miRNA display CGI


Results 1 - 20 of 37 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
33128 3' -63 NC_007497.1 + 2340 0.66 0.324267
Target:  5'- uCCGCGCGCCaucGGuuucuugcGCGGCUugaaucCGGaUCGCUu -3'
miRNA:   3'- -GGCGCGCGG---CC--------UGCCGA------GUCgAGCGA- -5'
33128 3' -63 NC_007497.1 + 1636 0.66 0.316729
Target:  5'- gCCGCGUaagaGgUGGGCGGaacUGGCUCGCa -3'
miRNA:   3'- -GGCGCG----CgGCCUGCCga-GUCGAGCGa -5'
33128 3' -63 NC_007497.1 + 9951 0.66 0.309324
Target:  5'- aCCGCggccGCGCaGGGCGaGCUCgagcguccgaGGCgUCGCUg -3'
miRNA:   3'- -GGCG----CGCGgCCUGC-CGAG----------UCG-AGCGA- -5'
33128 3' -63 NC_007497.1 + 15669 0.66 0.309324
Target:  5'- aCGCGUuUCGGGCGcGUgcaUCGGCUgGCUg -3'
miRNA:   3'- gGCGCGcGGCCUGC-CG---AGUCGAgCGA- -5'
33128 3' -63 NC_007497.1 + 26039 0.66 0.30859
Target:  5'- uCCGCGuCGCCGGccaucggaGGCgugaucgagucgaUCGGCUCGa- -3'
miRNA:   3'- -GGCGC-GCGGCCug------CCG-------------AGUCGAGCga -5'
33128 3' -63 NC_007497.1 + 35812 0.66 0.302051
Target:  5'- gCCGuCGCGUCGaGCGGCUgccgcguuGCUUGCg -3'
miRNA:   3'- -GGC-GCGCGGCcUGCCGAgu------CGAGCGa -5'
33128 3' -63 NC_007497.1 + 12046 0.66 0.302051
Target:  5'- -gGCGCGCCGaGGaaGCguucacCAGCUCGUUc -3'
miRNA:   3'- ggCGCGCGGC-CUgcCGa-----GUCGAGCGA- -5'
33128 3' -63 NC_007497.1 + 10163 0.66 0.294911
Target:  5'- aCCGCgGCGaCCGc-CGGCUUGGC-CGCa -3'
miRNA:   3'- -GGCG-CGC-GGCcuGCCGAGUCGaGCGa -5'
33128 3' -63 NC_007497.1 + 21605 0.66 0.281026
Target:  5'- aCGCGCGCauGAaaGCgcgUCAGCUCGUc -3'
miRNA:   3'- gGCGCGCGgcCUgcCG---AGUCGAGCGa -5'
33128 3' -63 NC_007497.1 + 41338 0.66 0.281026
Target:  5'- gCCGCgGUGagGGACGGUggCGGCUgGCa -3'
miRNA:   3'- -GGCG-CGCggCCUGCCGa-GUCGAgCGa -5'
33128 3' -63 NC_007497.1 + 14301 0.66 0.280346
Target:  5'- aCUGCGuCGCCagcgagcGGcccGCGGCUCuGCaUCGCg -3'
miRNA:   3'- -GGCGC-GCGG-------CC---UGCCGAGuCG-AGCGa -5'
33128 3' -63 NC_007497.1 + 36986 0.67 0.267666
Target:  5'- cCCGCcggcgGCGCCGGA-GGCggaacaagcuUCGGCgcgcCGCUg -3'
miRNA:   3'- -GGCG-----CGCGGCCUgCCG----------AGUCGa---GCGA- -5'
33128 3' -63 NC_007497.1 + 8200 0.67 0.254823
Target:  5'- aCGCGCGaUCGcGACuucGCUCAGgcCUCGCUg -3'
miRNA:   3'- gGCGCGC-GGC-CUGc--CGAGUC--GAGCGA- -5'
33128 3' -63 NC_007497.1 + 26241 0.67 0.254194
Target:  5'- gCUGCG-GCaCGGauaaGCGGCUCAagcgccucgacccGCUCGCg -3'
miRNA:   3'- -GGCGCgCG-GCC----UGCCGAGU-------------CGAGCGa -5'
33128 3' -63 NC_007497.1 + 36592 0.67 0.248593
Target:  5'- aUCGUGUGCCGGcccguACGcCUCGGCgacCGCUu -3'
miRNA:   3'- -GGCGCGCGGCC-----UGCcGAGUCGa--GCGA- -5'
33128 3' -63 NC_007497.1 + 8833 0.67 0.248593
Target:  5'- gCCGCG-GCCGcGGCguucGGCauccaUCAGCUCGUc -3'
miRNA:   3'- -GGCGCgCGGC-CUG----CCG-----AGUCGAGCGa -5'
33128 3' -63 NC_007497.1 + 10227 0.67 0.246749
Target:  5'- cCCGCGCaggcucgcucaugcGCaCGGugGGCUCAGg--GCUg -3'
miRNA:   3'- -GGCGCG--------------CG-GCCugCCGAGUCgagCGA- -5'
33128 3' -63 NC_007497.1 + 34559 0.67 0.244916
Target:  5'- aCCGUGCGCaugagcgagccugcgCGGGCGGCcgCcGUUUGCg -3'
miRNA:   3'- -GGCGCGCG---------------GCCUGCCGa-GuCGAGCGa -5'
33128 3' -63 NC_007497.1 + 396 0.67 0.24249
Target:  5'- aCCGCGCGCCGcACuGCUgcucuugcCAGCgCGCc -3'
miRNA:   3'- -GGCGCGCGGCcUGcCGA--------GUCGaGCGa -5'
33128 3' -63 NC_007497.1 + 17795 0.68 0.224927
Target:  5'- gUCGCGCGCCGuGAaguCGGUggaCGGCgacaCGCUu -3'
miRNA:   3'- -GGCGCGCGGC-CU---GCCGa--GUCGa---GCGA- -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.