miRNA display CGI


Results 1 - 20 of 22 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
7330 5' -55.9 NC_001900.1 + 42085 0.66 0.681912
Target:  5'- aGggUCAGAUCGG-GC-GUGUGCcCGa -3'
miRNA:   3'- gCuuGGUCUGGCCuCGgUACACGaGC- -5'
7330 5' -55.9 NC_001900.1 + 23158 0.66 0.660001
Target:  5'- aGGACCAGACCGucguuGAGCCGgccgaGCagaUCGg -3'
miRNA:   3'- gCUUGGUCUGGC-----CUCGGUaca--CG---AGC- -5'
7330 5' -55.9 NC_001900.1 + 48822 0.66 0.660001
Target:  5'- aCGuGCUGGugUGGuguGCCGUGUGCg-- -3'
miRNA:   3'- -GCuUGGUCugGCCu--CGGUACACGagc -5'
7330 5' -55.9 NC_001900.1 + 23386 0.66 0.660001
Target:  5'- uCGGcCCAG-CCGGGGCCgaccgccgugGUGUugacucGCUCGa -3'
miRNA:   3'- -GCUuGGUCuGGCCUCGG----------UACA------CGAGC- -5'
7330 5' -55.9 NC_001900.1 + 24581 0.66 0.660001
Target:  5'- cCGAccGCCGuGACCGGAGUCAgcaccgGgUCGa -3'
miRNA:   3'- -GCU--UGGU-CUGGCCUCGGUaca---CgAGC- -5'
7330 5' -55.9 NC_001900.1 + 37098 0.66 0.649002
Target:  5'- aGAuCCAGcCCGGAGCCAccuUGUagaaCUCa -3'
miRNA:   3'- gCUuGGUCuGGCCUCGGU---ACAc---GAGc -5'
7330 5' -55.9 NC_001900.1 + 25634 0.66 0.637987
Target:  5'- --cAUCuucGuCCGGucAGCCAUGUGCUCGc -3'
miRNA:   3'- gcuUGGu--CuGGCC--UCGGUACACGAGC- -5'
7330 5' -55.9 NC_001900.1 + 19931 0.67 0.615951
Target:  5'- gGAGCCcGACuCGGAGCUgAUcUGCUCc -3'
miRNA:   3'- gCUUGGuCUG-GCCUCGG-UAcACGAGc -5'
7330 5' -55.9 NC_001900.1 + 8559 0.67 0.586306
Target:  5'- uCGAGCUggcuccgcuGGACCGGGGCCAgaagaucacccucggGUUCGa -3'
miRNA:   3'- -GCUUGG---------UCUGGCCUCGGUaca------------CGAGC- -5'
7330 5' -55.9 NC_001900.1 + 20213 0.67 0.572121
Target:  5'- aGAACgAGACCGGcguAGCCAcgcUGcaGCUCu -3'
miRNA:   3'- gCUUGgUCUGGCC---UCGGU---ACa-CGAGc -5'
7330 5' -55.9 NC_001900.1 + 15096 0.67 0.572121
Target:  5'- uCGAcCUGGACUGGAGCCAccgGCUgGu -3'
miRNA:   3'- -GCUuGGUCUGGCCUCGGUacaCGAgC- -5'
7330 5' -55.9 NC_001900.1 + 18046 0.67 0.561265
Target:  5'- uGAACCAGcgaCGGAGCgAgcUGUGCgaucgCGg -3'
miRNA:   3'- gCUUGGUCug-GCCUCGgU--ACACGa----GC- -5'
7330 5' -55.9 NC_001900.1 + 28413 0.67 0.561265
Target:  5'- -cGACCAGACCGacggcagcaAGCUGUG-GCUCGg -3'
miRNA:   3'- gcUUGGUCUGGCc--------UCGGUACaCGAGC- -5'
7330 5' -55.9 NC_001900.1 + 27552 0.68 0.507989
Target:  5'- --cGCCGacGGCCGGcucaaGGCCGUGcgGCUCGg -3'
miRNA:   3'- gcuUGGU--CUGGCC-----UCGGUACa-CGAGC- -5'
7330 5' -55.9 NC_001900.1 + 25415 0.68 0.507989
Target:  5'- --cGCCAuGCgCGGAGUCGUGUGCcCGa -3'
miRNA:   3'- gcuUGGUcUG-GCCUCGGUACACGaGC- -5'
7330 5' -55.9 NC_001900.1 + 25560 0.7 0.437341
Target:  5'- aCGAccuCCGGGCCgugGGAGCCAcgcUGgcgGCUCa -3'
miRNA:   3'- -GCUu--GGUCUGG---CCUCGGU---ACa--CGAGc -5'
7330 5' -55.9 NC_001900.1 + 26821 0.7 0.437341
Target:  5'- gCGGuacACCAGAUCGGAGCUG-GUGCa-- -3'
miRNA:   3'- -GCU---UGGUCUGGCCUCGGUaCACGagc -5'
7330 5' -55.9 NC_001900.1 + 31623 0.7 0.399588
Target:  5'- uCGGGCC-GACCGGAGCCAaGcUGCc-- -3'
miRNA:   3'- -GCUUGGuCUGGCCUCGGUaC-ACGagc -5'
7330 5' -55.9 NC_001900.1 + 13843 0.71 0.39048
Target:  5'- uCGAuACCGGAgcCCGGuaccAGCCG-GUGCUCGu -3'
miRNA:   3'- -GCU-UGGUCU--GGCC----UCGGUaCACGAGC- -5'
7330 5' -55.9 NC_001900.1 + 4886 0.72 0.330635
Target:  5'- aGAACCAGACCcGAGCagucggugGUGuCUCGg -3'
miRNA:   3'- gCUUGGUCUGGcCUCGgua-----CAC-GAGC- -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.