miRNA display CGI


Results 21 - 37 of 37 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
1159 3' -47.4 NC_001132.2 + 56075 0.68 0.99926
Target:  5'- -aACGGAAUGcuGGAUAGAacucuCGUCCCUg -3'
miRNA:   3'- ugUGCUUUGCucUUUAUCU-----GCAGGGG- -5'
1159 3' -47.4 NC_001132.2 + 56874 0.71 0.987708
Target:  5'- aACGCGGAugGAGAAu--GuACGUCCa- -3'
miRNA:   3'- -UGUGCUUugCUCUUuauC-UGCAGGgg -5'
1159 3' -47.4 NC_001132.2 + 63568 0.66 0.999951
Target:  5'- -gGCGuuuUGAGAAuu-GGCGaUCCCCg -3'
miRNA:   3'- ugUGCuuuGCUCUUuauCUGC-AGGGG- -5'
1159 3' -47.4 NC_001132.2 + 69336 0.68 0.99909
Target:  5'- aACGCGAAGCGAcaGAAAUacgAGAaaaCGUUCgCCg -3'
miRNA:   3'- -UGUGCUUUGCU--CUUUA---UCU---GCAGG-GG- -5'
1159 3' -47.4 NC_001132.2 + 72879 0.67 0.999812
Target:  5'- uCAuCGGuuuguACGGGGuuggGGACGUCCUCg -3'
miRNA:   3'- uGU-GCUu----UGCUCUuua-UCUGCAGGGG- -5'
1159 3' -47.4 NC_001132.2 + 77548 0.66 0.999851
Target:  5'- uCGCGA--UGAGAGuaugcaucguaguGUAGACGUCCg- -3'
miRNA:   3'- uGUGCUuuGCUCUU-------------UAUCUGCAGGgg -5'
1159 3' -47.4 NC_001132.2 + 86456 0.73 0.969392
Target:  5'- uUugGuAGAgGAGucGUAGACGUCCUCa -3'
miRNA:   3'- uGugC-UUUgCUCuuUAUCUGCAGGGG- -5'
1159 3' -47.4 NC_001132.2 + 89031 0.68 0.99909
Target:  5'- cACGCGGGACGAGucGUuGACGUguauucUUCCg -3'
miRNA:   3'- -UGUGCUUUGCUCuuUAuCUGCA------GGGG- -5'
1159 3' -47.4 NC_001132.2 + 92467 0.67 0.999508
Target:  5'- cCGCGAGaaacaccGCGAcgGAGGaAGACGaCCCCa -3'
miRNA:   3'- uGUGCUU-------UGCU--CUUUaUCUGCaGGGG- -5'
1159 3' -47.4 NC_001132.2 + 103345 0.69 0.99721
Target:  5'- uACAUGAuuAugGAcaagGAGAUAGAaggguguugcaCGUCCCCc -3'
miRNA:   3'- -UGUGCU--UugCU----CUUUAUCU-----------GCAGGGG- -5'
1159 3' -47.4 NC_001132.2 + 106460 0.67 0.999812
Target:  5'- -gACGAu-CGuGuuGUAGugGUCCCg -3'
miRNA:   3'- ugUGCUuuGCuCuuUAUCugCAGGGg -5'
1159 3' -47.4 NC_001132.2 + 106741 0.68 0.99926
Target:  5'- uACACGAAuCGaAGAAAUucGACGUCUa- -3'
miRNA:   3'- -UGUGCUUuGC-UCUUUAu-CUGCAGGgg -5'
1159 3' -47.4 NC_001132.2 + 117425 0.7 0.994681
Target:  5'- cGCugGGAuUGAGAAugAGAUgauaGUCCCCu -3'
miRNA:   3'- -UGugCUUuGCUCUUuaUCUG----CAGGGG- -5'
1159 3' -47.4 NC_001132.2 + 119195 0.67 0.999519
Target:  5'- uUugGAuAGCGGGGAc--GGCGUCUCCu -3'
miRNA:   3'- uGugCU-UUGCUCUUuauCUGCAGGGG- -5'
1159 3' -47.4 NC_001132.2 + 140202 0.69 0.997613
Target:  5'- gACAUGAGACGgacgaucGGAGGUAG-CGUCgUCg -3'
miRNA:   3'- -UGUGCUUUGC-------UCUUUAUCuGCAGgGG- -5'
1159 3' -47.4 NC_001132.2 + 154476 0.68 0.999401
Target:  5'- cGCGCGuAGACGuc--GUAGACGUCgUCCu -3'
miRNA:   3'- -UGUGC-UUUGCucuuUAUCUGCAG-GGG- -5'
1159 3' -47.4 NC_001132.2 + 159650 0.67 0.999695
Target:  5'- cCACGcugauguaguuAAACGAcGAGGUAcACGUCUCCg -3'
miRNA:   3'- uGUGC-----------UUUGCU-CUUUAUcUGCAGGGG- -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.