miRNA display CGI


Results 1 - 20 of 29 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
2066 3' -48.4 NC_001348.1 + 249 0.67 0.995264
Target:  5'- aGGC-UGgcGGGGggGgguuuCCCGg -3'
miRNA:   3'- gCCGuACauUCCCuuCauuuuGGGCg -5'
2066 3' -48.4 NC_001348.1 + 446 0.69 0.987087
Target:  5'- gCGGCuucUGUAAGGGggGggcGcgUCUGCc -3'
miRNA:   3'- -GCCGu--ACAUUCCCuuCau-UuuGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 2073 0.7 0.967653
Target:  5'- -uGUAUGUGGGGGAA---AAGCCCGa -3'
miRNA:   3'- gcCGUACAUUCCCUUcauUUUGGGCg -5'
2066 3' -48.4 NC_001348.1 + 11847 0.66 0.998622
Target:  5'- gGGCGUaUAAcuaaucGAAGUAGGGCCCGUu -3'
miRNA:   3'- gCCGUAcAUUcc----CUUCAUUUUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 22786 0.7 0.978999
Target:  5'- uGGCAg--GAGGGAAucGGAAUUCGCg -3'
miRNA:   3'- gCCGUacaUUCCCUUcaUUUUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 23696 0.69 0.983414
Target:  5'- uGGCGauuucuGGGgcGUcAAAACCCGCa -3'
miRNA:   3'- gCCGUacauu-CCCuuCA-UUUUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 35964 0.75 0.814463
Target:  5'- uCGGCAUGUAAagcgccGGuuGUAuccuGAACCCGCa -3'
miRNA:   3'- -GCCGUACAUUc-----CCuuCAU----UUUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 46405 0.67 0.996585
Target:  5'- gCGGCAUGgcguucuGGAGcGUAcacgcaucgaAGGCCCGCu -3'
miRNA:   3'- -GCCGUACauuc---CCUU-CAU----------UUUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 51770 0.68 0.991384
Target:  5'- aCGuaAUGUcaGGGGGGAGUAcuGCCCc- -3'
miRNA:   3'- -GCcgUACA--UUCCCUUCAUuuUGGGcg -5'
2066 3' -48.4 NC_001348.1 + 65933 0.72 0.933251
Target:  5'- uGGUggGUGAGGaGggGUAAAGgCaCGCu -3'
miRNA:   3'- gCCGuaCAUUCC-CuuCAUUUUgG-GCG- -5'
2066 3' -48.4 NC_001348.1 + 75800 0.66 0.99887
Target:  5'- gGGUAUGUGGGcGuGGUGAAAUuaUCGCg -3'
miRNA:   3'- gCCGUACAUUCcCuUCAUUUUG--GGCG- -5'
2066 3' -48.4 NC_001348.1 + 80874 0.71 0.952526
Target:  5'- uGGCguugGUGUAAGaucugcGGggGUGGGAUCUGCu -3'
miRNA:   3'- gCCG----UACAUUC------CCuuCAUUUUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 81063 0.66 0.998823
Target:  5'- aGGCcgGUcagcgggaauuaaAAGuGGAGGUAGAcauuggcGCCaCGCa -3'
miRNA:   3'- gCCGuaCA-------------UUC-CCUUCAUUU-------UGG-GCG- -5'
2066 3' -48.4 NC_001348.1 + 84517 0.66 0.998329
Target:  5'- cCGGCGUGUAuaaAGGGAuuauaauuuaAGUc---CCCGg -3'
miRNA:   3'- -GCCGUACAU---UCCCU----------UCAuuuuGGGCg -5'
2066 3' -48.4 NC_001348.1 + 86782 0.72 0.921996
Target:  5'- cCGaGCggGUAcGGGGAuacauacgaaaAGUAAAACCUGCa -3'
miRNA:   3'- -GC-CGuaCAU-UCCCU-----------UCAUUUUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 90607 0.74 0.881794
Target:  5'- aGGCAUG--GGGGGAGUGuu-UCUGCg -3'
miRNA:   3'- gCCGUACauUCCCUUCAUuuuGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 95072 0.7 0.970826
Target:  5'- gCGGCuuucuGGGGAGGUGuuGGCCUGUu -3'
miRNA:   3'- -GCCGuacauUCCCUUCAUu-UUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 95150 0.7 0.975697
Target:  5'- gGGCAUG-AAGGGAgAGUGuuuggucguguggccGCCCGUu -3'
miRNA:   3'- gCCGUACaUUCCCU-UCAUuu-------------UGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 98958 0.76 0.766003
Target:  5'- aGuaAUGUGGGGGggGUAcuAUCCGUa -3'
miRNA:   3'- gCcgUACAUUCCCuuCAUuuUGGGCG- -5'
2066 3' -48.4 NC_001348.1 + 103267 1.14 0.006379
Target:  5'- uCGGCAUGUAAGGGAAGUAAAACCCGCa -3'
miRNA:   3'- -GCCGUACAUUCCCUUCAUUUUGGGCG- -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.