miRNA display CGI


Results 1 - 20 of 100 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
23117 3' -55.6 NC_005178.1 + 16816 1.12 0.000333
Target:  5'- cGGCCCAGGACAUGCAAAACCAGGCCGa -3'
miRNA:   3'- -CCGGGUCCUGUACGUUUUGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 10215 0.78 0.094943
Target:  5'- aGGUCCAGGACAUGCugccggauACCGuccgcgacauGGCCGg -3'
miRNA:   3'- -CCGGGUCCUGUACGuuu-----UGGU----------CCGGC- -5'
23117 3' -55.6 NC_005178.1 + 17873 0.77 0.126956
Target:  5'- aGGUCCAGGACGUGCuccuGGACCcGGUa- -3'
miRNA:   3'- -CCGGGUCCUGUACGu---UUUGGuCCGgc -5'
23117 3' -55.6 NC_005178.1 + 26470 0.76 0.14237
Target:  5'- cGGCCgAGGugGaUGCGGGAUCAGGCa- -3'
miRNA:   3'- -CCGGgUCCugU-ACGUUUUGGUCCGgc -5'
23117 3' -55.6 NC_005178.1 + 34723 0.76 0.14237
Target:  5'- aGGUCUAGGGCGUGCAGcACCcccuGGCgGg -3'
miRNA:   3'- -CCGGGUCCUGUACGUUuUGGu---CCGgC- -5'
23117 3' -55.6 NC_005178.1 + 20394 0.76 0.146483
Target:  5'- cGGCCCuGGACGcccagGCGAccAACCuGGCCa -3'
miRNA:   3'- -CCGGGuCCUGUa----CGUU--UUGGuCCGGc -5'
23117 3' -55.6 NC_005178.1 + 10091 0.76 0.150704
Target:  5'- uGGCCCGGcGCAUGUu---CCAGGUCGa -3'
miRNA:   3'- -CCGGGUCcUGUACGuuuuGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 26401 0.75 0.164038
Target:  5'- aGCCCAGGGCG-GCG--GCCAGGgCGc -3'
miRNA:   3'- cCGGGUCCUGUaCGUuuUGGUCCgGC- -5'
23117 3' -55.6 NC_005178.1 + 5949 0.75 0.168713
Target:  5'- uGGCCU-GGACGggGCGGAccagguCCAGGCCGg -3'
miRNA:   3'- -CCGGGuCCUGUa-CGUUUu-----GGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 22674 0.74 0.197153
Target:  5'- aGCCCAGGGCGaccucgcCCAGGCCGa -3'
miRNA:   3'- cCGGGUCCUGUacguuuuGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 16930 0.73 0.216396
Target:  5'- cGGCCCuccuGGAUA-GCGcuguuGAUCAGGCCGu -3'
miRNA:   3'- -CCGGGu---CCUGUaCGUu----UUGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 6401 0.73 0.220552
Target:  5'- cGCCCAGGAgccuccagacgaucCGUGCAuuGACCacgggcGGGCCGu -3'
miRNA:   3'- cCGGGUCCU--------------GUACGUu-UUGG------UCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 1885 0.73 0.228451
Target:  5'- uGGCCCuGG---UGCAGGcugaggaguaucGCCAGGCCGa -3'
miRNA:   3'- -CCGGGuCCuguACGUUU------------UGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 6752 0.73 0.24107
Target:  5'- cGGCCCAGGuCGaggccGCGAccgcuGCCAGGCgGa -3'
miRNA:   3'- -CCGGGUCCuGUa----CGUUu----UGGUCCGgC- -5'
23117 3' -55.6 NC_005178.1 + 11305 0.72 0.247595
Target:  5'- cGCCCAGGugGUG----GCCGGGCUc -3'
miRNA:   3'- cCGGGUCCugUACguuuUGGUCCGGc -5'
23117 3' -55.6 NC_005178.1 + 17398 0.72 0.261082
Target:  5'- cGUCCGGGGCGUaGCugAAGACgGGGCUGa -3'
miRNA:   3'- cCGGGUCCUGUA-CG--UUUUGgUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 23355 0.72 0.261082
Target:  5'- cGGCaCCGGGGCGUcGC---ACCAGGgCGg -3'
miRNA:   3'- -CCG-GGUCCUGUA-CGuuuUGGUCCgGC- -5'
23117 3' -55.6 NC_005178.1 + 19878 0.72 0.267343
Target:  5'- uGGCCCAuGGAUggGCGcccuaugGAuguGCCGGGCUGg -3'
miRNA:   3'- -CCGGGU-CCUGuaCGU-------UU---UGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 17639 0.72 0.268046
Target:  5'- aGUCCAGcGCcgGCAAGACC-GGCCa -3'
miRNA:   3'- cCGGGUCcUGuaCGUUUUGGuCCGGc -5'
23117 3' -55.6 NC_005178.1 + 529 0.71 0.289841
Target:  5'- cGGUCCAGGAacCGUGCccugcgcucACCuGGCCGu -3'
miRNA:   3'- -CCGGGUCCU--GUACGuuu------UGGuCCGGC- -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.