miRNA display CGI


Results 1 - 16 of 16 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
24340 3' -53.9 NC_005264.1 + 25268 0.66 0.97401
Target:  5'- gGCuuuuUGUCgACCGAGAUguGGgUGuGGu -3'
miRNA:   3'- -UGu---ACAGgUGGCUCUGguCUgACuCC- -5'
24340 3' -53.9 NC_005264.1 + 56900 0.66 0.973206
Target:  5'- cCGUGUCCGCCGGGGugGGAagcgaagauggcguaGAGGg -3'
miRNA:   3'- uGUACAGGUGGCUCUggUCUga-------------CUCC- -5'
24340 3' -53.9 NC_005264.1 + 33972 0.66 0.971262
Target:  5'- cGCAagcUGUCCGCUGGcGACCAGAgc-GGGc -3'
miRNA:   3'- -UGU---ACAGGUGGCU-CUGGUCUgacUCC- -5'
24340 3' -53.9 NC_005264.1 + 160392 0.66 0.971262
Target:  5'- aACGUGUgCCGCaaggaaGAGugCAGGCUGc-- -3'
miRNA:   3'- -UGUACA-GGUGg-----CUCugGUCUGACucc -5'
24340 3' -53.9 NC_005264.1 + 83450 0.66 0.961779
Target:  5'- aGCAUGgcgCCAaaaaucgucCCGAuGAUCAgcacGACUGAGGu -3'
miRNA:   3'- -UGUACa--GGU---------GGCU-CUGGU----CUGACUCC- -5'
24340 3' -53.9 NC_005264.1 + 48314 0.67 0.954365
Target:  5'- gACGcGUCCAUUGGGAUUAGcacccCUGGGGa -3'
miRNA:   3'- -UGUaCAGGUGGCUCUGGUCu----GACUCC- -5'
24340 3' -53.9 NC_005264.1 + 21337 0.67 0.954365
Target:  5'- cGCccGUagaugCGCCGGGGCCGGA-UGAGGc -3'
miRNA:   3'- -UGuaCAg----GUGGCUCUGGUCUgACUCC- -5'
24340 3' -53.9 NC_005264.1 + 153105 0.67 0.950317
Target:  5'- uGCcUG-CCGCCGAG-UCAGAaaGAGGa -3'
miRNA:   3'- -UGuACaGGUGGCUCuGGUCUgaCUCC- -5'
24340 3' -53.9 NC_005264.1 + 49589 0.68 0.93177
Target:  5'- cGCAcG-CCGCCGGcGACCAGgACgacgGGGGg -3'
miRNA:   3'- -UGUaCaGGUGGCU-CUGGUC-UGa---CUCC- -5'
24340 3' -53.9 NC_005264.1 + 63133 0.69 0.890108
Target:  5'- cCAUGUaUCGCCGAGAUCcauuuGGACggcGAGGg -3'
miRNA:   3'- uGUACA-GGUGGCUCUGG-----UCUGa--CUCC- -5'
24340 3' -53.9 NC_005264.1 + 36738 0.7 0.829027
Target:  5'- cGCAuuccuUGcCCGCCuacuGGCCAGACUGAGa -3'
miRNA:   3'- -UGU-----ACaGGUGGcu--CUGGUCUGACUCc -5'
24340 3' -53.9 NC_005264.1 + 127141 0.71 0.784787
Target:  5'- ---cGUCCAUCG-GAaCGGGCUGAGGa -3'
miRNA:   3'- uguaCAGGUGGCuCUgGUCUGACUCC- -5'
24340 3' -53.9 NC_005264.1 + 8114 0.71 0.784787
Target:  5'- ---cGUCCAUCG-GAaCGGGCUGAGGa -3'
miRNA:   3'- uguaCAGGUGGCuCUgGUCUGACUCC- -5'
24340 3' -53.9 NC_005264.1 + 59796 0.72 0.756517
Target:  5'- cCGUGUCCGCCGcGGAgCCguacguAGACgUGAGGg -3'
miRNA:   3'- uGUACAGGUGGC-UCU-GG------UCUG-ACUCC- -5'
24340 3' -53.9 NC_005264.1 + 104833 0.76 0.51464
Target:  5'- gGCcUGUCCGCCGGGGCC--GCUGAGc -3'
miRNA:   3'- -UGuACAGGUGGCUCUGGucUGACUCc -5'
24340 3' -53.9 NC_005264.1 + 156577 1.11 0.004008
Target:  5'- aACAUGUCCACCGAGACCAGACUGAGGa -3'
miRNA:   3'- -UGUACAGGUGGCUCUGGUCUGACUCC- -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.