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
24366 3' -60.1 NC_005264.1 + 95501 0.66 0.762396
Target:  5'- cGCCCUcUUCGCGGCGGcgaucGUaCGUGa -3'
miRNA:   3'- cUGGGAaAGGCGCCGCCa----CGcGCACa -5'
24366 3' -60.1 NC_005264.1 + 49475 0.66 0.762396
Target:  5'- uGACCCgcgCCGUauucgacgGGCagcaGGUGCGCGUc- -3'
miRNA:   3'- -CUGGGaaaGGCG--------CCG----CCACGCGCAca -5'
24366 3' -60.1 NC_005264.1 + 94596 0.66 0.752193
Target:  5'- cGCCCg--CgGCgcgggcauggcuuGGCGGUGCGgCGUGg -3'
miRNA:   3'- cUGGGaaaGgCG-------------CCGCCACGC-GCACa -5'
24366 3' -60.1 NC_005264.1 + 108382 0.66 0.743755
Target:  5'- cGGCCCUUaCCagcuCGGCGGUGgGCa--- -3'
miRNA:   3'- -CUGGGAAaGGc---GCCGCCACgCGcaca -5'
24366 3' -60.1 NC_005264.1 + 50345 0.66 0.734293
Target:  5'- cGACCUUgUCCuGCGGCagcccuucGGUGCGCa--- -3'
miRNA:   3'- -CUGGGAaAGG-CGCCG--------CCACGCGcaca -5'
24366 3' -60.1 NC_005264.1 + 133430 0.66 0.734293
Target:  5'- uGACCUccUCCgauGCGGCGGUGcCGCa--- -3'
miRNA:   3'- -CUGGGaaAGG---CGCCGCCAC-GCGcaca -5'
24366 3' -60.1 NC_005264.1 + 94664 0.66 0.724747
Target:  5'- aGCCCaaacguagCCGCGGCGG-GCGCc--- -3'
miRNA:   3'- cUGGGaaa-----GGCGCCGCCaCGCGcaca -5'
24366 3' -60.1 NC_005264.1 + 98313 0.66 0.720907
Target:  5'- aACCCcccUCCGCGGCGGcgcggacagaacaGCGCGg-- -3'
miRNA:   3'- cUGGGaa-AGGCGCCGCCa------------CGCGCaca -5'
24366 3' -60.1 NC_005264.1 + 159239 0.67 0.715126
Target:  5'- cGGCCCc--CCGCGGCGGUaauucuucGCGCc--- -3'
miRNA:   3'- -CUGGGaaaGGCGCCGCCA--------CGCGcaca -5'
24366 3' -60.1 NC_005264.1 + 40212 0.67 0.715126
Target:  5'- cGGCCCc--CCGCGGCGGUaauucuucGCGCc--- -3'
miRNA:   3'- -CUGGGaaaGGCGCCGCCA--------CGCGcaca -5'
24366 3' -60.1 NC_005264.1 + 96656 0.67 0.705438
Target:  5'- cGCCCg--CCGaugcgGGCGGUGCGCu--- -3'
miRNA:   3'- cUGGGaaaGGCg----CCGCCACGCGcaca -5'
24366 3' -60.1 NC_005264.1 + 52959 0.67 0.695692
Target:  5'- aGCgCCUcuaCGCGGCGGUGCuGCGa-- -3'
miRNA:   3'- cUG-GGAaagGCGCCGCCACG-CGCaca -5'
24366 3' -60.1 NC_005264.1 + 103030 0.67 0.685896
Target:  5'- cGACCCUcacgUcuacguacggcUCCGCGGCGGacacgGC-CGUGg -3'
miRNA:   3'- -CUGGGA----A-----------AGGCGCCGCCa----CGcGCACa -5'
24366 3' -60.1 NC_005264.1 + 46065 0.67 0.679998
Target:  5'- aGCCa-UUCUgugguauaaaagcggGaCGGCGGUGCGCGUGa -3'
miRNA:   3'- cUGGgaAAGG---------------C-GCCGCCACGCGCACa -5'
24366 3' -60.1 NC_005264.1 + 66191 0.68 0.656289
Target:  5'- cGCCCgcaUCgGCgGGCGGUGCGCc--- -3'
miRNA:   3'- cUGGGaa-AGgCG-CCGCCACGCGcaca -5'
24366 3' -60.1 NC_005264.1 + 12286 0.68 0.606677
Target:  5'- uACCCUggCgGCagGGCGGUGCGCa--- -3'
miRNA:   3'- cUGGGAaaGgCG--CCGCCACGCGcaca -5'
24366 3' -60.1 NC_005264.1 + 53230 0.69 0.596781
Target:  5'- cGCCCacgccauuugcUUUCCGUGccccGCGG-GCGCGUGUc -3'
miRNA:   3'- cUGGG-----------AAAGGCGC----CGCCaCGCGCACA- -5'
24366 3' -60.1 NC_005264.1 + 4308 0.71 0.445525
Target:  5'- cGGCCCUggagUUuaGCGGCaGGUGCGCGa-- -3'
miRNA:   3'- -CUGGGA----AAggCGCCG-CCACGCGCaca -5'
24366 3' -60.1 NC_005264.1 + 4593 0.72 0.384654
Target:  5'- aGGCCCUccccgccagcgCCGCGGCGGcguagGCGCGUu- -3'
miRNA:   3'- -CUGGGAaa---------GGCGCCGCCa----CGCGCAca -5'
24366 3' -60.1 NC_005264.1 + 123620 0.72 0.384654
Target:  5'- aGGCCCUccccgccagcgCCGCGGCGGcguagGCGCGUu- -3'
miRNA:   3'- -CUGGGAaa---------GGCGCCGCCa----CGCGCAca -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.