miRNA display CGI


Results 1 - 20 of 64 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
30422 3' -53.1 NC_006548.1 + 896 0.73 0.313616
Target:  5'- -gAGCCGCcgGCA-AGCCGCAuaacuUCAGCc -3'
miRNA:   3'- agUCGGCGuaCGUcUUGGCGU-----AGUUG- -5'
30422 3' -53.1 NC_006548.1 + 1880 0.67 0.598675
Target:  5'- --cGCUGCAgaGCAGAGCUGCgAUgAACa -3'
miRNA:   3'- aguCGGCGUa-CGUCUUGGCG-UAgUUG- -5'
30422 3' -53.1 NC_006548.1 + 3878 0.8 0.103722
Target:  5'- -aAGCUGCAUGCGGAGCUGCAgugCAugGCg -3'
miRNA:   3'- agUCGGCGUACGUCUUGGCGUa--GU--UG- -5'
30422 3' -53.1 NC_006548.1 + 4241 0.67 0.610287
Target:  5'- cCGGCUGUucauucGUGCGGAagacgcaccacGCCuGUAUCAGCg -3'
miRNA:   3'- aGUCGGCG------UACGUCU-----------UGG-CGUAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 4300 0.67 0.610287
Target:  5'- gUCAGCaCG-GUGCAGAGCgGCAgaugggUAGCu -3'
miRNA:   3'- -AGUCG-GCgUACGUCUUGgCGUa-----GUUG- -5'
30422 3' -53.1 NC_006548.1 + 4898 0.7 0.464448
Target:  5'- uUCGGCCGCuccagugGCGcAACCGCAgccaucauggcuUCGGCa -3'
miRNA:   3'- -AGUCGGCGua-----CGUcUUGGCGU------------AGUUG- -5'
30422 3' -53.1 NC_006548.1 + 7006 0.71 0.374784
Target:  5'- aUCaAGCCGCuggcGCgaAGAuccucgACCGCAUCAGCa -3'
miRNA:   3'- -AG-UCGGCGua--CG--UCU------UGGCGUAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 7276 0.73 0.321039
Target:  5'- gCAGCCGCG-GCAGAGCUgggccugucgcugGCAUCGc- -3'
miRNA:   3'- aGUCGGCGUaCGUCUUGG-------------CGUAGUug -5'
30422 3' -53.1 NC_006548.1 + 7665 0.8 0.100658
Target:  5'- cCAGCgCGCG-GCAGAGCUGCGUCAGg -3'
miRNA:   3'- aGUCG-GCGUaCGUCUUGGCGUAGUUg -5'
30422 3' -53.1 NC_006548.1 + 8373 1.11 0.00059
Target:  5'- gUCAGCCGCAUGCAGAACCGCAUCAACg -3'
miRNA:   3'- -AGUCGGCGUACGUCUUGGCGUAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 12149 0.7 0.443534
Target:  5'- cCGGCCaGCA-GCAGGA--GCAUCAGCg -3'
miRNA:   3'- aGUCGG-CGUaCGUCUUggCGUAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 12198 0.7 0.443534
Target:  5'- cUCGGCgGCccGCGGGAUCuCAUCGGCc -3'
miRNA:   3'- -AGUCGgCGuaCGUCUUGGcGUAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 12586 0.67 0.633564
Target:  5'- cUCGGCCGCcaacuuccGCgAGAACCGCAa---- -3'
miRNA:   3'- -AGUCGGCGua------CG-UCUUGGCGUaguug -5'
30422 3' -53.1 NC_006548.1 + 12999 0.67 0.610287
Target:  5'- --cGCCGCA--CAGcACCGCGcUCAGCg -3'
miRNA:   3'- aguCGGCGUacGUCuUGGCGU-AGUUG- -5'
30422 3' -53.1 NC_006548.1 + 13037 0.72 0.356509
Target:  5'- aCGGUCGUAgcuUGCGGAGCCGUggAUCAccACg -3'
miRNA:   3'- aGUCGGCGU---ACGUCUUGGCG--UAGU--UG- -5'
30422 3' -53.1 NC_006548.1 + 14374 0.7 0.479388
Target:  5'- uUCGGCCuggcucgggaacugcGCcUGCAGGuCCGCgAUCAGCu -3'
miRNA:   3'- -AGUCGG---------------CGuACGUCUuGGCG-UAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 15843 0.67 0.598675
Target:  5'- cCGGUgGCGucgaUGCAGAugCGCucaCAGCg -3'
miRNA:   3'- aGUCGgCGU----ACGUCUugGCGua-GUUG- -5'
30422 3' -53.1 NC_006548.1 + 16504 0.76 0.208697
Target:  5'- gCAGCUGCAgcgcguggGCuGGGACCGCGUCAccaGCa -3'
miRNA:   3'- aGUCGGCGUa-------CG-UCUUGGCGUAGU---UG- -5'
30422 3' -53.1 NC_006548.1 + 16994 0.75 0.233307
Target:  5'- aUCAGUCuguaugGCAUGCAGGGCCGCcagUAGCu -3'
miRNA:   3'- -AGUCGG------CGUACGUCUUGGCGua-GUUG- -5'
30422 3' -53.1 NC_006548.1 + 18059 0.7 0.475095
Target:  5'- cCAGCCGCAUaGCuGGugCGCAgauUCGu- -3'
miRNA:   3'- aGUCGGCGUA-CGuCUugGCGU---AGUug -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.