miRNA display CGI


Results 1 - 20 of 22 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
19786 3' -52.6 NC_004687.1 + 91842 0.66 0.97764
Target:  5'- aCGCGAgcuggaggugcAGAUCUCCaggGCcuUGUUGAUGa -3'
miRNA:   3'- -GUGCU-----------UCUAGAGGga-CG--ACGACUACc -5'
19786 3' -52.6 NC_004687.1 + 49797 0.66 0.975124
Target:  5'- uGCGGAGAggcUCUCCCUGUUcUUGGccGGa -3'
miRNA:   3'- gUGCUUCU---AGAGGGACGAcGACUa-CC- -5'
19786 3' -52.6 NC_004687.1 + 54964 0.66 0.972406
Target:  5'- gCAUGAAGccg-CCCaGCUGCagUGGUGGg -3'
miRNA:   3'- -GUGCUUCuagaGGGaCGACG--ACUACC- -5'
19786 3' -52.6 NC_004687.1 + 141056 0.66 0.972406
Target:  5'- gGCGAAGGUCUCCUggGCguucUGCUuGAcgaccagcgcgUGGg -3'
miRNA:   3'- gUGCUUCUAGAGGGa-CG----ACGA-CU-----------ACC- -5'
19786 3' -52.6 NC_004687.1 + 81857 0.67 0.969481
Target:  5'- uCGCGGGcGGUCUgggugCCCUGCggGCUcAUGGa -3'
miRNA:   3'- -GUGCUU-CUAGA-----GGGACGa-CGAcUACC- -5'
19786 3' -52.6 NC_004687.1 + 6574 0.67 0.966341
Target:  5'- -uCGggGAUCUCCgaGCgauccagaccGCUGcgGGc -3'
miRNA:   3'- guGCuuCUAGAGGgaCGa---------CGACuaCC- -5'
19786 3' -52.6 NC_004687.1 + 124429 0.67 0.959392
Target:  5'- cCGCG-AGGUCUCgCUGCUGCa----- -3'
miRNA:   3'- -GUGCuUCUAGAGgGACGACGacuacc -5'
19786 3' -52.6 NC_004687.1 + 94835 0.67 0.959392
Target:  5'- gACGAGGAgg-CCCUGCUcgcGCUGGc-- -3'
miRNA:   3'- gUGCUUCUagaGGGACGA---CGACUacc -5'
19786 3' -52.6 NC_004687.1 + 96449 0.67 0.955571
Target:  5'- gCugGGAGGUCUCCCcUGCgGCUc---- -3'
miRNA:   3'- -GugCUUCUAGAGGG-ACGaCGAcuacc -5'
19786 3' -52.6 NC_004687.1 + 90935 0.67 0.955571
Target:  5'- gACGAgcuucuucauGGAUCUCCCUcuGgUGUgGGUGGg -3'
miRNA:   3'- gUGCU----------UCUAGAGGGA--CgACGaCUACC- -5'
19786 3' -52.6 NC_004687.1 + 87667 0.68 0.937884
Target:  5'- aCugGcGGAUCUCCCgggGCcGCUGGg-- -3'
miRNA:   3'- -GugCuUCUAGAGGGa--CGaCGACUacc -5'
19786 3' -52.6 NC_004687.1 + 40756 0.68 0.937884
Target:  5'- uGCGGcuGUCggcgCCCUGCUGUUGGUu- -3'
miRNA:   3'- gUGCUucUAGa---GGGACGACGACUAcc -5'
19786 3' -52.6 NC_004687.1 + 107559 0.69 0.910195
Target:  5'- cCACGAAGAaCUugCCCUGCgGCauGUGGa -3'
miRNA:   3'- -GUGCUUCUaGA--GGGACGaCGacUACC- -5'
19786 3' -52.6 NC_004687.1 + 112155 0.69 0.90391
Target:  5'- cCACcGAGAUCgUCCaCaGCUGCcUGGUGGa -3'
miRNA:   3'- -GUGcUUCUAG-AGG-GaCGACG-ACUACC- -5'
19786 3' -52.6 NC_004687.1 + 16502 0.69 0.897381
Target:  5'- gCGCGGAcuGAUCggCCUUGCUGCucacggcgguguUGGUGGc -3'
miRNA:   3'- -GUGCUU--CUAGa-GGGACGACG------------ACUACC- -5'
19786 3' -52.6 NC_004687.1 + 25881 0.7 0.89061
Target:  5'- cCACGcAGAUCUCgCUGCUGCa----- -3'
miRNA:   3'- -GUGCuUCUAGAGgGACGACGacuacc -5'
19786 3' -52.6 NC_004687.1 + 29545 0.7 0.88992
Target:  5'- aGCGc-GAUCUgcCCCUGCUucuccggGCUGGUGGc -3'
miRNA:   3'- gUGCuuCUAGA--GGGACGA-------CGACUACC- -5'
19786 3' -52.6 NC_004687.1 + 139011 0.7 0.861195
Target:  5'- gGCGAAGuaguccuUCUCCUUGC-GCUGgcGGu -3'
miRNA:   3'- gUGCUUCu------AGAGGGACGaCGACuaCC- -5'
19786 3' -52.6 NC_004687.1 + 146346 0.73 0.714142
Target:  5'- aCGCuGAAGGUCUCCCaGC-GCggGAUGGu -3'
miRNA:   3'- -GUG-CUUCUAGAGGGaCGaCGa-CUACC- -5'
19786 3' -52.6 NC_004687.1 + 151837 0.75 0.620628
Target:  5'- uGCGGucuGGAUCUUCCggcGcCUGCUGAUGGc -3'
miRNA:   3'- gUGCU---UCUAGAGGGa--C-GACGACUACC- -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.