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
12018 5' -52.7 NC_003278.1 + 33032 0.66 0.765401
Target:  5'- gCCGCGcACUggccgacaccGCGCcGGCGGAUU-GGu -3'
miRNA:   3'- aGGCGCuUGA----------CGCGuUCGUCUAAgCC- -5'
12018 5' -52.7 NC_003278.1 + 2534 0.66 0.765401
Target:  5'- cCCGCGAAUaccgGcCGCAuGgAGAUuuUCGGa -3'
miRNA:   3'- aGGCGCUUGa---C-GCGUuCgUCUA--AGCC- -5'
12018 5' -52.7 NC_003278.1 + 1629 0.66 0.75251
Target:  5'- aUCCGC-AGCUGauggggguggugcCGCAgaacgcuGGUGGGUUCGGa -3'
miRNA:   3'- -AGGCGcUUGAC-------------GCGU-------UCGUCUAAGCC- -5'
12018 5' -52.7 NC_003278.1 + 31236 0.66 0.710522
Target:  5'- gCUGCaucaguugucagGAACUGCGCGAGCAccccgcgCGGc -3'
miRNA:   3'- aGGCG------------CUUGACGCGUUCGUcuaa---GCC- -5'
12018 5' -52.7 NC_003278.1 + 7049 0.66 0.710522
Target:  5'- --aGCGAGCaGCaGCAugAGCGGAUUCa- -3'
miRNA:   3'- aggCGCUUGaCG-CGU--UCGUCUAAGcc -5'
12018 5' -52.7 NC_003278.1 + 30177 0.67 0.687888
Target:  5'- -gCGCGAcGCUGCGCGcucugaaaCAGAUUCGu -3'
miRNA:   3'- agGCGCU-UGACGCGUuc------GUCUAAGCc -5'
12018 5' -52.7 NC_003278.1 + 12865 0.67 0.665019
Target:  5'- aCCGCGAaauGCUcugGCGCcAGCGGGUcaacgaggCGGc -3'
miRNA:   3'- aGGCGCU---UGA---CGCGuUCGUCUAa-------GCC- -5'
12018 5' -52.7 NC_003278.1 + 31910 0.67 0.665019
Target:  5'- cCCGCcGGCgGCGCG-GCGGAUUuccucCGGg -3'
miRNA:   3'- aGGCGcUUGaCGCGUuCGUCUAA-----GCC- -5'
12018 5' -52.7 NC_003278.1 + 26384 0.67 0.653528
Target:  5'- gUuuGCGGGCUGCcucGCGGGCuugcuccgUCGGg -3'
miRNA:   3'- -AggCGCUUGACG---CGUUCGucua----AGCC- -5'
12018 5' -52.7 NC_003278.1 + 10602 0.67 0.653528
Target:  5'- uUCUGUuGGCUGCGCc-GUAGAUcgCGGg -3'
miRNA:   3'- -AGGCGcUUGACGCGuuCGUCUAa-GCC- -5'
12018 5' -52.7 NC_003278.1 + 16751 0.68 0.607462
Target:  5'- gCCGCcAACUGCGCGacuGGcCGGAgucCGGu -3'
miRNA:   3'- aGGCGcUUGACGCGU---UC-GUCUaa-GCC- -5'
12018 5' -52.7 NC_003278.1 + 5017 0.69 0.573117
Target:  5'- gCCGCGAcCUGgGUGAGCAac-UCGGc -3'
miRNA:   3'- aGGCGCUuGACgCGUUCGUcuaAGCC- -5'
12018 5' -52.7 NC_003278.1 + 12162 0.69 0.561762
Target:  5'- aCCGCcggcgggaaGAACUGCGC--GCAGGUggUGGg -3'
miRNA:   3'- aGGCG---------CUUGACGCGuuCGUCUAa-GCC- -5'
12018 5' -52.7 NC_003278.1 + 3117 0.7 0.528103
Target:  5'- gUCGaCGAACUG-GCAcaucAGCAGGUUCuGGa -3'
miRNA:   3'- aGGC-GCUUGACgCGU----UCGUCUAAG-CC- -5'
12018 5' -52.7 NC_003278.1 + 13033 0.7 0.506083
Target:  5'- gUCCGaCGAcagcCUGCGCGAGCGGGcgCa- -3'
miRNA:   3'- -AGGC-GCUu---GACGCGUUCGUCUaaGcc -5'
12018 5' -52.7 NC_003278.1 + 7228 0.7 0.473823
Target:  5'- aCCGCGAGCUGCGgGccuGGCgccuugagaAGAUcgCGGc -3'
miRNA:   3'- aGGCGCUUGACGCgU---UCG---------UCUAa-GCC- -5'
12018 5' -52.7 NC_003278.1 + 13100 0.71 0.432489
Target:  5'- aUCUGCGcccGCUcGCGCAGGCuGucgUCGGa -3'
miRNA:   3'- -AGGCGCu--UGA-CGCGUUCGuCua-AGCC- -5'
12018 5' -52.7 NC_003278.1 + 33177 0.72 0.412625
Target:  5'- --aGCG-ACUgGCGCGAGCGGAU-CGGc -3'
miRNA:   3'- aggCGCuUGA-CGCGUUCGUCUAaGCC- -5'
12018 5' -52.7 NC_003278.1 + 27663 0.72 0.37464
Target:  5'- gCUGUuuGAGCaggUGCGCGGGCAGAUagCGGg -3'
miRNA:   3'- aGGCG--CUUG---ACGCGUUCGUCUAa-GCC- -5'
12018 5' -52.7 NC_003278.1 + 19607 0.74 0.314082
Target:  5'- -gCGCGAcCUGCGCGcGCAGAUccaggCGGc -3'
miRNA:   3'- agGCGCUuGACGCGUuCGUCUAa----GCC- -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.