miRNA display CGI


Results 1 - 20 of 23 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
22299 3' -52.7 NC_005045.1 + 5060 1.12 0.000908
Target:  5'- gCGAGUAAGGCCCGCACGUAAUAGGCCc -3'
miRNA:   3'- -GCUCAUUCCGGGCGUGCAUUAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 5749 0.7 0.525759
Target:  5'- gCGGGUAGcGGCCaGCuuGUGccAGGCCg -3'
miRNA:   3'- -GCUCAUU-CCGGgCGugCAUuaUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 8477 0.71 0.493352
Target:  5'- uGAGcgacGAGGCCCuGCGcCGUGAggGGGUCa -3'
miRNA:   3'- gCUCa---UUCCGGG-CGU-GCAUUa-UCCGG- -5'
22299 3' -52.7 NC_005045.1 + 10258 0.7 0.536741
Target:  5'- -cAGUGAGGCgaCCGgGCGUAu--GGCCc -3'
miRNA:   3'- gcUCAUUCCG--GGCgUGCAUuauCCGG- -5'
22299 3' -52.7 NC_005045.1 + 15240 0.68 0.660828
Target:  5'- cCGcGUAGuGGCCgcaGcCACGUAGgcgGGGCCg -3'
miRNA:   3'- -GCuCAUU-CCGGg--C-GUGCAUUa--UCCGG- -5'
22299 3' -52.7 NC_005045.1 + 17632 0.67 0.738826
Target:  5'- gCGAGaacucGCUCGCAUGaugcAGUGGGCCg -3'
miRNA:   3'- -GCUCauuc-CGGGCGUGCa---UUAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 19004 0.67 0.716927
Target:  5'- cCGAGUu---CCCGCuCGgugacgAGUGGGCCa -3'
miRNA:   3'- -GCUCAuuccGGGCGuGCa-----UUAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 20894 0.72 0.460862
Target:  5'- gCGAGUccacgcaAAGGCCgGCGCcccauccgaacUGAUGGGCCu -3'
miRNA:   3'- -GCUCA-------UUCCGGgCGUGc----------AUUAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 22382 0.68 0.665361
Target:  5'- gCGAGguuccAGGUCgGCACGaUguacggacacaggugGAUAGGCCa -3'
miRNA:   3'- -GCUCau---UCCGGgCGUGC-A---------------UUAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 23674 0.66 0.757084
Target:  5'- uGGGUccGGCCCaggcucaGCACGUcaucaacguGGCCa -3'
miRNA:   3'- gCUCAuuCCGGG-------CGUGCAuuau-----CCGG- -5'
22299 3' -52.7 NC_005045.1 + 27336 0.73 0.402351
Target:  5'- uGGGUuucauGGGCCUGCAUGaGAU-GGCCc -3'
miRNA:   3'- gCUCAu----UCCGGGCGUGCaUUAuCCGG- -5'
22299 3' -52.7 NC_005045.1 + 29052 0.66 0.801366
Target:  5'- -cGGUGAGcguGCCCGUAUGgccgGcgAGGCUg -3'
miRNA:   3'- gcUCAUUC---CGGGCGUGCa---UuaUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 29813 0.68 0.660828
Target:  5'- uCGAG-GAGGgCCGCugGagcGAUgcucAGGCCa -3'
miRNA:   3'- -GCUCaUUCCgGGCGugCa--UUA----UCCGG- -5'
22299 3' -52.7 NC_005045.1 + 30903 0.66 0.811197
Target:  5'- gCGAG-GAGGCugCCGCugGUGc--GGUCg -3'
miRNA:   3'- -GCUCaUUCCG--GGCGugCAUuauCCGG- -5'
22299 3' -52.7 NC_005045.1 + 31664 0.69 0.638104
Target:  5'- uCGAGUu-GGCCCuGUACu---UGGGCCu -3'
miRNA:   3'- -GCUCAuuCCGGG-CGUGcauuAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 32357 0.7 0.547803
Target:  5'- cCGAG-GAGGCcgCCGCACGcggcuucaAGGCCg -3'
miRNA:   3'- -GCUCaUUCCG--GGCGUGCauua----UCCGG- -5'
22299 3' -52.7 NC_005045.1 + 32939 0.68 0.683437
Target:  5'- ----cAGGGUCUGCAUGgccUGGGCCa -3'
miRNA:   3'- gcucaUUCCGGGCGUGCauuAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 34036 0.66 0.811197
Target:  5'- gGAG-GAGGCCa--ACGUGucccAGGCCa -3'
miRNA:   3'- gCUCaUUCCGGgcgUGCAUua--UCCGG- -5'
22299 3' -52.7 NC_005045.1 + 38603 0.66 0.801366
Target:  5'- gCGGGUAcauGuCCCGCACcucGUGGGCUa -3'
miRNA:   3'- -GCUCAUu--CcGGGCGUGcauUAUCCGG- -5'
22299 3' -52.7 NC_005045.1 + 38852 0.67 0.705836
Target:  5'- ----cGAGGCCCGCAUG-GGUGaccguaccucGGCCa -3'
miRNA:   3'- gcucaUUCCGGGCGUGCaUUAU----------CCGG- -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.