miRNA display CGI


Results 1 - 20 of 40 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
13112 3' -53.2 NC_003401.1 + 106869 0.66 0.965459
Target:  5'- uGCGGGUuuGGCGGgUucGGUGAGCa -3'
miRNA:   3'- gUGCCCAucUUGCCgAuaCCGCUUGc -5'
13112 3' -53.2 NC_003401.1 + 103295 0.66 0.96204
Target:  5'- cCAUGGG---AACGGCgGUGGCcucGGACGg -3'
miRNA:   3'- -GUGCCCaucUUGCCGaUACCG---CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 42295 0.66 0.959879
Target:  5'- aGCGGGUGGAGCguGGCcgccaccaggGgaucgcuguacagcuUGGUGAACGg -3'
miRNA:   3'- gUGCCCAUCUUG--CCGa---------U---------------ACCGCUUGC- -5'
13112 3' -53.2 NC_003401.1 + 109662 0.66 0.958392
Target:  5'- gACGGGUcacuccGACGGCcucggugcguUGaGGCGAACGg -3'
miRNA:   3'- gUGCCCAuc----UUGCCG----------AUaCCGCUUGC- -5'
13112 3' -53.2 NC_003401.1 + 14344 0.66 0.958392
Target:  5'- gGCGGcu-GAACGGCUccGGCGccGGCa -3'
miRNA:   3'- gUGCCcauCUUGCCGAuaCCGC--UUGc -5'
13112 3' -53.2 NC_003401.1 + 80782 0.66 0.957635
Target:  5'- aCGCGGGaacGAGCGGUgaagaugaugggGUGGCGuGCu -3'
miRNA:   3'- -GUGCCCau-CUUGCCGa-----------UACCGCuUGc -5'
13112 3' -53.2 NC_003401.1 + 27701 0.66 0.954511
Target:  5'- gGCGuGGUGGcucgcCGGCUGcgggGGCGGugGu -3'
miRNA:   3'- gUGC-CCAUCuu---GCCGAUa---CCGCUugC- -5'
13112 3' -53.2 NC_003401.1 + 14518 0.66 0.95411
Target:  5'- cCugGGGcgaaccgAGGACGGCaccagcgUGUGcGUGAACGu -3'
miRNA:   3'- -GugCCCa------UCUUGCCG-------AUAC-CGCUUGC- -5'
13112 3' -53.2 NC_003401.1 + 121664 0.67 0.950392
Target:  5'- gACGGGgguGAUGGUgggGGCGAAUGc -3'
miRNA:   3'- gUGCCCaucUUGCCGauaCCGCUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115963 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 116027 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115676 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115612 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115548 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115484 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115420 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 115356 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -5'
13112 3' -53.2 NC_003401.1 + 129060 0.67 0.946032
Target:  5'- --aGGGUGGGAgGGgaauguuagGUGGCGAACc -3'
miRNA:   3'- gugCCCAUCUUgCCga-------UACCGCUUGc -5'
13112 3' -53.2 NC_003401.1 + 21 0.67 0.946032
Target:  5'- aGCGGGggacagGGGACGGC-GUGuGCGuGCu -3'
miRNA:   3'- gUGCCCa-----UCUUGCCGaUAC-CGCuUGc -5'
13112 3' -53.2 NC_003401.1 + 116219 0.67 0.946032
Target:  5'- -cCGGGUgGGGGCGGCUcggcuccgggGUGGCuccggguggGGGCGg -3'
miRNA:   3'- guGCCCA-UCUUGCCGA----------UACCG---------CUUGC- -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.