miRNA display CGI


Results 1 - 20 of 47 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
2273 5' -62.7 NC_001405.1 + 2163 0.83 0.011458
Target:  5'- -aGGaagccaGGCGGCGGCGGCGGCAGgAGCa -3'
miRNA:   3'- ggCCg-----CCGUCGCCGUCGCCGUCgUUG- -5'
2273 5' -62.7 NC_001405.1 + 3850 0.8 0.020033
Target:  5'- gCgGGCGGUGGCuGCAGCGGCugaAGCGGCg -3'
miRNA:   3'- -GgCCGCCGUCGcCGUCGCCG---UCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 8462 0.66 0.255336
Target:  5'- uUGGUGGCGGCGucgaugacuuGCAagaggccgcauccccGCGGC-GCGACu -3'
miRNA:   3'- gGCCGCCGUCGC----------CGU---------------CGCCGuCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 8625 0.66 0.220421
Target:  5'- -aGGgGGCAGgGGCAcgucggcgccgcgcGCGGgCAGgAGCu -3'
miRNA:   3'- ggCCgCCGUCgCCGU--------------CGCC-GUCgUUG- -5'
2273 5' -62.7 NC_001405.1 + 9387 0.81 0.017814
Target:  5'- uCUGGCGGCGGUGGgGGaggggggacaCGGCGGCGACg -3'
miRNA:   3'- -GGCCGCCGUCGCCgUC----------GCCGUCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 9732 0.73 0.067648
Target:  5'- gCgGGCGGCAGCgGGUGGCGGUcgggguuguuucuGGCGGa -3'
miRNA:   3'- -GgCCGCCGUCG-CCGUCGCCG-------------UCGUUg -5'
2273 5' -62.7 NC_001405.1 + 9995 0.71 0.095392
Target:  5'- aCGGCGGCGGCGG-AGUuuGGCcguaGGUGGCg -3'
miRNA:   3'- gGCCGCCGUCGCCgUCG--CCG----UCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 10332 0.74 0.058779
Target:  5'- -aGuGCGGCGGCGGCuGGCGGUAGaggggcCAGCg -3'
miRNA:   3'- ggC-CGCCGUCGCCG-UCGCCGUC------GUUG- -5'
2273 5' -62.7 NC_001405.1 + 10447 0.78 0.03107
Target:  5'- gCCGGCGGCGGUGGUGGaGGCGcGCGGa -3'
miRNA:   3'- -GGCCGCCGUCGCCGUCgCCGU-CGUUg -5'
2273 5' -62.7 NC_001405.1 + 10852 0.68 0.165849
Target:  5'- gCGcGCGGcCAGUGGCcaaaaaagcuAGCG-CAGCAGCc -3'
miRNA:   3'- gGC-CGCC-GUCGCCG----------UCGCcGUCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 11034 0.67 0.216426
Target:  5'- uCCGGU-GCuGCGGCAgauGCGccccccuccucaGCAGCGGCa -3'
miRNA:   3'- -GGCCGcCGuCGCCGU---CGC------------CGUCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 11133 0.68 0.18467
Target:  5'- -aGG-GGCAacauccGCGGCugacGCGGCGGCAGa -3'
miRNA:   3'- ggCCgCCGU------CGCCGu---CGCCGUCGUUg -5'
2273 5' -62.7 NC_001405.1 + 12068 0.66 0.24636
Target:  5'- cCUGGCuGGCAcgGGCAGCGGCGaUAGa -3'
miRNA:   3'- -GGCCG-CCGUcgCCGUCGCCGUcGUUg -5'
2273 5' -62.7 NC_001405.1 + 12180 0.71 0.109761
Target:  5'- -gGGCuGGCGGUGGCAcccGCGcGCgcuGGCAACg -3'
miRNA:   3'- ggCCG-CCGUCGCCGU---CGC-CG---UCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 12316 0.71 0.106733
Target:  5'- cCCGGCGGUgcgGGCGGC-GCuGCAGagcCAGCc -3'
miRNA:   3'- -GGCCGCCG---UCGCCGuCGcCGUC---GUUG- -5'
2273 5' -62.7 NC_001405.1 + 12668 0.68 0.165849
Target:  5'- gUGGC-GCAGCGugaGC-GCGcGCAGCAGCa -3'
miRNA:   3'- gGCCGcCGUCGC---CGuCGC-CGUCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 13849 0.7 0.126139
Target:  5'- gCCGGaGGCAgguucuuuucgcGCuGCGGCuGCAGCAGCg -3'
miRNA:   3'- -GGCCgCCGU------------CGcCGUCGcCGUCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 13944 0.66 0.259264
Target:  5'- uCUGGUguGGgAGgacgaugacuCGGCAGCGaCAGCAGCg -3'
miRNA:   3'- -GGCCG--CCgUC----------GCCGUCGCcGUCGUUG- -5'
2273 5' -62.7 NC_001405.1 + 14197 0.74 0.064066
Target:  5'- gCGGCGcCAGUGGCGGCGGC-GCu-- -3'
miRNA:   3'- gGCCGCcGUCGCCGUCGCCGuCGuug -5'
2273 5' -62.7 NC_001405.1 + 15049 0.8 0.018891
Target:  5'- aUGGCgcaGGCGGCGGCaacaacAGUGGCAGCGGCg -3'
miRNA:   3'- gGCCG---CCGUCGCCG------UCGCCGUCGUUG- -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.