miRNA display CGI


Results 1 - 18 of 18 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
22543 3' -44.7 NC_005083.1 + 147981 0.66 1
Target:  5'- uGAAGUACcaaGCGGGUACGUcGGuaGCGCg -3'
miRNA:   3'- -CUUCGUGaagUGUUCAUGUA-CU--UGUG- -5'
22543 3' -44.7 NC_005083.1 + 117365 0.66 1
Target:  5'- -cAGCACacuucuuuacugUUCACGaaaacGGUgaACGUGAACACu -3'
miRNA:   3'- cuUCGUG------------AAGUGU-----UCA--UGUACUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 228190 0.67 0.999999
Target:  5'- --cGUACUUUAC-AGUACAagGAACAUc -3'
miRNA:   3'- cuuCGUGAAGUGuUCAUGUa-CUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 72622 0.67 0.999999
Target:  5'- cGGGCGCUcuUUAUGAGguaaACAUGAGCAa -3'
miRNA:   3'- cUUCGUGA--AGUGUUCa---UGUACUUGUg -5'
22543 3' -44.7 NC_005083.1 + 234602 0.67 0.999999
Target:  5'- uGGGUuaaGCUUCGCGgugaauuguuAGUuCAUGAACGCa -3'
miRNA:   3'- cUUCG---UGAAGUGU----------UCAuGUACUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 172567 0.68 0.999998
Target:  5'- uGAuGUACUUUACGGG-AC-UGAACGCu -3'
miRNA:   3'- -CUuCGUGAAGUGUUCaUGuACUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 210674 0.68 0.999995
Target:  5'- uGGAGCAaaacUCACAAGUugGUGAc--- -3'
miRNA:   3'- -CUUCGUga--AGUGUUCAugUACUugug -5'
22543 3' -44.7 NC_005083.1 + 145317 0.68 0.999994
Target:  5'- -cGGCGCUUCGCuucgauacaugcgcgGAGUGCuucauAUGAAUGCg -3'
miRNA:   3'- cuUCGUGAAGUG---------------UUCAUG-----UACUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 63651 0.7 0.99995
Target:  5'- aAAGCACUUUGCA-GUGCAauuACACa -3'
miRNA:   3'- cUUCGUGAAGUGUuCAUGUacuUGUG- -5'
22543 3' -44.7 NC_005083.1 + 64300 0.7 0.99995
Target:  5'- --uGCACUgUACGGGUuCAUGggUACa -3'
miRNA:   3'- cuuCGUGAaGUGUUCAuGUACuuGUG- -5'
22543 3' -44.7 NC_005083.1 + 183206 0.7 0.99995
Target:  5'- aGAAGCACUUCAa----GC-UGAACGCa -3'
miRNA:   3'- -CUUCGUGAAGUguucaUGuACUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 187001 0.7 0.999934
Target:  5'- uAAGUGCUUCuCAGGUGCA--AACACu -3'
miRNA:   3'- cUUCGUGAAGuGUUCAUGUacUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 29290 0.71 0.999805
Target:  5'- uGAAGCAUUUCACA---GCGaaaGAACACg -3'
miRNA:   3'- -CUUCGUGAAGUGUucaUGUa--CUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 141479 0.71 0.99975
Target:  5'- -cAGCAUgUUCACGAGUAUAUGGuuCGCc -3'
miRNA:   3'- cuUCGUG-AAGUGUUCAUGUACUu-GUG- -5'
22543 3' -44.7 NC_005083.1 + 12497 0.72 0.999215
Target:  5'- aAAGCACUUCACcgcuaauauguaAAGUACcgcgcuUGAAUACa -3'
miRNA:   3'- cUUCGUGAAGUG------------UUCAUGu-----ACUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 116083 0.74 0.995731
Target:  5'- cGAGGCACaagCAUGAGUACAUGGgacgaagugaaagACGCu -3'
miRNA:   3'- -CUUCGUGaa-GUGUUCAUGUACU-------------UGUG- -5'
22543 3' -44.7 NC_005083.1 + 57851 0.75 0.989739
Target:  5'- uGAAGCugaagCACGAGaGCGUGAGCACc -3'
miRNA:   3'- -CUUCGugaa-GUGUUCaUGUACUUGUG- -5'
22543 3' -44.7 NC_005083.1 + 51330 1.13 0.030704
Target:  5'- cGAAGCACUUCACAAGUACAUGAACACg -3'
miRNA:   3'- -CUUCGUGAAGUGUUCAUGUACUUGUG- -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.