miRNA display CGI


Results 1 - 20 of 73 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
28055 3' -54.5 NC_005887.1 + 310 0.66 0.646494
Target:  5'- cGAGGCcgcggUGCGCGCGUacaccgaggaagUGCgc-GAGCCGu -3'
miRNA:   3'- -CUUCG-----ACGCGCGCG------------ACGaguUUUGGC- -5'
28055 3' -54.5 NC_005887.1 + 1007 0.67 0.55554
Target:  5'- --cGCcgUGCGCGCGCUguacaccgGCUUGAAGCgGa -3'
miRNA:   3'- cuuCG--ACGCGCGCGA--------CGAGUUUUGgC- -5'
28055 3' -54.5 NC_005887.1 + 1234 0.66 0.635061
Target:  5'- gGgcGCUGCGCG-GC-GCUCAGcACgCGa -3'
miRNA:   3'- -CuuCGACGCGCgCGaCGAGUUuUG-GC- -5'
28055 3' -54.5 NC_005887.1 + 2256 0.71 0.379993
Target:  5'- cGAGCaUGgGCGCGCguaaGUUCGGGAUCGa -3'
miRNA:   3'- cUUCG-ACgCGCGCGa---CGAGUUUUGGC- -5'
28055 3' -54.5 NC_005887.1 + 2933 0.69 0.468658
Target:  5'- cAAGCUGCGCaaGCGCcGCggCAccGCCGc -3'
miRNA:   3'- cUUCGACGCG--CGCGaCGa-GUuuUGGC- -5'
28055 3' -54.5 NC_005887.1 + 3381 0.66 0.623626
Target:  5'- gGGAGUggUGCGCaCGCUGUUC---GCCGc -3'
miRNA:   3'- -CUUCG--ACGCGcGCGACGAGuuuUGGC- -5'
28055 3' -54.5 NC_005887.1 + 4143 0.81 0.07805
Target:  5'- aAGGCUGCGCGCGaCUgGCUCGgguauuGAGCCGg -3'
miRNA:   3'- cUUCGACGCGCGC-GA-CGAGU------UUUGGC- -5'
28055 3' -54.5 NC_005887.1 + 4202 0.68 0.515694
Target:  5'- cGAAGUgcugcaGCGCGCGCaggagaaaggcgugcUGCUCGc-GCCGa -3'
miRNA:   3'- -CUUCGa-----CGCGCGCG---------------ACGAGUuuUGGC- -5'
28055 3' -54.5 NC_005887.1 + 5260 0.66 0.623626
Target:  5'- cGAGGCUGUGCuCGCccGCUUcgGugCGa -3'
miRNA:   3'- -CUUCGACGCGcGCGa-CGAGuuUugGC- -5'
28055 3' -54.5 NC_005887.1 + 5356 0.66 0.646494
Target:  5'- -cGGcCUGCGCGUGCUcgccggcgaGCUCGAc-CCGc -3'
miRNA:   3'- cuUC-GACGCGCGCGA---------CGAGUUuuGGC- -5'
28055 3' -54.5 NC_005887.1 + 6081 0.76 0.17148
Target:  5'- cGAAGaUGCGCGCGCUGC--GAAGCUGu -3'
miRNA:   3'- -CUUCgACGCGCGCGACGagUUUUGGC- -5'
28055 3' -54.5 NC_005887.1 + 6498 0.66 0.646494
Target:  5'- gGAAGUUGCGCaGaCGCUGUUCu--ACgGc -3'
miRNA:   3'- -CUUCGACGCG-C-GCGACGAGuuuUGgC- -5'
28055 3' -54.5 NC_005887.1 + 6641 0.66 0.623626
Target:  5'- cGAGCUGCaCGCGUggauCUCgGAAACCGc -3'
miRNA:   3'- cUUCGACGcGCGCGac--GAG-UUUUGGC- -5'
28055 3' -54.5 NC_005887.1 + 6670 0.66 0.623626
Target:  5'- cGAAGCcgGCcgccgaucGCGCGCUGCUguAugUCGa -3'
miRNA:   3'- -CUUCGa-CG--------CGCGCGACGAguUuuGGC- -5'
28055 3' -54.5 NC_005887.1 + 7122 0.68 0.54437
Target:  5'- cGAGGCgggGCG-GCGCUGCggc--GCCGu -3'
miRNA:   3'- -CUUCGa--CGCgCGCGACGaguuuUGGC- -5'
28055 3' -54.5 NC_005887.1 + 8093 0.71 0.344351
Target:  5'- aAAGC-GCGCGCGCaGCUC---GCCGc -3'
miRNA:   3'- cUUCGaCGCGCGCGaCGAGuuuUGGC- -5'
28055 3' -54.5 NC_005887.1 + 8223 0.66 0.646494
Target:  5'- -----cGCGCGgGCUGUUCAGcAUCGa -3'
miRNA:   3'- cuucgaCGCGCgCGACGAGUUuUGGC- -5'
28055 3' -54.5 NC_005887.1 + 8714 0.7 0.407332
Target:  5'- cGAGCgcaGCGCGCGCUacgggaaGUUCgAAGACCa -3'
miRNA:   3'- cUUCGa--CGCGCGCGA-------CGAG-UUUUGGc -5'
28055 3' -54.5 NC_005887.1 + 9561 0.74 0.226402
Target:  5'- uGAAGCgGCGCGCGCcgauccUGCgCAcGAGCCGg -3'
miRNA:   3'- -CUUCGaCGCGCGCG------ACGaGU-UUUGGC- -5'
28055 3' -54.5 NC_005887.1 + 11108 0.66 0.657912
Target:  5'- -cGGCUgGUGCGCGCgaaGCU---GGCCGa -3'
miRNA:   3'- cuUCGA-CGCGCGCGa--CGAguuUUGGC- -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.