miRNA display CGI


Results 1 - 20 of 29 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
29321 3' -51.2 NC_006150.1 + 134193 1.09 0.012978
Target:  5'- cUCCUUCGAAGGCGAAAACACCUCGCGc -3'
miRNA:   3'- -AGGAAGCUUCCGCUUUUGUGGAGCGC- -5'
29321 3' -51.2 NC_006150.1 + 109813 0.74 0.869096
Target:  5'- cUCCUggGAAGGCGAcGACgACCUC-CGg -3'
miRNA:   3'- -AGGAagCUUCCGCUuUUG-UGGAGcGC- -5'
29321 3' -51.2 NC_006150.1 + 167857 0.73 0.909611
Target:  5'- gUCCUUCGGAGGCac-AGCGCCauuacCGCa -3'
miRNA:   3'- -AGGAAGCUUCCGcuuUUGUGGa----GCGc -5'
29321 3' -51.2 NC_006150.1 + 47705 0.72 0.926713
Target:  5'- gUCCUccUCGAGGacCGGcucACACCUCGCGg -3'
miRNA:   3'- -AGGA--AGCUUCc-GCUuu-UGUGGAGCGC- -5'
29321 3' -51.2 NC_006150.1 + 202816 0.72 0.936915
Target:  5'- gUCCUgcauUCGAgggauggguggAGGCGGAGGCGCUugaagCGCGg -3'
miRNA:   3'- -AGGA----AGCU-----------UCCGCUUUUGUGGa----GCGC- -5'
29321 3' -51.2 NC_006150.1 + 204974 0.71 0.950431
Target:  5'- cCCUUCGAGcGCGAAgagcgucgucAGCGCUUCGUa -3'
miRNA:   3'- aGGAAGCUUcCGCUU----------UUGUGGAGCGc -5'
29321 3' -51.2 NC_006150.1 + 120023 0.7 0.968379
Target:  5'- aCCUgggCG-AGGCcguAACACCUCGCc -3'
miRNA:   3'- aGGAa--GCuUCCGcuuUUGUGGAGCGc -5'
29321 3' -51.2 NC_006150.1 + 126447 0.7 0.968379
Target:  5'- -gCUUUGAuuucGCGAu-ACACCUCGCGa -3'
miRNA:   3'- agGAAGCUuc--CGCUuuUGUGGAGCGC- -5'
29321 3' -51.2 NC_006150.1 + 114719 0.7 0.971322
Target:  5'- cUCCUcCGAGGGCGGccGAGCcaugUCUCGCc -3'
miRNA:   3'- -AGGAaGCUUCCGCU--UUUGu---GGAGCGc -5'
29321 3' -51.2 NC_006150.1 + 215764 0.69 0.978964
Target:  5'- gCCUgucauaUCGAGguuGGCGAGGACGCCacCGUGg -3'
miRNA:   3'- aGGA------AGCUU---CCGCUUUUGUGGa-GCGC- -5'
29321 3' -51.2 NC_006150.1 + 149511 0.69 0.98114
Target:  5'- gCCUaCGAcccgAGGUGGAAGCcCCUCGUc -3'
miRNA:   3'- aGGAaGCU----UCCGCUUUUGuGGAGCGc -5'
29321 3' -51.2 NC_006150.1 + 215130 0.69 0.983144
Target:  5'- cUCCgugCGcGAGGCGgcAGCACC-CGCc -3'
miRNA:   3'- -AGGaa-GC-UUCCGCuuUUGUGGaGCGc -5'
29321 3' -51.2 NC_006150.1 + 125900 0.68 0.986663
Target:  5'- gCCUUCGAaaauccgaGGGCauGAAAuuguGCaACCUCGCa -3'
miRNA:   3'- aGGAAGCU--------UCCG--CUUU----UG-UGGAGCGc -5'
29321 3' -51.2 NC_006150.1 + 105066 0.68 0.988196
Target:  5'- cUCCUUUGAAuuuCGA--ACGCCUCGCu -3'
miRNA:   3'- -AGGAAGCUUcc-GCUuuUGUGGAGCGc -5'
29321 3' -51.2 NC_006150.1 + 127349 0.68 0.989589
Target:  5'- cUUCUUCuGGAGGCaccaGAGuacACACCUCGUa -3'
miRNA:   3'- -AGGAAG-CUUCCG----CUUu--UGUGGAGCGc -5'
29321 3' -51.2 NC_006150.1 + 10035 0.68 0.989589
Target:  5'- gUCCUUuagUGAAGGCc---GgGCCUCGCGc -3'
miRNA:   3'- -AGGAA---GCUUCCGcuuuUgUGGAGCGC- -5'
29321 3' -51.2 NC_006150.1 + 102357 0.68 0.991987
Target:  5'- aCCUUCuGAGGCG---GCGCUUCGgGc -3'
miRNA:   3'- aGGAAGcUUCCGCuuuUGUGGAGCgC- -5'
29321 3' -51.2 NC_006150.1 + 36787 0.68 0.991987
Target:  5'- -----aGccGGCGAGAGCgGCCUCGCGc -3'
miRNA:   3'- aggaagCuuCCGCUUUUG-UGGAGCGC- -5'
29321 3' -51.2 NC_006150.1 + 109002 0.67 0.993925
Target:  5'- aCCaguacgUUGAAGGCGGuuACACgUUUGCGa -3'
miRNA:   3'- aGGa-----AGCUUCCGCUuuUGUG-GAGCGC- -5'
29321 3' -51.2 NC_006150.1 + 141902 0.67 0.993925
Target:  5'- aCCUuuaUCGA--GCGA--ACGCCUUGCGa -3'
miRNA:   3'- aGGA---AGCUucCGCUuuUGUGGAGCGC- -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.