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
2871 3' -55.2 NC_001493.1 + 3880 0.66 0.914884
Target:  5'- -aUGAGC-CGGuCCGUCCG-GGGUg-- -3'
miRNA:   3'- caACUCGuGCU-GGUAGGCgCCCAagc -5'
2871 3' -55.2 NC_001493.1 + 119434 0.66 0.914884
Target:  5'- -aUGAGC-CGGuCCGUCCG-GGGUg-- -3'
miRNA:   3'- caACUCGuGCU-GGUAGGCgCCCAagc -5'
2871 3' -55.2 NC_001493.1 + 67810 0.67 0.882467
Target:  5'- gGUUGAGaaucaACuuguGACUGUUCGuCGGGUUCGa -3'
miRNA:   3'- -CAACUCg----UG----CUGGUAGGC-GCCCAAGC- -5'
2871 3' -55.2 NC_001493.1 + 54704 0.67 0.882467
Target:  5'- --cGAuGCGCGcGCCAUCCGUccGGUUCa -3'
miRNA:   3'- caaCU-CGUGC-UGGUAGGCGc-CCAAGc -5'
2871 3' -55.2 NC_001493.1 + 34264 0.67 0.875289
Target:  5'- --cGAGCACGuggguggguccGCCAgCUGCcGGUUCGg -3'
miRNA:   3'- caaCUCGUGC-----------UGGUaGGCGcCCAAGC- -5'
2871 3' -55.2 NC_001493.1 + 99846 0.67 0.860274
Target:  5'- -gUGGGC-CcACC-UCCGUGGGUUCc -3'
miRNA:   3'- caACUCGuGcUGGuAGGCGCCCAAGc -5'
2871 3' -55.2 NC_001493.1 + 62585 0.68 0.844421
Target:  5'- --cGGGCACGGCCAcggCCaCGGGcaCGg -3'
miRNA:   3'- caaCUCGUGCUGGUa--GGcGCCCaaGC- -5'
2871 3' -55.2 NC_001493.1 + 110200 0.68 0.827782
Target:  5'- gGUUGAGC--GACCAUgaGCGGGaaggUCGa -3'
miRNA:   3'- -CAACUCGugCUGGUAggCGCCCa---AGC- -5'
2871 3' -55.2 NC_001493.1 + 119348 0.68 0.825222
Target:  5'- --gGAGCGCGcCCcugugcgaaccgguAUUCGCGGGggCGg -3'
miRNA:   3'- caaCUCGUGCuGG--------------UAGGCGCCCaaGC- -5'
2871 3' -55.2 NC_001493.1 + 3794 0.68 0.825222
Target:  5'- --gGAGCGCGcCCcugugcgaaccgguAUUCGCGGGggCGg -3'
miRNA:   3'- caaCUCGUGCuGG--------------UAGGCGCCCaaGC- -5'
2871 3' -55.2 NC_001493.1 + 124637 0.68 0.822646
Target:  5'- -aUGAGCGCGACCcgggucuuuugcgcgGUcaacgggagCCGCGGGgUCa -3'
miRNA:   3'- caACUCGUGCUGG---------------UA---------GGCGCCCaAGc -5'
2871 3' -55.2 NC_001493.1 + 9082 0.68 0.822646
Target:  5'- -aUGAGCGCGACCcgggucuuuugcgcgGUcaacgggagCCGCGGGgUCa -3'
miRNA:   3'- caACUCGUGCUGG---------------UA---------GGCGCCCaAGc -5'
2871 3' -55.2 NC_001493.1 + 16088 0.69 0.810419
Target:  5'- --cGAGUACGggGCCGUCC-CGGGgcUCGa -3'
miRNA:   3'- caaCUCGUGC--UGGUAGGcGCCCa-AGC- -5'
2871 3' -55.2 NC_001493.1 + 131643 0.69 0.810419
Target:  5'- --cGAGUACGggGCCGUCC-CGGGgcUCGa -3'
miRNA:   3'- caaCUCGUGC--UGGUAGGcGCCCa-AGC- -5'
2871 3' -55.2 NC_001493.1 + 69252 0.69 0.810419
Target:  5'- gGUUGAaCAgGGCCcuGUCCGUcacgGGGUUCGa -3'
miRNA:   3'- -CAACUcGUgCUGG--UAGGCG----CCCAAGC- -5'
2871 3' -55.2 NC_001493.1 + 130554 0.69 0.773787
Target:  5'- --gGGGUGCGAUCGaggCCGCGGGUg-- -3'
miRNA:   3'- caaCUCGUGCUGGUa--GGCGCCCAagc -5'
2871 3' -55.2 NC_001493.1 + 14999 0.69 0.773787
Target:  5'- --gGGGUGCGAUCGaggCCGCGGGUg-- -3'
miRNA:   3'- caaCUCGUGCUGGUa--GGCGCCCAagc -5'
2871 3' -55.2 NC_001493.1 + 27124 0.72 0.633291
Target:  5'- --cGGGUGCGuGCCAUUC-CGGGUUCGg -3'
miRNA:   3'- caaCUCGUGC-UGGUAGGcGCCCAAGC- -5'
2871 3' -55.2 NC_001493.1 + 18102 0.74 0.51141
Target:  5'- cUUGAGCACGGCCAUucCCGUGGcGgacagCGg -3'
miRNA:   3'- cAACUCGUGCUGGUA--GGCGCC-Caa---GC- -5'
2871 3' -55.2 NC_001493.1 + 133657 0.74 0.51141
Target:  5'- cUUGAGCACGGCCAUucCCGUGGcGgacagCGg -3'
miRNA:   3'- cAACUCGUGCUGGUA--GGCGCC-Caa---GC- -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.