miRNA display CGI


Results 1 - 17 of 17 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
20850 5' -52.3 NC_004689.1 + 8985 0.65 0.919781
Target:  5'- -gGCAGCuuucuuaccugaaauAGCUcucauucGCGUGucguacuucuuaauUCCCGCAGCa -3'
miRNA:   3'- cgUGUCG---------------UUGA-------UGCACu-------------AGGGCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 7949 0.66 0.915455
Target:  5'- aGCGCGuGCcGCUGaaaGUGuuuGUCCC-CAGCg -3'
miRNA:   3'- -CGUGU-CGuUGAUg--CAC---UAGGGcGUCG- -5'
20850 5' -52.3 NC_004689.1 + 19917 0.66 0.909041
Target:  5'- cGCACGGUGuCUGCGaUGca--CGCAGCa -3'
miRNA:   3'- -CGUGUCGUuGAUGC-ACuaggGCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 1876 0.66 0.909041
Target:  5'- cGUugGGCAGCUugGUcgccuugCCCuuGGCg -3'
miRNA:   3'- -CGugUCGUUGAugCAcua----GGGcgUCG- -5'
20850 5' -52.3 NC_004689.1 + 27666 0.66 0.902352
Target:  5'- -aACAGCGA--GCGUGAggUCgCGCAGg -3'
miRNA:   3'- cgUGUCGUUgaUGCACU--AGgGCGUCg -5'
20850 5' -52.3 NC_004689.1 + 59692 0.66 0.888161
Target:  5'- uCAUcGCGA--AUGUGAaugagcaugUCCCGCAGCg -3'
miRNA:   3'- cGUGuCGUUgaUGCACU---------AGGGCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 68093 0.66 0.888161
Target:  5'- -aGCGGUAGCUcCGUGGcuaCCgGCAGUu -3'
miRNA:   3'- cgUGUCGUUGAuGCACUa--GGgCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 34316 0.67 0.879904
Target:  5'- cCACAGCAauccgGCUGCGaccgcaacguaaaUGAUCUgcuuCGCAGUc -3'
miRNA:   3'- cGUGUCGU-----UGAUGC-------------ACUAGG----GCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 68473 0.67 0.872128
Target:  5'- uGCGCAGUccguugauucGGCUGCG-GAaaacuucUCCgCGCAGUu -3'
miRNA:   3'- -CGUGUCG----------UUGAUGCaCU-------AGG-GCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 40154 0.67 0.864101
Target:  5'- gGCGCGGCGcucgcacGCUGCGacggUGAcUCCgGCuGGCg -3'
miRNA:   3'- -CGUGUCGU-------UGAUGC----ACU-AGGgCG-UCG- -5'
20850 5' -52.3 NC_004689.1 + 13786 0.68 0.839472
Target:  5'- cGCugAGCGAggUUACGUGccugCgCUGCGGCc -3'
miRNA:   3'- -CGugUCGUU--GAUGCACua--G-GGCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 27034 0.68 0.83054
Target:  5'- aGCcCuGCAACUGC-UGAaugacguucugUCCCGCuGCg -3'
miRNA:   3'- -CGuGuCGUUGAUGcACU-----------AGGGCGuCG- -5'
20850 5' -52.3 NC_004689.1 + 7877 0.7 0.699142
Target:  5'- cGCGCAGagacCAACUGCGcc-UUUCGCAGCg -3'
miRNA:   3'- -CGUGUC----GUUGAUGCacuAGGGCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 54521 0.7 0.683881
Target:  5'- gGCACaAGCGGCUACGauuccagccgcaAUUCCGUAGCu -3'
miRNA:   3'- -CGUG-UCGUUGAUGCac----------UAGGGCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 59112 0.71 0.632105
Target:  5'- uGCGgAGCGugUACGUcgcgcaccuGAUCgcagugaCCGCAGCa -3'
miRNA:   3'- -CGUgUCGUugAUGCA---------CUAG-------GGCGUCG- -5'
20850 5' -52.3 NC_004689.1 + 4451 0.72 0.604495
Target:  5'- cCACGGCGcuuCUGCGUGcgcugagucgggauUCCCGCAGg -3'
miRNA:   3'- cGUGUCGUu--GAUGCACu-------------AGGGCGUCg -5'
20850 5' -52.3 NC_004689.1 + 39270 0.73 0.556347
Target:  5'- -aACAGCAccggaugguGCUGCGUGuaauggugCCCGCAGa -3'
miRNA:   3'- cgUGUCGU---------UGAUGCACua------GGGCGUCg -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.