miRNA display CGI


Results 1 - 20 of 35 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
1720 3' -65 NC_001347.2 + 203875 0.66 0.630445
Target:  5'- uUUGCuCUCCCGgauccaagGGaCGAGCa-GCCGCCg -3'
miRNA:   3'- uAGCG-GAGGGC--------UC-GCUCGccCGGCGG- -5'
1720 3' -65 NC_001347.2 + 65869 0.66 0.611646
Target:  5'- cUgGCCUUCgGcacGCuGGCGGGCCGaCCg -3'
miRNA:   3'- uAgCGGAGGgCu--CGcUCGCCCGGC-GG- -5'
1720 3' -65 NC_001347.2 + 115516 0.66 0.611646
Target:  5'- -gUGCCggCCGcGCuAGCGGGCUGCa -3'
miRNA:   3'- uaGCGGagGGCuCGcUCGCCCGGCGg -5'
1720 3' -65 NC_001347.2 + 194481 0.66 0.611646
Target:  5'- cGUUGgCUCCCGc-UGuGCuGGCCGCCg -3'
miRNA:   3'- -UAGCgGAGGGCucGCuCGcCCGGCGG- -5'
1720 3' -65 NC_001347.2 + 40585 0.66 0.611646
Target:  5'- -gCGCUUgUCGGGgguuuuCGAGCGuucuGGCCGCCg -3'
miRNA:   3'- uaGCGGAgGGCUC------GCUCGC----CCGGCGG- -5'
1720 3' -65 NC_001347.2 + 178865 0.66 0.611646
Target:  5'- --gGCCUCCgucgaGAGCGAGuuGuccucgucGCCGCCg -3'
miRNA:   3'- uagCGGAGGg----CUCGCUCgcC--------CGGCGG- -5'
1720 3' -65 NC_001347.2 + 78975 0.66 0.602263
Target:  5'- --aGCuCUCCUucGGCGAGauCGuGGCCGCCg -3'
miRNA:   3'- uagCG-GAGGGc-UCGCUC--GC-CCGGCGG- -5'
1720 3' -65 NC_001347.2 + 103647 0.66 0.592899
Target:  5'- -gCGCCUCUgGAccacGCGcAGCgucaGGGCCuGCCg -3'
miRNA:   3'- uaGCGGAGGgCU----CGC-UCG----CCCGG-CGG- -5'
1720 3' -65 NC_001347.2 + 124880 0.66 0.583559
Target:  5'- -cCGCCUCCCGAGgcaCGucgGGGCUGUg -3'
miRNA:   3'- uaGCGGAGGGCUC---GCucgCCCGGCGg -5'
1720 3' -65 NC_001347.2 + 148662 0.66 0.583559
Target:  5'- -gCGCagggCUCGGGCaAGC-GGCCGCCa -3'
miRNA:   3'- uaGCGga--GGGCUCGcUCGcCCGGCGG- -5'
1720 3' -65 NC_001347.2 + 132990 0.67 0.574248
Target:  5'- cGUCGUCggUCUCGAGCGccccccgauGUaGGGCCGCUc -3'
miRNA:   3'- -UAGCGG--AGGGCUCGCu--------CG-CCCGGCGG- -5'
1720 3' -65 NC_001347.2 + 192253 0.67 0.568678
Target:  5'- cUCGCCggCCCGAGCGcgccggGGagaagaaccucuuccCGGGCC-CCg -3'
miRNA:   3'- uAGCGGa-GGGCUCGC------UC---------------GCCCGGcGG- -5'
1720 3' -65 NC_001347.2 + 81723 0.67 0.564973
Target:  5'- cUUGCCggCCGAGCccacgaugucGGGCaGGCCGCa -3'
miRNA:   3'- uAGCGGagGGCUCG----------CUCGcCCGGCGg -5'
1720 3' -65 NC_001347.2 + 37593 0.67 0.555737
Target:  5'- gGUCGUCaaCUGuGCuGAGCGGG-CGCCa -3'
miRNA:   3'- -UAGCGGagGGCuCG-CUCGCCCgGCGG- -5'
1720 3' -65 NC_001347.2 + 84378 0.67 0.546545
Target:  5'- -gCGCggagUCCUGGGUGuGuCGGGCCGCg -3'
miRNA:   3'- uaGCGg---AGGGCUCGCuC-GCCCGGCGg -5'
1720 3' -65 NC_001347.2 + 136206 0.67 0.537402
Target:  5'- -gCGCCggg-GGGCG-GCGGGCaCGCCg -3'
miRNA:   3'- uaGCGGagggCUCGCuCGCCCG-GCGG- -5'
1720 3' -65 NC_001347.2 + 162092 0.67 0.537402
Target:  5'- gAUCgGCCUCgucgCUGAGCGcuuucCGGGCCGCg -3'
miRNA:   3'- -UAG-CGGAG----GGCUCGCuc---GCCCGGCGg -5'
1720 3' -65 NC_001347.2 + 196146 0.68 0.519281
Target:  5'- -cUGCCUgCCG-GCGGcccugugccGCGGGuuGCCc -3'
miRNA:   3'- uaGCGGAgGGCuCGCU---------CGCCCggCGG- -5'
1720 3' -65 NC_001347.2 + 195658 0.68 0.49257
Target:  5'- uGUCGCacgCCCGAGgaucuGGC-GGCCGCCg -3'
miRNA:   3'- -UAGCGga-GGGCUCgc---UCGcCCGGCGG- -5'
1720 3' -65 NC_001347.2 + 1035 0.68 0.489933
Target:  5'- -aCGCCgggccacggcguccaCCGGGUaGAaccccGCGGGCCGCCg -3'
miRNA:   3'- uaGCGGag-------------GGCUCG-CU-----CGCCCGGCGG- -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.