miRNA display CGI


Results 1 - 20 of 53 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
11424 3' -56.4 NC_003085.1 + 43376 0.65 0.670657
Target:  5'- gCGACGgaGGACucccuGGGGCCgcuggugcaucccgGUGGGGCUc -3'
miRNA:   3'- aGCUGCa-UCUGc----UCCCGG--------------UACCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 18865 0.66 0.663047
Target:  5'- uUCGGCca--GCGAaGGCUgAUGGAGCCg -3'
miRNA:   3'- -AGCUGcaucUGCUcCCGG-UACCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 36017 0.66 0.663047
Target:  5'- cUUGGCG--GAUGGcGGCCAUGGGcacGCCg -3'
miRNA:   3'- -AGCUGCauCUGCUcCCGGUACCU---CGG- -5'
11424 3' -56.4 NC_003085.1 + 42015 0.66 0.661959
Target:  5'- gCGGCGUcggcacGGACGAGGGCgccuucucuccagCcgGGuAGCa -3'
miRNA:   3'- aGCUGCA------UCUGCUCCCG-------------GuaCC-UCGg -5'
11424 3' -56.4 NC_003085.1 + 21020 0.66 0.659781
Target:  5'- uUCGACGcGGACGGcagccgcaaucucuGGGCUuccgucccgaagGUGGgcaAGCCg -3'
miRNA:   3'- -AGCUGCaUCUGCU--------------CCCGG------------UACC---UCGG- -5'
11424 3' -56.4 NC_003085.1 + 104 0.66 0.652152
Target:  5'- aCGGCGgacGGGCGGcGGGCCcccaauGUGGGGa- -3'
miRNA:   3'- aGCUGCa--UCUGCU-CCCGG------UACCUCgg -5'
11424 3' -56.4 NC_003085.1 + 25281 0.66 0.652152
Target:  5'- cUCGGCGcuggAGAUGAcguccugugGGGCCGUcGGuAGCa -3'
miRNA:   3'- -AGCUGCa---UCUGCU---------CCCGGUA-CC-UCGg -5'
11424 3' -56.4 NC_003085.1 + 8150 0.66 0.64124
Target:  5'- uUCGGCGUgucgguGGGCGuGaGGUCGUcgaaGAGCCg -3'
miRNA:   3'- -AGCUGCA------UCUGCuC-CCGGUAc---CUCGG- -5'
11424 3' -56.4 NC_003085.1 + 16306 0.66 0.630319
Target:  5'- -aGGCGccauGACGGGauGGCCcgGGAGUUg -3'
miRNA:   3'- agCUGCau--CUGCUC--CCGGuaCCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 18353 0.66 0.630319
Target:  5'- --uACG-GGGCGGugcaGGCCGUGGAGUCg -3'
miRNA:   3'- agcUGCaUCUGCUc---CCGGUACCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 32129 0.66 0.630319
Target:  5'- -gGugGUGcGACGGGGGCgGcUGGuGGCg -3'
miRNA:   3'- agCugCAU-CUGCUCCCGgU-ACC-UCGg -5'
11424 3' -56.4 NC_003085.1 + 27762 0.66 0.630319
Target:  5'- -gGAUGUccgAGGCGAagcGGGCCAccucguccUGGAGgCg -3'
miRNA:   3'- agCUGCA---UCUGCU---CCCGGU--------ACCUCgG- -5'
11424 3' -56.4 NC_003085.1 + 47316 0.66 0.623767
Target:  5'- -gGACGUcaugAGGCGGGGGCCGccguccucGGAcguguacuugugggcGCCg -3'
miRNA:   3'- agCUGCA----UCUGCUCCCGGUa-------CCU---------------CGG- -5'
11424 3' -56.4 NC_003085.1 + 22783 0.66 0.6194
Target:  5'- cUUGuCGUAGuCGuccuGGcacGCCGUGGAGUCg -3'
miRNA:   3'- -AGCuGCAUCuGCu---CC---CGGUACCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 40839 0.66 0.6194
Target:  5'- cUGACGgcGGcCGGGcuGGCCAaccUGGAGgCCa -3'
miRNA:   3'- aGCUGCauCU-GCUC--CCGGU---ACCUC-GG- -5'
11424 3' -56.4 NC_003085.1 + 31916 0.67 0.608492
Target:  5'- aCGAagcCGUAGACGAaGGCgcUGcGAGCCc -3'
miRNA:   3'- aGCU---GCAUCUGCUcCCGguAC-CUCGG- -5'
11424 3' -56.4 NC_003085.1 + 21557 0.67 0.597604
Target:  5'- aCGcGCGgcccGCGAGGGCCAUGacGAGUUg -3'
miRNA:   3'- aGC-UGCauc-UGCUCCCGGUAC--CUCGG- -5'
11424 3' -56.4 NC_003085.1 + 11733 0.67 0.597604
Target:  5'- cUCGACGUGGugcuguCGAGGGgCAUGacacGCg -3'
miRNA:   3'- -AGCUGCAUCu-----GCUCCCgGUACcu--CGg -5'
11424 3' -56.4 NC_003085.1 + 17185 0.67 0.575923
Target:  5'- cUGACGggAGACGAgucccGGGCCAccGAGgCCu -3'
miRNA:   3'- aGCUGCa-UCUGCU-----CCCGGUacCUC-GG- -5'
11424 3' -56.4 NC_003085.1 + 43762 0.67 0.575923
Target:  5'- -gGugGUGGGCGcGGGCU-UGGAcucaacaccgGCCa -3'
miRNA:   3'- agCugCAUCUGCuCCCGGuACCU----------CGG- -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.