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
1366 5' -56.1 NC_001335.1 + 47352 0.66 0.662885
Target:  5'- aUGGcCUUGGCCGAuccauacgaGGCUUCGGcCGa -3'
miRNA:   3'- cAUCaGGACCGGCU---------UCGAGGUCaGCg -5'
1366 5' -56.1 NC_001335.1 + 24207 0.66 0.662885
Target:  5'- ----gCCUGGCCGcGAGCgCCAGcacCGCc -3'
miRNA:   3'- caucaGGACCGGC-UUCGaGGUCa--GCG- -5'
1366 5' -56.1 NC_001335.1 + 7573 0.66 0.640852
Target:  5'- -gGGUgUcGGCCGgcGCuUCCAG-CGCg -3'
miRNA:   3'- caUCAgGaCCGGCuuCG-AGGUCaGCG- -5'
1366 5' -56.1 NC_001335.1 + 11249 0.66 0.640852
Target:  5'- -gGGUCUUGuuGCCGAauccgccgaccAGCUCCAGaCGg -3'
miRNA:   3'- caUCAGGAC--CGGCU-----------UCGAGGUCaGCg -5'
1366 5' -56.1 NC_001335.1 + 18847 0.67 0.5858
Target:  5'- uUGGUCUUGGCCGAgaAGa-CCuuGUCGUc -3'
miRNA:   3'- cAUCAGGACCGGCU--UCgaGGu-CAGCG- -5'
1366 5' -56.1 NC_001335.1 + 35207 0.67 0.584705
Target:  5'- -aGGgaaCCUGGCCGAuGUUCCGgggaaggaagggcGUCGUu -3'
miRNA:   3'- caUCa--GGACCGGCUuCGAGGU-------------CAGCG- -5'
1366 5' -56.1 NC_001335.1 + 12730 0.67 0.57487
Target:  5'- --cGUCCaGGUCGggGaUCCGG-CGCu -3'
miRNA:   3'- cauCAGGaCCGGCuuCgAGGUCaGCG- -5'
1366 5' -56.1 NC_001335.1 + 34939 0.67 0.563988
Target:  5'- uUGGUCCUGGCgu-AGgUUCGGUUGUa -3'
miRNA:   3'- cAUCAGGACCGgcuUCgAGGUCAGCG- -5'
1366 5' -56.1 NC_001335.1 + 17309 0.67 0.553161
Target:  5'- gGUGGUucugccCCUGGCgcAGGCUCUGGUCaGCg -3'
miRNA:   3'- -CAUCA------GGACCGgcUUCGAGGUCAG-CG- -5'
1366 5' -56.1 NC_001335.1 + 36699 0.67 0.553161
Target:  5'- gGUAGUCgaCUGGCCGgcGgUCgUGGUUGCc -3'
miRNA:   3'- -CAUCAG--GACCGGCuuCgAG-GUCAGCG- -5'
1366 5' -56.1 NC_001335.1 + 7156 0.68 0.542397
Target:  5'- cUGGUCCUGGCUGAcGGCcgcgacggugaUCCA--CGCg -3'
miRNA:   3'- cAUCAGGACCGGCU-UCG-----------AGGUcaGCG- -5'
1366 5' -56.1 NC_001335.1 + 997 0.68 0.542397
Target:  5'- cGUAGUCCguaCCGGaaaAGCUCCuGGUCGa -3'
miRNA:   3'- -CAUCAGGaccGGCU---UCGAGG-UCAGCg -5'
1366 5' -56.1 NC_001335.1 + 12560 0.68 0.541325
Target:  5'- uUGGUCUUGGuguugcgcgguuuCCGggGCaccuUCCAGcCGCc -3'
miRNA:   3'- cAUCAGGACC-------------GGCuuCG----AGGUCaGCG- -5'
1366 5' -56.1 NC_001335.1 + 20324 0.68 0.531703
Target:  5'- ----aCCUGGCCGucGCcggCCAGUUGg -3'
miRNA:   3'- caucaGGACCGGCuuCGa--GGUCAGCg -5'
1366 5' -56.1 NC_001335.1 + 17225 0.69 0.469375
Target:  5'- ----aCCUGGCCGAGGg-CC-GUCGCc -3'
miRNA:   3'- caucaGGACCGGCUUCgaGGuCAGCG- -5'
1366 5' -56.1 NC_001335.1 + 8589 0.69 0.459346
Target:  5'- aUGGcCuCUGGCCGgcGCUCagcGUCGUa -3'
miRNA:   3'- cAUCaG-GACCGGCuuCGAGgu-CAGCG- -5'
1366 5' -56.1 NC_001335.1 + 11508 0.69 0.439636
Target:  5'- aGUAGUCCUGGgccugcucgggcUCGAGGUagcccucgaacaUCgAGUCGCc -3'
miRNA:   3'- -CAUCAGGACC------------GGCUUCG------------AGgUCAGCG- -5'
1366 5' -56.1 NC_001335.1 + 23260 0.7 0.392564
Target:  5'- -gAGUgcCCUGGCCGAGGUUgCGGUUa- -3'
miRNA:   3'- caUCA--GGACCGGCUUCGAgGUCAGcg -5'
1366 5' -56.1 NC_001335.1 + 36753 0.71 0.374674
Target:  5'- cGUAGaCCUGGCgcaGcGGCUCCAGgaacCGCc -3'
miRNA:   3'- -CAUCaGGACCGg--CuUCGAGGUCa---GCG- -5'
1366 5' -56.1 NC_001335.1 + 32223 0.72 0.316527
Target:  5'- -gAGUUCgcgGGCCGGAacuGCUaCCGGUCGUu -3'
miRNA:   3'- caUCAGGa--CCGGCUU---CGA-GGUCAGCG- -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.