miRNA display CGI


Results 1 - 20 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
17357 3' -57.6 NC_004367.1 + 5217 0.67 0.7977
Target:  5'- cGGGccuagcacaaucACUGCGGCUgCGCAGGGUGGAu-- -3'
miRNA:   3'- -CCC------------UGAUGUUGG-GUGUCCCGCCUcga -5'
17357 3' -57.6 NC_004367.1 + 19404 0.72 0.512522
Target:  5'- uGGGGC---GugCCACAuguuuGGGCGGAGCa -3'
miRNA:   3'- -CCCUGaugUugGGUGU-----CCCGCCUCGa -5'
17357 3' -57.6 NC_004367.1 + 22256 0.75 0.354341
Target:  5'- gGGGACUACugUCCGCGGGaCGGGGaCUa -3'
miRNA:   3'- -CCCUGAUGuuGGGUGUCCcGCCUC-GA- -5'
17357 3' -57.6 NC_004367.1 + 22298 0.73 0.429166
Target:  5'- gGGGACUACugUCCGCGGGaCGGGGaCg -3'
miRNA:   3'- -CCCUGAUGuuGGGUGUCCcGCCUC-Ga -5'
17357 3' -57.6 NC_004367.1 + 22425 0.69 0.68272
Target:  5'- gGGGAUgggGCGACCUACAuuuGGGaaGGGGCc -3'
miRNA:   3'- -CCCUGa--UGUUGGGUGU---CCCg-CCUCGa -5'
17357 3' -57.6 NC_004367.1 + 22944 0.9 0.042276
Target:  5'- uGGGACUACAA-CCAgAGGGCGGAGCUu -3'
miRNA:   3'- -CCCUGAUGUUgGGUgUCCCGCCUCGA- -5'
17357 3' -57.6 NC_004367.1 + 23166 0.69 0.652456
Target:  5'- gGGGuuUGCAGCUgAaauugagaauGGGCGGAGCUa -3'
miRNA:   3'- -CCCugAUGUUGGgUgu--------CCCGCCUCGA- -5'
17357 3' -57.6 NC_004367.1 + 23467 0.73 0.465278
Target:  5'- cGGGGCUGgAGcCCCACGgccGGGCcuGGAGCc -3'
miRNA:   3'- -CCCUGAUgUU-GGGUGU---CCCG--CCUCGa -5'
17357 3' -57.6 NC_004367.1 + 23507 0.66 0.84823
Target:  5'- cGGGcCUGgAGuCCCACGgccGGGCcuGGAGCc -3'
miRNA:   3'- -CCCuGAUgUU-GGGUGU---CCCG--CCUCGa -5'
17357 3' -57.6 NC_004367.1 + 23510 0.7 0.611917
Target:  5'- gGGGGCcGCGACCUGgaaccugucCAGGGCcGAGCg -3'
miRNA:   3'- -CCCUGaUGUUGGGU---------GUCCCGcCUCGa -5'
17357 3' -57.6 NC_004367.1 + 23631 0.69 0.652456
Target:  5'- uGGGGCUcCAGCCC-CGGccGUGGGGCUc -3'
miRNA:   3'- -CCCUGAuGUUGGGuGUCc-CGCCUCGA- -5'
17357 3' -57.6 NC_004367.1 + 55822 0.67 0.779596
Target:  5'- cGGGACggggACAACuguCCGCGGGaCGGGGaCa -3'
miRNA:   3'- -CCCUGa---UGUUG---GGUGUCCcGCCUC-Ga -5'
17357 3' -57.6 NC_004367.1 + 55864 0.7 0.642325
Target:  5'- cGGGACgggUACAACuguCCGC-GGGCGGGGaCg -3'
miRNA:   3'- -CCCUG---AUGUUG---GGUGuCCCGCCUC-Ga -5'
17357 3' -57.6 NC_004367.1 + 55996 0.69 0.68272
Target:  5'- gGGGAUgggGCGACCUACAuuuGGGaaGGGGCc -3'
miRNA:   3'- -CCCUGa--UGUUGGGUGU---CCCg-CCUCGa -5'
17357 3' -57.6 NC_004367.1 + 56305 1.09 0.002081
Target:  5'- uGGGACUACAACCCACAGGGCGGAGCUu -3'
miRNA:   3'- -CCCUGAUGUUGGGUGUCCCGCCUCGA- -5'
17357 3' -57.6 NC_004367.1 + 56528 0.69 0.652456
Target:  5'- gGGGuuUGCAGCUgAaauugagaauGGGCGGAGCUa -3'
miRNA:   3'- -CCCugAUGUUGGgUgu--------CCCGCCUCGA- -5'
17357 3' -57.6 NC_004367.1 + 56809 0.66 0.84823
Target:  5'- cGGGcCUGgAGcCCCACGgccGGGCcuGGAGCc -3'
miRNA:   3'- -CCCuGAUgUU-GGGUGU---CCCG--CCUCGa -5'
17357 3' -57.6 NC_004367.1 + 56869 0.67 0.815216
Target:  5'- cGGGcCUGgAGcCCCACGccGGGCcuGGAGCc -3'
miRNA:   3'- -CCCuGAUgUU-GGGUGU--CCCG--CCUCGa -5'
17357 3' -57.6 NC_004367.1 + 56872 0.7 0.611917
Target:  5'- gGGGGCcGCGACCUGgaaccugacCAGGGCcGAGCg -3'
miRNA:   3'- -CCCUGaUGUUGGGU---------GUCCCGcCUCGa -5'
17357 3' -57.6 NC_004367.1 + 56908 0.66 0.84823
Target:  5'- cGGGcCUGgAGcCCCACGgccGGGCcuGGAGCc -3'
miRNA:   3'- -CCCuGAUgUU-GGGUGU---CCCG--CCUCGa -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.