miRNA display CGI


Results 1 - 20 of 20 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
1582 3' -48.6 NC_001347.2 + 136307 0.66 0.999953
Target:  5'- cGGgGCUCGcgcUCCCUAGGUG---CGGCCg -3'
miRNA:   3'- -CCaCGAGC---AGGGGUUUAUcuaGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 37951 0.66 0.999919
Target:  5'- aGGUGCagcgCGUCCC-----AGcgCGGCCg -3'
miRNA:   3'- -CCACGa---GCAGGGguuuaUCuaGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 192169 0.66 0.999919
Target:  5'- cGGUuuccGC-CGUCUCCGGAU-GAgCGGCCg -3'
miRNA:   3'- -CCA----CGaGCAGGGGUUUAuCUaGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 165592 0.66 0.999919
Target:  5'- cGGcgcgGCacuUCGUCgCCCAGucuGUAGAccggCAGCCg -3'
miRNA:   3'- -CCa---CG---AGCAG-GGGUU---UAUCUa---GUUGG- -5'
1582 3' -48.6 NC_001347.2 + 154309 0.66 0.999895
Target:  5'- cGGUGC-CGgCCCaCAuAUAGAaaagCAGCUg -3'
miRNA:   3'- -CCACGaGCaGGG-GUuUAUCUa---GUUGG- -5'
1582 3' -48.6 NC_001347.2 + 75970 0.66 0.999865
Target:  5'- gGGcUGCggcgaGUCgCCCAGc-GGGUCGGCCa -3'
miRNA:   3'- -CC-ACGag---CAG-GGGUUuaUCUAGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 124025 0.67 0.999779
Target:  5'- aGGcUGCaaGUCCCgCAGuUGGAugucgUCAACCu -3'
miRNA:   3'- -CC-ACGagCAGGG-GUUuAUCU-----AGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 199424 0.67 0.999779
Target:  5'- uGG-GCUCGaagCCCAGAUu-GUCGGCCa -3'
miRNA:   3'- -CCaCGAGCag-GGGUUUAucUAGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 7930 0.67 0.999649
Target:  5'- cGGUaGCUCcuucuuuUCCCCAGGUGGugCGACUg -3'
miRNA:   3'- -CCA-CGAGc------AGGGGUUUAUCuaGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 144296 0.67 0.999562
Target:  5'- -uUGC-CGcCCCCAAcaGGAUCAucgACCu -3'
miRNA:   3'- ccACGaGCaGGGGUUuaUCUAGU---UGG- -5'
1582 3' -48.6 NC_001347.2 + 81251 0.67 0.999562
Target:  5'- cGUGCUCGgagauguagCCCagCAGAcucUGGAUCuGCCa -3'
miRNA:   3'- cCACGAGCa--------GGG--GUUU---AUCUAGuUGG- -5'
1582 3' -48.6 NC_001347.2 + 35993 0.67 0.999553
Target:  5'- uGGcUGCguugCGUCCCCGAacugcgaGUGGAUUAcACg -3'
miRNA:   3'- -CC-ACGa---GCAGGGGUU-------UAUCUAGU-UGg -5'
1582 3' -48.6 NC_001347.2 + 150674 0.68 0.999502
Target:  5'- cGGUGUUUGagCCCgAGGUGGGUUAuacaacgaccccgugGCCg -3'
miRNA:   3'- -CCACGAGCa-GGGgUUUAUCUAGU---------------UGG- -5'
1582 3' -48.6 NC_001347.2 + 158393 0.68 0.999457
Target:  5'- --aGCUCGUCUCCGAGacgcucuuUGGA-CAGCg -3'
miRNA:   3'- ccaCGAGCAGGGGUUU--------AUCUaGUUGg -5'
1582 3' -48.6 NC_001347.2 + 15135 0.68 0.999
Target:  5'- cGGUGCcgUGUacgccaUCCAGAUGGA-CGACCc -3'
miRNA:   3'- -CCACGa-GCAg-----GGGUUUAUCUaGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 85270 0.69 0.998538
Target:  5'- cGUGUuuUCGUCCUCGAAaGGuAUCGGCg -3'
miRNA:   3'- cCACG--AGCAGGGGUUUaUC-UAGUUGg -5'
1582 3' -48.6 NC_001347.2 + 31295 0.69 0.997908
Target:  5'- aGGUGgauaCGUCCCUggGUccgAGGUCGGCa -3'
miRNA:   3'- -CCACga--GCAGGGGuuUA---UCUAGUUGg -5'
1582 3' -48.6 NC_001347.2 + 54298 0.75 0.943719
Target:  5'- --gGCagCGUUCCCuaucGAUGGAUCAACCu -3'
miRNA:   3'- ccaCGa-GCAGGGGu---UUAUCUAGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 94352 0.79 0.808716
Target:  5'- cGGUGCgUCGUCCUCAucuccGccuggagcgcggcccGUGGAUCGGCCa -3'
miRNA:   3'- -CCACG-AGCAGGGGU-----U---------------UAUCUAGUUGG- -5'
1582 3' -48.6 NC_001347.2 + 183909 1.15 0.010653
Target:  5'- cGGUGCUCGUCCCCAAAUAGAUCAACCc -3'
miRNA:   3'- -CCACGAGCAGGGGUUUAUCUAGUUGG- -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.