miRNA display CGI


Results 1 - 20 of 24 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
9360 3' -48.5 NC_002512.2 + 162709 0.66 0.999911
Target:  5'- -----cAGCAGCUcCCGCUUcgUCUCCa -3'
miRNA:   3'- agaagaUUGUUGA-GGCGAGaaGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 165854 0.66 0.999885
Target:  5'- aUCUUCUucAACcGCUucuccCCGgaCUUCCUCa -3'
miRNA:   3'- -AGAAGA--UUGuUGA-----GGCgaGAAGGAGg -5'
9360 3' -48.5 NC_002512.2 + 190766 0.67 0.999795
Target:  5'- cUCUUCUAcguggaccgggucaACAGCcgcaUCCGCU--UCCUCg -3'
miRNA:   3'- -AGAAGAU--------------UGUUG----AGGCGAgaAGGAGg -5'
9360 3' -48.5 NC_002512.2 + 177217 0.67 0.99959
Target:  5'- gUUUCUucaccaccgccagcAGCAGCgcCCGCUCcgucgCCUCCa -3'
miRNA:   3'- aGAAGA--------------UUGUUGa-GGCGAGaa---GGAGG- -5'
9360 3' -48.5 NC_002512.2 + 1279 0.67 0.999521
Target:  5'- gCUUCUucaucuccagaAACAcCgUCUGCUUUUCUUCCg -3'
miRNA:   3'- aGAAGA-----------UUGUuG-AGGCGAGAAGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 170989 0.67 0.999521
Target:  5'- aUCUccgUCggucGGCGACacgCCGCUUU-CCUCCg -3'
miRNA:   3'- -AGA---AGa---UUGUUGa--GGCGAGAaGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 160556 0.67 0.999521
Target:  5'- cUUUCgagAACAAC-CCGCUUUUCaaCCg -3'
miRNA:   3'- aGAAGa--UUGUUGaGGCGAGAAGgaGG- -5'
9360 3' -48.5 NC_002512.2 + 149992 0.68 0.999207
Target:  5'- ---cCUGACGACgcgggaacccacgCCGgggcuCUCUUCCUCCu -3'
miRNA:   3'- agaaGAUUGUUGa------------GGC-----GAGAAGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 214586 0.68 0.99891
Target:  5'- cCUg--GGCGACgagaCGCUCUUCCUgCa -3'
miRNA:   3'- aGAagaUUGUUGag--GCGAGAAGGAgG- -5'
9360 3' -48.5 NC_002512.2 + 200584 0.69 0.998411
Target:  5'- --gUCcguCGugUCCuCUCUUCCUCCu -3'
miRNA:   3'- agaAGauuGUugAGGcGAGAAGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 161392 0.69 0.99773
Target:  5'- gCUUCaucAACGGC-CCGCUCUUCaC-CCg -3'
miRNA:   3'- aGAAGa--UUGUUGaGGCGAGAAG-GaGG- -5'
9360 3' -48.5 NC_002512.2 + 198192 0.69 0.997307
Target:  5'- gUCggCgAACAGgUCCGCg--UCCUCCu -3'
miRNA:   3'- -AGaaGaUUGUUgAGGCGagaAGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 186385 0.69 0.996821
Target:  5'- --gUCUGuaccgaccgcuGCAGCUCCGCg--UCCUCg -3'
miRNA:   3'- agaAGAU-----------UGUUGAGGCGagaAGGAGg -5'
9360 3' -48.5 NC_002512.2 + 178095 0.7 0.996264
Target:  5'- gCUUCUgGACgAACUccaCCGCUUUcuugUCCUCCu -3'
miRNA:   3'- aGAAGA-UUG-UUGA---GGCGAGA----AGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 144968 0.7 0.99491
Target:  5'- -gUUCaUGACGacgcuGCUCCGCUCccgCUUCCg -3'
miRNA:   3'- agAAG-AUUGU-----UGAGGCGAGaa-GGAGG- -5'
9360 3' -48.5 NC_002512.2 + 170536 0.7 0.993653
Target:  5'- cUCUUCcccgauccgcuGCAGCUCCGCguccaggucgcaguUCU-CCUCCg -3'
miRNA:   3'- -AGAAGau---------UGUUGAGGCG--------------AGAaGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 186270 0.7 0.993182
Target:  5'- gUCUUCUu-CAGCuUCCGCag--CCUCCg -3'
miRNA:   3'- -AGAAGAuuGUUG-AGGCGagaaGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 182487 0.7 0.992786
Target:  5'- aUCUUCaccagcgcgucCAGCUCCGUg--UCCUCCg -3'
miRNA:   3'- -AGAAGauu--------GUUGAGGCGagaAGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 75613 0.71 0.988339
Target:  5'- gUUUUCUGACGcUUCgGCUCc-CCUCCg -3'
miRNA:   3'- -AGAAGAUUGUuGAGgCGAGaaGGAGG- -5'
9360 3' -48.5 NC_002512.2 + 174011 0.72 0.984354
Target:  5'- cCUUCgcagcgccgcguACAugUCCGcCUCgaagUCCUCCa -3'
miRNA:   3'- aGAAGau----------UGUugAGGC-GAGa---AGGAGG- -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.