miRNA display CGI


Results 1 - 20 of 38 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
19105 3' -56.1 NC_004684.1 + 4175 0.7 0.500184
Target:  5'- uGGCCCGGUUGCGCCcggCGggCgCGGu -3'
miRNA:   3'- gCUGGGCCAGUGUGGaa-GCaaG-GCCu -5'
19105 3' -56.1 NC_004684.1 + 2590 0.66 0.770199
Target:  5'- cCGACCCGaccgagUACGCCgacgcggaGUUCUGGAa -3'
miRNA:   3'- -GCUGGGCca----GUGUGGaag-----CAAGGCCU- -5'
19105 3' -56.1 NC_004684.1 + 18417 0.66 0.760365
Target:  5'- gCGGCCCGGcgggCGCACCggCGg-CCGa- -3'
miRNA:   3'- -GCUGGGCCa---GUGUGGaaGCaaGGCcu -5'
19105 3' -56.1 NC_004684.1 + 21186 0.66 0.760365
Target:  5'- gGACUCGGcCACACgUUa--UCCGGGc -3'
miRNA:   3'- gCUGGGCCaGUGUGgAAgcaAGGCCU- -5'
19105 3' -56.1 NC_004684.1 + 23661 0.66 0.750409
Target:  5'- uGACCgGGUaCACcgacgGCCUggUCGgcCCGGAc -3'
miRNA:   3'- gCUGGgCCA-GUG-----UGGA--AGCaaGGCCU- -5'
19105 3' -56.1 NC_004684.1 + 20714 0.66 0.74034
Target:  5'- cCGACCCGGUCAC-CCc-CGaaCCcgaGGAg -3'
miRNA:   3'- -GCUGGGCCAGUGuGGaaGCaaGG---CCU- -5'
19105 3' -56.1 NC_004684.1 + 42583 0.67 0.729147
Target:  5'- aGACCagcgagcaGGUCaagaacgGCACCUUCGacCCGGc -3'
miRNA:   3'- gCUGGg-------CCAG-------UGUGGAAGCaaGGCCu -5'
19105 3' -56.1 NC_004684.1 + 31225 0.67 0.719908
Target:  5'- cCGACgCCGGUgACGCCauugccgaugugUUCGacggccUCCGGGa -3'
miRNA:   3'- -GCUG-GGCCAgUGUGG------------AAGCa-----AGGCCU- -5'
19105 3' -56.1 NC_004684.1 + 59746 0.67 0.698105
Target:  5'- cCGACCCGGUCACcacgcccGCCacggCGagCUGGc -3'
miRNA:   3'- -GCUGGGCCAGUG-------UGGaa--GCaaGGCCu -5'
19105 3' -56.1 NC_004684.1 + 53146 0.67 0.698105
Target:  5'- uGACCgGGUC-CACCggguccggCGUgaaggccUCCGGGg -3'
miRNA:   3'- gCUGGgCCAGuGUGGaa------GCA-------AGGCCU- -5'
19105 3' -56.1 NC_004684.1 + 25005 0.67 0.678149
Target:  5'- -aACCCGGUCGCGCUca-GcgCCGGu -3'
miRNA:   3'- gcUGGGCCAGUGUGGaagCaaGGCCu -5'
19105 3' -56.1 NC_004684.1 + 24961 0.7 0.520396
Target:  5'- cCGACCCGGcCACGCUUcCGgugUCCcaGGGc -3'
miRNA:   3'- -GCUGGGCCaGUGUGGAaGCa--AGG--CCU- -5'
19105 3' -56.1 NC_004684.1 + 25373 0.7 0.510248
Target:  5'- gGACCCGGUCAgCGCCUaCGccgCCGc- -3'
miRNA:   3'- gCUGGGCCAGU-GUGGAaGCaa-GGCcu -5'
19105 3' -56.1 NC_004684.1 + 16437 0.68 0.614472
Target:  5'- aCGugCUGGcgCACACCaUCGUgcgcCUGGAc -3'
miRNA:   3'- -GCugGGCCa-GUGUGGaAGCAa---GGCCU- -5'
19105 3' -56.1 NC_004684.1 + 65765 0.69 0.593266
Target:  5'- gGuACCCGGUUGCGCCggUGcaggugCCGGAa -3'
miRNA:   3'- gC-UGGGCCAGUGUGGaaGCaa----GGCCU- -5'
19105 3' -56.1 NC_004684.1 + 51092 0.72 0.445596
Target:  5'- gCGGCCCGGUCugauacgacagugaaGCGCCgcgUCGggcCCGGc -3'
miRNA:   3'- -GCUGGGCCAG---------------UGUGGa--AGCaa-GGCCu -5'
19105 3' -56.1 NC_004684.1 + 67232 0.72 0.431543
Target:  5'- -aACCCGGUCACcgguucgACCggCGUUuCCGGGc -3'
miRNA:   3'- gcUGGGCCAGUG-------UGGaaGCAA-GGCCU- -5'
19105 3' -56.1 NC_004684.1 + 39323 0.73 0.387515
Target:  5'- gCGGCCCGGcCACACCg-----CCGGGg -3'
miRNA:   3'- -GCUGGGCCaGUGUGGaagcaaGGCCU- -5'
19105 3' -56.1 NC_004684.1 + 38582 0.73 0.375489
Target:  5'- -cGCCCGGUCACACCgucgagcaccagcUCGgaaCCGGGu -3'
miRNA:   3'- gcUGGGCCAGUGUGGa------------AGCaa-GGCCU- -5'
19105 3' -56.1 NC_004684.1 + 27368 0.66 0.779899
Target:  5'- uCGGCCCGGUCuGCGCCgcuaaCGcaggCUGGu -3'
miRNA:   3'- -GCUGGGCCAG-UGUGGaa---GCaa--GGCCu -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.