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
22360 3' -57.7 NC_005045.1 + 28705 0.66 0.505069
Target:  5'- aGGccGGCCUGCUGGgucagaagaguaccACGgcGGGGCAa- -3'
miRNA:   3'- aCCauCUGGACGACC--------------UGC--UCCCGUgg -5'
22360 3' -57.7 NC_005045.1 + 39179 0.66 0.497773
Target:  5'- cGGUucccGACC--CUGGACGAGcaGGCGCg -3'
miRNA:   3'- aCCAu---CUGGacGACCUGCUC--CCGUGg -5'
22360 3' -57.7 NC_005045.1 + 14127 0.66 0.477198
Target:  5'- cGGcAGcCUUGUUGGccaggGCGAGGGCGgCu -3'
miRNA:   3'- aCCaUCuGGACGACC-----UGCUCCCGUgG- -5'
22360 3' -57.7 NC_005045.1 + 39015 0.67 0.467068
Target:  5'- cGGUAGcCCUGgaGGGCGGcGGUgauCCc -3'
miRNA:   3'- aCCAUCuGGACgaCCUGCUcCCGu--GG- -5'
22360 3' -57.7 NC_005045.1 + 11696 0.67 0.457051
Target:  5'- aUGGaccaGGACCUGCUGaGCGAGuaccuguccGGC-CCg -3'
miRNA:   3'- -ACCa---UCUGGACGACcUGCUC---------CCGuGG- -5'
22360 3' -57.7 NC_005045.1 + 31306 0.67 0.43737
Target:  5'- cGGUAuGGCCUuccagaUGGGCGAaGGGCguGCCc -3'
miRNA:   3'- aCCAU-CUGGAcg----ACCUGCU-CCCG--UGG- -5'
22360 3' -57.7 NC_005045.1 + 6023 0.67 0.427713
Target:  5'- aGGgcuuGACCcgGCUGGugGAgguaggucaacGGGCcgGCCu -3'
miRNA:   3'- aCCau--CUGGa-CGACCugCU-----------CCCG--UGG- -5'
22360 3' -57.7 NC_005045.1 + 16911 0.67 0.427713
Target:  5'- cUGGUGGcCCugcacaagcUGCUGGACGaAGcGGaCAUCa -3'
miRNA:   3'- -ACCAUCuGG---------ACGACCUGC-UC-CC-GUGG- -5'
22360 3' -57.7 NC_005045.1 + 33086 0.68 0.399519
Target:  5'- cGGUGGGCCggGaCUGuggucccgcuucGugGAGGGUAUCc -3'
miRNA:   3'- aCCAUCUGGa-C-GAC------------CugCUCCCGUGG- -5'
22360 3' -57.7 NC_005045.1 + 16882 0.68 0.390389
Target:  5'- aGGgcGcCCcGCUGGACGAccuGCACCu -3'
miRNA:   3'- aCCauCuGGaCGACCUGCUcc-CGUGG- -5'
22360 3' -57.7 NC_005045.1 + 41152 0.68 0.372542
Target:  5'- aGGUGGACCgUGCccUGGAccagaaccgccCGuGGGCugACCg -3'
miRNA:   3'- aCCAUCUGG-ACG--ACCU-----------GCuCCCG--UGG- -5'
22360 3' -57.7 NC_005045.1 + 267 0.68 0.367297
Target:  5'- gGGaAGACCguagGCUGG-CGcugguagcccaccgcAGGGCGCUg -3'
miRNA:   3'- aCCaUCUGGa---CGACCuGC---------------UCCCGUGG- -5'
22360 3' -57.7 NC_005045.1 + 42330 0.68 0.367297
Target:  5'- gGGaAGACCguagGCUGG-CGcugguagcccaccgcAGGGCGCUg -3'
miRNA:   3'- aCCaUCUGGa---CGACCuGC---------------UCCCGUGG- -5'
22360 3' -57.7 NC_005045.1 + 40604 0.69 0.355258
Target:  5'- aGGgcGACaagGCcGG-CGAGGGCAgCCg -3'
miRNA:   3'- aCCauCUGga-CGaCCuGCUCCCGU-GG- -5'
22360 3' -57.7 NC_005045.1 + 32508 0.7 0.299304
Target:  5'- cGGUAucucGGCCUGCUccACGcGGGCGCUa -3'
miRNA:   3'- aCCAU----CUGGACGAccUGCuCCCGUGG- -5'
22360 3' -57.7 NC_005045.1 + 7077 0.71 0.263675
Target:  5'- ---cGGACgUGCUGcacAUGAGGGCACCc -3'
miRNA:   3'- accaUCUGgACGACc--UGCUCCCGUGG- -5'
22360 3' -57.7 NC_005045.1 + 15391 0.71 0.235856
Target:  5'- cGGcGGGCCgugGC-GGACGuguacgagcgaggcGGGGCGCCg -3'
miRNA:   3'- aCCaUCUGGa--CGaCCUGC--------------UCCCGUGG- -5'
22360 3' -57.7 NC_005045.1 + 32395 1.12 0.000233
Target:  5'- gUGGUAGACCUGCUGGACGAGGGCACCg -3'
miRNA:   3'- -ACCAUCUGGACGACCUGCUCCCGUGG- -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.