miRNA display CGI


Results 21 - 40 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 + 35719 0.7 0.404209
Target:  5'- uUUGGCGgccacGGCGAGGGCag-GGuGGCCg -3'
miRNA:   3'- -AGCUGCau---CUGCUCCCGguaCC-UCGG- -5'
11424 3' -56.4 NC_003085.1 + 13575 0.7 0.422788
Target:  5'- gCGcGCGUGGACGuGGGCaccGGAGgCg -3'
miRNA:   3'- aGC-UGCAUCUGCuCCCGguaCCUCgG- -5'
11424 3' -56.4 NC_003085.1 + 14691 0.69 0.44187
Target:  5'- gUGGCGcUGGACGAaGGCCAaGGccgaaGGCCa -3'
miRNA:   3'- aGCUGC-AUCUGCUcCCGGUaCC-----UCGG- -5'
11424 3' -56.4 NC_003085.1 + 5615 0.69 0.451592
Target:  5'- gUGACGcggUGGugGAcGGGCUGcUGGAGCg -3'
miRNA:   3'- aGCUGC---AUCugCU-CCCGGU-ACCUCGg -5'
11424 3' -56.4 NC_003085.1 + 16682 0.69 0.46143
Target:  5'- gUCGACcUgcuacacgcaGGGCGGGGGCU-UGGGGCUu -3'
miRNA:   3'- -AGCUGcA----------UCUGCUCCCGGuACCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 48655 0.67 0.575923
Target:  5'- gCGGCGgcacgcGGACGuccaccGuGGCC-UGGGGCCa -3'
miRNA:   3'- aGCUGCa-----UCUGCu-----C-CCGGuACCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 48207 0.67 0.565146
Target:  5'- gUCGugcGCGaAGACGAGGGUgAUGuacGCCa -3'
miRNA:   3'- -AGC---UGCaUCUGCUCCCGgUACcu-CGG- -5'
11424 3' -56.4 NC_003085.1 + 47148 0.67 0.565146
Target:  5'- gCGGCGgccgguGGCGAGGcaggccagcGCCGUgcugccGGAGCCc -3'
miRNA:   3'- aGCUGCau----CUGCUCC---------CGGUA------CCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 42368 0.67 0.554424
Target:  5'- cCGGCc--GGCGAGGauggcgcucaCCAUGGGGCCa -3'
miRNA:   3'- aGCUGcauCUGCUCCc---------GGUACCUCGG- -5'
11424 3' -56.4 NC_003085.1 + 39138 0.68 0.543761
Target:  5'- gCGACGUGG-CGGGGGCCGcaucGcauucguuccacAGCCg -3'
miRNA:   3'- aGCUGCAUCuGCUCCCGGUac--C------------UCGG- -5'
11424 3' -56.4 NC_003085.1 + 26637 0.68 0.542699
Target:  5'- cCGACGUGGcaauCGgagucGGGGCCGUcgccuccugggcgGGAGCg -3'
miRNA:   3'- aGCUGCAUCu---GC-----UCCCGGUA-------------CCUCGg -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 + 31916 0.67 0.608492
Target:  5'- aCGAagcCGUAGACGAaGGCgcUGcGAGCCc -3'
miRNA:   3'- aGCU---GCAUCUGCUcCCGguAC-CUCGG- -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 + 47316 0.66 0.623767
Target:  5'- -gGACGUcaugAGGCGGGGGCCGccguccucGGAcguguacuugugggcGCCg -3'
miRNA:   3'- agCUGCA----UCUGCUCCCGGUa-------CCU---------------CGG- -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 + 8150 0.66 0.64124
Target:  5'- uUCGGCGUgucgguGGGCGuGaGGUCGUcgaaGAGCCg -3'
miRNA:   3'- -AGCUGCA------UCUGCuC-CCGGUAc---CUCGG- -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 + 40365 1.13 0.000417
Target:  5'- cUCGACGUAGACGAGGGCCAUGGAGCCg -3'
miRNA:   3'- -AGCUGCAUCUGCUCCCGGUACCUCGG- -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.