miRNA display CGI


Results 1 - 20 of 23 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
1650 3' -54.6 NC_001347.2 + 155359 0.66 0.977266
Target:  5'- aGGGGGAGU-CGuUGgGCcGUUaCUGCu -3'
miRNA:   3'- aCCUCCUCAuGC-ACgCGuCGAaGACG- -5'
1650 3' -54.6 NC_001347.2 + 105718 0.66 0.977266
Target:  5'- aGGAGGuaaAGgcUGccGUGCAGCagCUGCa -3'
miRNA:   3'- aCCUCC---UCauGCa-CGCGUCGaaGACG- -5'
1650 3' -54.6 NC_001347.2 + 144741 0.66 0.974807
Target:  5'- cGcGAGGuGaACGUGCGCAaacGCgccuacCUGCa -3'
miRNA:   3'- aC-CUCCuCaUGCACGCGU---CGaa----GACG- -5'
1650 3' -54.6 NC_001347.2 + 94963 0.66 0.972159
Target:  5'- cGGAgcccucgagcguGGAG-ACGagcGCGCAGCcgCUGCc -3'
miRNA:   3'- aCCU------------CCUCaUGCa--CGCGUCGaaGACG- -5'
1650 3' -54.6 NC_001347.2 + 184688 0.66 0.966274
Target:  5'- cGGAuGGAGcGCGcccacaUGUGCGGCgUCUGg -3'
miRNA:   3'- aCCU-CCUCaUGC------ACGCGUCGaAGACg -5'
1650 3' -54.6 NC_001347.2 + 139435 0.67 0.955884
Target:  5'- gUGGAGGAG-GCGaccaCGguGCgaCUGCa -3'
miRNA:   3'- -ACCUCCUCaUGCac--GCguCGaaGACG- -5'
1650 3' -54.6 NC_001347.2 + 136142 0.67 0.955884
Target:  5'- gGGAGGcAGgcgggaGCGgGCGCAGCg--UGCg -3'
miRNA:   3'- aCCUCC-UCa-----UGCaCGCGUCGaagACG- -5'
1650 3' -54.6 NC_001347.2 + 131411 0.67 0.947859
Target:  5'- uUGGGGGGGaACGUGUGUcGUUUCcagGUc -3'
miRNA:   3'- -ACCUCCUCaUGCACGCGuCGAAGa--CG- -5'
1650 3' -54.6 NC_001347.2 + 226 0.68 0.929062
Target:  5'- cGGcGGuGUGCGcggccucggggUGUGCGGCUUC-GCa -3'
miRNA:   3'- aCCuCCuCAUGC-----------ACGCGUCGAAGaCG- -5'
1650 3' -54.6 NC_001347.2 + 229705 0.68 0.929062
Target:  5'- cGGcGGuGUGCGcggccucggggUGUGCGGCUUC-GCa -3'
miRNA:   3'- aCCuCCuCAUGC-----------ACGCGUCGAAGaCG- -5'
1650 3' -54.6 NC_001347.2 + 170241 0.68 0.92378
Target:  5'- aGGAGGAGgACGauuuCGgGGCUucgcUCUGCa -3'
miRNA:   3'- aCCUCCUCaUGCac--GCgUCGA----AGACG- -5'
1650 3' -54.6 NC_001347.2 + 77102 0.68 0.92378
Target:  5'- cGGAGGAGUgaACGgucgucguUGcCGCGGCgguagUUGCg -3'
miRNA:   3'- aCCUCCUCA--UGC--------AC-GCGUCGaa---GACG- -5'
1650 3' -54.6 NC_001347.2 + 79605 0.69 0.912516
Target:  5'- cUGGAcgcGGuGaACGUGCGCgaaAGCUUCgGCc -3'
miRNA:   3'- -ACCU---CCuCaUGCACGCG---UCGAAGaCG- -5'
1650 3' -54.6 NC_001347.2 + 192643 0.69 0.900325
Target:  5'- -cGuGGAG-ACGcUGCGuCGGUUUCUGCg -3'
miRNA:   3'- acCuCCUCaUGC-ACGC-GUCGAAGACG- -5'
1650 3' -54.6 NC_001347.2 + 172312 0.69 0.893888
Target:  5'- aGGAGGAGggcaagGCGa-CGCAGUgUCUGUu -3'
miRNA:   3'- aCCUCCUCa-----UGCacGCGUCGaAGACG- -5'
1650 3' -54.6 NC_001347.2 + 98633 0.69 0.880344
Target:  5'- aGGGGaucuGGUACGaauUGCGCAGCUcuagUUGCg -3'
miRNA:   3'- aCCUCc---UCAUGC---ACGCGUCGAa---GACG- -5'
1650 3' -54.6 NC_001347.2 + 180258 0.69 0.878942
Target:  5'- cGGAGGAGUcugucgaccgcaGCGguggcuggagaaGCGCAGCgUCgGCg -3'
miRNA:   3'- aCCUCCUCA------------UGCa-----------CGCGUCGaAGaCG- -5'
1650 3' -54.6 NC_001347.2 + 52067 0.7 0.865938
Target:  5'- aGGAGGAGgagGCGUcCGCGGCccgCgaGCg -3'
miRNA:   3'- aCCUCCUCa--UGCAcGCGUCGaa-Ga-CG- -5'
1650 3' -54.6 NC_001347.2 + 67953 0.71 0.834703
Target:  5'- cGGAGGAGggagGCG-GcCGCcGCUccuUCUGCc -3'
miRNA:   3'- aCCUCCUCa---UGCaC-GCGuCGA---AGACG- -5'
1650 3' -54.6 NC_001347.2 + 47979 0.71 0.800592
Target:  5'- gGGAGGAuugACGUGUGCGGUgcUUGUg -3'
miRNA:   3'- aCCUCCUca-UGCACGCGUCGaaGACG- -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.