miRNA display CGI


Results 1 - 20 of 35 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
1644 5' -59.5 NC_001347.2 + 129012 1.1 0.00187
Target:  5'- aUCAUCACCGACCCUGCGUCCCCGCACg -3'
miRNA:   3'- -AGUAGUGGCUGGGACGCAGGGGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 38456 0.73 0.448496
Target:  5'- cCGUCGCCGGCCCcgccGCGcagcccagCCaCCGCGCg -3'
miRNA:   3'- aGUAGUGGCUGGGa---CGCa-------GG-GGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 114441 0.72 0.529955
Target:  5'- cCGUCucaGCCaGCgCCUGUGUCaCCCGCGCu -3'
miRNA:   3'- aGUAG---UGGcUG-GGACGCAG-GGGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 38029 0.71 0.577509
Target:  5'- gCGggCGCCGACUC-GCGUCCCaGCGCc -3'
miRNA:   3'- aGUa-GUGGCUGGGaCGCAGGGgCGUG- -5'
1644 5' -59.5 NC_001347.2 + 71708 0.7 0.616214
Target:  5'- aUCAUCgccGCCGACCC-GCGUgugCCCUGCc- -3'
miRNA:   3'- -AGUAG---UGGCUGGGaCGCA---GGGGCGug -5'
1644 5' -59.5 NC_001347.2 + 89652 0.7 0.642461
Target:  5'- gCGUCAUCGACCCgGCcugcugacgcgcucGUCUcgaCCGCACa -3'
miRNA:   3'- aGUAGUGGCUGGGaCG--------------CAGG---GGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 85863 0.7 0.645377
Target:  5'- gUCGcgCACCGGCUC-GCGUCCgUGCAUc -3'
miRNA:   3'- -AGUa-GUGGCUGGGaCGCAGGgGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 226296 0.7 0.655088
Target:  5'- cCGUguCCGGUCCUGauUCCCCGCAUg -3'
miRNA:   3'- aGUAguGGCUGGGACgcAGGGGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 16779 0.69 0.671555
Target:  5'- uUCG-CGCCGGCCUcaugaagguguacgUGCGUCgCCGCuACg -3'
miRNA:   3'- -AGUaGUGGCUGGG--------------ACGCAGgGGCG-UG- -5'
1644 5' -59.5 NC_001347.2 + 60438 0.69 0.684093
Target:  5'- cCAUCuACCcACCCUGCGagacaUCCGCACc -3'
miRNA:   3'- aGUAG-UGGcUGGGACGCag---GGGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 21537 0.69 0.693694
Target:  5'- cCGUCgAUCGACCgU-UGUCCCCGCAa -3'
miRNA:   3'- aGUAG-UGGCUGGgAcGCAGGGGCGUg -5'
1644 5' -59.5 NC_001347.2 + 24647 0.69 0.712749
Target:  5'- --cUCGCCGGCCUccugGCGcacaUCCCgGCGCu -3'
miRNA:   3'- aguAGUGGCUGGGa---CGC----AGGGgCGUG- -5'
1644 5' -59.5 NC_001347.2 + 28867 0.69 0.722188
Target:  5'- -gAUCACC-ACCCUGU-UCCCCGUgACg -3'
miRNA:   3'- agUAGUGGcUGGGACGcAGGGGCG-UG- -5'
1644 5' -59.5 NC_001347.2 + 174140 0.68 0.731556
Target:  5'- ---cCACCGuCCCUcaGCGacgUCCCGCGCg -3'
miRNA:   3'- aguaGUGGCuGGGA--CGCa--GGGGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 94315 0.68 0.750053
Target:  5'- -gAUCGCCG-CCCacgGCGUCCUCG-GCg -3'
miRNA:   3'- agUAGUGGCuGGGa--CGCAGGGGCgUG- -5'
1644 5' -59.5 NC_001347.2 + 229229 0.68 0.768175
Target:  5'- cCGUCcCCGGCCCcaacacCGU-CCCGCACa -3'
miRNA:   3'- aGUAGuGGCUGGGac----GCAgGGGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 47393 0.68 0.777076
Target:  5'- cUCAUCACCGuCCCg--GUCUCCGUc- -3'
miRNA:   3'- -AGUAGUGGCuGGGacgCAGGGGCGug -5'
1644 5' -59.5 NC_001347.2 + 102989 0.67 0.78586
Target:  5'- -gGUCGCCGugC-UGCGUCUgguaaCGCGCa -3'
miRNA:   3'- agUAGUGGCugGgACGCAGGg----GCGUG- -5'
1644 5' -59.5 NC_001347.2 + 39090 0.67 0.78586
Target:  5'- uUCAUCugGCUG-CgCgGCGUCaCCCGCGCg -3'
miRNA:   3'- -AGUAG--UGGCuGgGaCGCAG-GGGCGUG- -5'
1644 5' -59.5 NC_001347.2 + 38647 0.67 0.794519
Target:  5'- -aGUCGCCuGCCCgGCGUCUgCaGCGCc -3'
miRNA:   3'- agUAGUGGcUGGGaCGCAGGgG-CGUG- -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.