -3'
miRNA:   3'- cCGCGCGCUUGguuGUaGCUGUUAga -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.