miRNA display CGI


Results 1 - 20 of 42 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
18952 3' -52.7 NC_004683.1 + 25281 0.66 0.870376
Target:  5'- uGGCcgCGcu-GCCGGGCCUGCAggcGCAc -3'
miRNA:   3'- cUUGuaGCucuUGGCCUGGGCGU---UGU- -5'
18952 3' -52.7 NC_004683.1 + 40414 0.66 0.870376
Target:  5'- aGGCGUCGAGAuacucgcucAUCGGGucacCgCCGCGGCGa -3'
miRNA:   3'- cUUGUAGCUCU---------UGGCCU----G-GGCGUUGU- -5'
18952 3' -52.7 NC_004683.1 + 56735 0.66 0.870376
Target:  5'- -cGCcUCGAccauGGGCCGGACCUGUucgcGCAg -3'
miRNA:   3'- cuUGuAGCU----CUUGGCCUGGGCGu---UGU- -5'
18952 3' -52.7 NC_004683.1 + 26946 0.66 0.862206
Target:  5'- cAGCAUCGAGuucAACCucGAUCCGCAGu- -3'
miRNA:   3'- cUUGUAGCUC---UUGGc-CUGGGCGUUgu -5'
18952 3' -52.7 NC_004683.1 + 23808 0.66 0.862206
Target:  5'- cGGCGcCGGGGuggugccgccGCCGGugCCGCcGCGg -3'
miRNA:   3'- cUUGUaGCUCU----------UGGCCugGGCGuUGU- -5'
18952 3' -52.7 NC_004683.1 + 47083 0.66 0.857185
Target:  5'- cGACGUCGAgGAuguccuguuccgcauGCUGGAgCCGCGAgAg -3'
miRNA:   3'- cUUGUAGCU-CU---------------UGGCCUgGGCGUUgU- -5'
18952 3' -52.7 NC_004683.1 + 51016 0.66 0.853789
Target:  5'- -----cCGAGGGCUGGauGCCCGaCGACGa -3'
miRNA:   3'- cuuguaGCUCUUGGCC--UGGGC-GUUGU- -5'
18952 3' -52.7 NC_004683.1 + 17439 0.66 0.853789
Target:  5'- -uACGUCGAGAACac--CCCGUGGCGa -3'
miRNA:   3'- cuUGUAGCUCUUGgccuGGGCGUUGU- -5'
18952 3' -52.7 NC_004683.1 + 37159 0.66 0.853789
Target:  5'- cGAGCAUCGAuGACCuGGGCaUCGCcGCc -3'
miRNA:   3'- -CUUGUAGCUcUUGG-CCUG-GGCGuUGu -5'
18952 3' -52.7 NC_004683.1 + 48581 0.66 0.845132
Target:  5'- cGGCggCGAGAG-CGGACCUGguGCc -3'
miRNA:   3'- cUUGuaGCUCUUgGCCUGGGCguUGu -5'
18952 3' -52.7 NC_004683.1 + 14677 0.66 0.845132
Target:  5'- --uCGUCGGGGucaucuuuccAgCGGGCCUGCGACc -3'
miRNA:   3'- cuuGUAGCUCU----------UgGCCUGGGCGUUGu -5'
18952 3' -52.7 NC_004683.1 + 22693 0.66 0.844254
Target:  5'- aGACAUCGAaucuccugucguuGAuuacuggugacaGCCGGugCCGCAcCAu -3'
miRNA:   3'- cUUGUAGCU-------------CU------------UGGCCugGGCGUuGU- -5'
18952 3' -52.7 NC_004683.1 + 30568 0.66 0.844254
Target:  5'- cGGCAUCGAGGACCGuGGugucaaagggaauUCCGUcGCGa -3'
miRNA:   3'- cUUGUAGCUCUUGGC-CU-------------GGGCGuUGU- -5'
18952 3' -52.7 NC_004683.1 + 14199 0.66 0.844254
Target:  5'- cGAgGUUGAGAucaaacuGCUGGugcguggccgcgACCCGCAGCAc -3'
miRNA:   3'- cUUgUAGCUCU-------UGGCC------------UGGGCGUUGU- -5'
18952 3' -52.7 NC_004683.1 + 12579 0.66 0.827137
Target:  5'- cGGCAUuucCGAGGGucugcCCGGACUCGcCGACAa -3'
miRNA:   3'- cUUGUA---GCUCUU-----GGCCUGGGC-GUUGU- -5'
18952 3' -52.7 NC_004683.1 + 2903 0.66 0.827137
Target:  5'- cGGAC-UCGuu-GCCGGACUgGCGACc -3'
miRNA:   3'- -CUUGuAGCucuUGGCCUGGgCGUUGu -5'
18952 3' -52.7 NC_004683.1 + 23770 0.67 0.817818
Target:  5'- gGAACGUCGAGAACCcgucggcgcGGAUCUuGCGc-- -3'
miRNA:   3'- -CUUGUAGCUCUUGG---------CCUGGG-CGUugu -5'
18952 3' -52.7 NC_004683.1 + 31393 0.67 0.817818
Target:  5'- cGACAUCGccgccACCGccacGGCCCGCAGCu -3'
miRNA:   3'- cUUGUAGCucu--UGGC----CUGGGCGUUGu -5'
18952 3' -52.7 NC_004683.1 + 15144 0.67 0.808297
Target:  5'- cAGCAg-GGGuucGugCGGAUCCGCAACAu -3'
miRNA:   3'- cUUGUagCUC---UugGCCUGGGCGUUGU- -5'
18952 3' -52.7 NC_004683.1 + 54611 0.67 0.798586
Target:  5'- cGACGUCGccGACCGGACgaUCGcCAACAu -3'
miRNA:   3'- cUUGUAGCucUUGGCCUG--GGC-GUUGU- -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.