miRNA display CGI


Results 1 - 20 of 21 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
7294 3' -55.4 NC_001900.1 + 10425 0.66 0.716313
Target:  5'- gCGuCAGCCU--UCgCGGCgUACGUCGg -3'
miRNA:   3'- -GCuGUCGGGcaAGgGCUGgAUGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 4149 0.66 0.705619
Target:  5'- uGuCGGCCucuuCGgaCUCGACCUugAUCGa -3'
miRNA:   3'- gCuGUCGG----GCaaGGGCUGGAugUAGC- -5'
7294 3' -55.4 NC_001900.1 + 43301 0.66 0.705619
Target:  5'- gGGCuGGCCCGgaCCaCGACCUccACcUCGc -3'
miRNA:   3'- gCUG-UCGGGCaaGG-GCUGGA--UGuAGC- -5'
7294 3' -55.4 NC_001900.1 + 12724 0.66 0.694854
Target:  5'- aGGCcgcgAGCCCGUUCCguucgGGCCggauCGUCGc -3'
miRNA:   3'- gCUG----UCGGGCAAGGg----CUGGau--GUAGC- -5'
7294 3' -55.4 NC_001900.1 + 19335 0.66 0.694854
Target:  5'- gCGACAGCcaggaCCGUggUCCCuGCUUcGCGUCGu -3'
miRNA:   3'- -GCUGUCG-----GGCA--AGGGcUGGA-UGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 9445 0.66 0.673154
Target:  5'- uCGACAGCCUGUcgcUCUgCGAUCga-GUCGa -3'
miRNA:   3'- -GCUGUCGGGCA---AGG-GCUGGaugUAGC- -5'
7294 3' -55.4 NC_001900.1 + 48201 0.67 0.662241
Target:  5'- -uGCGGCCC-UUCCCGGuCUUGCGUg- -3'
miRNA:   3'- gcUGUCGGGcAAGGGCU-GGAUGUAgc -5'
7294 3' -55.4 NC_001900.1 + 42346 0.67 0.662241
Target:  5'- uCGACuccucgauGCuCUGUUCCCGgacuGCCcGCGUCGa -3'
miRNA:   3'- -GCUGu-------CG-GGCAAGGGC----UGGaUGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 6820 0.67 0.618413
Target:  5'- gCGACA-CCC-UUCUCGACCgacggccACAUCGg -3'
miRNA:   3'- -GCUGUcGGGcAAGGGCUGGa------UGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 36505 0.67 0.618413
Target:  5'- -uGCGGCCCGgugaggCCgUGAUCUACGUCc -3'
miRNA:   3'- gcUGUCGGGCaa----GG-GCUGGAUGUAGc -5'
7294 3' -55.4 NC_001900.1 + 9744 0.68 0.607462
Target:  5'- uGGCAGCCUGgaUCUCGuugcccUCUGCGUCGu -3'
miRNA:   3'- gCUGUCGGGCa-AGGGCu-----GGAUGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 8548 0.68 0.596531
Target:  5'- uGACAGCCaggaGUcCUCGGCC-GCGUUGa -3'
miRNA:   3'- gCUGUCGGg---CAaGGGCUGGaUGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 3334 0.68 0.57477
Target:  5'- -aGCAGCCCacccCCUGGCCUGCGggCGa -3'
miRNA:   3'- gcUGUCGGGcaa-GGGCUGGAUGUa-GC- -5'
7294 3' -55.4 NC_001900.1 + 35968 0.68 0.553194
Target:  5'- -cGCAGCCCGgggugCUCGACCaGCAUg- -3'
miRNA:   3'- gcUGUCGGGCaa---GGGCUGGaUGUAgc -5'
7294 3' -55.4 NC_001900.1 + 30073 0.69 0.510844
Target:  5'- aGACGcuGCCCGcgUCCGACUggacggUGCGUCGg -3'
miRNA:   3'- gCUGU--CGGGCaaGGGCUGG------AUGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 27170 0.7 0.479987
Target:  5'- gCGugGGCCaCGUUgCCCGcgACCgACAUCa -3'
miRNA:   3'- -GCugUCGG-GCAA-GGGC--UGGaUGUAGc -5'
7294 3' -55.4 NC_001900.1 + 43036 0.71 0.411835
Target:  5'- gGACAGCCgGggagcgUCCCGG--UACAUCGg -3'
miRNA:   3'- gCUGUCGGgCa-----AGGGCUggAUGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 19043 0.71 0.411835
Target:  5'- cCGACAGCgCGUUCuuGGauuccucgcgguCCUugAUCGa -3'
miRNA:   3'- -GCUGUCGgGCAAGggCU------------GGAugUAGC- -5'
7294 3' -55.4 NC_001900.1 + 13980 0.71 0.411835
Target:  5'- uCGACGGCUgggucuucuUGUUCCCGuCC-GCGUCGa -3'
miRNA:   3'- -GCUGUCGG---------GCAAGGGCuGGaUGUAGC- -5'
7294 3' -55.4 NC_001900.1 + 16756 0.73 0.333594
Target:  5'- gGGCAGCCuCGgUCuuGAgCUGCAUCa -3'
miRNA:   3'- gCUGUCGG-GCaAGggCUgGAUGUAGc -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.