miRNA display CGI


Results 1 - 20 of 28 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
22660 5' -65.2 NC_005091.1 + 36939 0.66 0.316064
Target:  5'- cCG-UCGCaCGGagaaGUCgCGGGCUGCUGa -3'
miRNA:   3'- -GCgAGCGcGCCg---CAG-GCCCGACGGCc -5'
22660 5' -65.2 NC_005091.1 + 48618 0.66 0.308951
Target:  5'- uCGCUCgGgGCGGcCGUCgGGGUcccauCCGGc -3'
miRNA:   3'- -GCGAG-CgCGCC-GCAGgCCCGac---GGCC- -5'
22660 5' -65.2 NC_005091.1 + 14899 0.66 0.306841
Target:  5'- gGUUCGCauGCGGCGggucucguccccgaUCCGGGUaucgucGCUGGc -3'
miRNA:   3'- gCGAGCG--CGCCGC--------------AGGCCCGa-----CGGCC- -5'
22660 5' -65.2 NC_005091.1 + 15019 0.66 0.306841
Target:  5'- gGUUCGCauGCGGCGggucucguccccgaUCCGGGUaucgucGCUGGc -3'
miRNA:   3'- gCGAGCG--CGCCGC--------------AGGCCCGa-----CGGCC- -5'
22660 5' -65.2 NC_005091.1 + 15139 0.66 0.306841
Target:  5'- gGUUCGCauGCGGCGggucucguccccgaUCCGGGUaucgucGCUGGc -3'
miRNA:   3'- gCGAGCG--CGCCGC--------------AGGCCCGa-----CGGCC- -5'
22660 5' -65.2 NC_005091.1 + 22225 0.66 0.30196
Target:  5'- aCGCacugCGCGgGcGCGUCaCGccuuuuGGCUGCCGu -3'
miRNA:   3'- -GCGa---GCGCgC-CGCAG-GC------CCGACGGCc -5'
22660 5' -65.2 NC_005091.1 + 25067 0.66 0.295093
Target:  5'- cCGCaaGCGCGGCGUucaaCCGaucGGCgGCCa- -3'
miRNA:   3'- -GCGagCGCGCCGCA----GGC---CCGaCGGcc -5'
22660 5' -65.2 NC_005091.1 + 8508 0.66 0.288347
Target:  5'- gCGCaCGCGUucGaGCaUCCGGGCUGCggccCGGa -3'
miRNA:   3'- -GCGaGCGCG--C-CGcAGGCCCGACG----GCC- -5'
22660 5' -65.2 NC_005091.1 + 31740 0.66 0.288347
Target:  5'- cCGUaCGCcuucuGCGaGcCGUCCGaGGCgGCCGGg -3'
miRNA:   3'- -GCGaGCG-----CGC-C-GCAGGC-CCGaCGGCC- -5'
22660 5' -65.2 NC_005091.1 + 23459 0.66 0.281724
Target:  5'- gCGCU-GCGuCGGCuGcCCcGGCUGCCGu -3'
miRNA:   3'- -GCGAgCGC-GCCG-CaGGcCCGACGGCc -5'
22660 5' -65.2 NC_005091.1 + 10240 0.66 0.279108
Target:  5'- aCGCgcacaucaggaaGUGCGGCGcUCGGcGCgUGCCGGc -3'
miRNA:   3'- -GCGag----------CGCGCCGCaGGCC-CG-ACGGCC- -5'
22660 5' -65.2 NC_005091.1 + 26438 0.67 0.275221
Target:  5'- cCGCgCGCG-GGcCGcCgGGGCUGCCa- -3'
miRNA:   3'- -GCGaGCGCgCC-GCaGgCCCGACGGcc -5'
22660 5' -65.2 NC_005091.1 + 26330 0.67 0.275221
Target:  5'- uGCUCGCcuCGcuCGUauUCGGGCUGCCGc -3'
miRNA:   3'- gCGAGCGc-GCc-GCA--GGCCCGACGGCc -5'
22660 5' -65.2 NC_005091.1 + 33319 0.67 0.268839
Target:  5'- gGUUUGCGCaGCaG-CCGGGUcuucggcaaUGCCGGu -3'
miRNA:   3'- gCGAGCGCGcCG-CaGGCCCG---------ACGGCC- -5'
22660 5' -65.2 NC_005091.1 + 38351 0.67 0.268839
Target:  5'- uGCUCGUucaucCGGCGUCCGuGGCacaCGGc -3'
miRNA:   3'- gCGAGCGc----GCCGCAGGC-CCGacgGCC- -5'
22660 5' -65.2 NC_005091.1 + 7250 0.67 0.25522
Target:  5'- uGCUCGUGuCGGCG--CGGGUcucuuuuccuugGCCGGg -3'
miRNA:   3'- gCGAGCGC-GCCGCagGCCCGa-----------CGGCC- -5'
22660 5' -65.2 NC_005091.1 + 34169 0.67 0.25041
Target:  5'- aCGCgUCGUacGCGGCcgcuaucgaGUCCGaGCUGCCGc -3'
miRNA:   3'- -GCG-AGCG--CGCCG---------CAGGCcCGACGGCc -5'
22660 5' -65.2 NC_005091.1 + 18234 0.67 0.244502
Target:  5'- gCGCaUCGCGaGGuCGgcagUCGGGaUUGCCGGg -3'
miRNA:   3'- -GCG-AGCGCgCC-GCa---GGCCC-GACGGCC- -5'
22660 5' -65.2 NC_005091.1 + 47147 0.67 0.238138
Target:  5'- aCGCUCGaaGgGGCGUucaacggCUGGGCUGaaGGa -3'
miRNA:   3'- -GCGAGCg-CgCCGCA-------GGCCCGACggCC- -5'
22660 5' -65.2 NC_005091.1 + 22324 0.68 0.230797
Target:  5'- uCGCUCGUGU--CGUCCGGGCgaagacgaaacaCCGGa -3'
miRNA:   3'- -GCGAGCGCGccGCAGGCCCGac----------GGCC- -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.