miRNA display CGI


Results 1 - 20 of 21 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
1572 3' -59.5 NC_001347.2 + 180222 0.66 0.891675
Target:  5'- -gGCCGUG-CCGCCGCgCCguaguucuccgaaggCGGAcGGa -3'
miRNA:   3'- ugUGGCACaGGUGGUGgGGa--------------GCCU-CC- -5'
1572 3' -59.5 NC_001347.2 + 156660 0.66 0.891045
Target:  5'- -gGCCGccgCCGCCACCCauggCGGcGGg -3'
miRNA:   3'- ugUGGCacaGGUGGUGGGga--GCCuCC- -5'
1572 3' -59.5 NC_001347.2 + 230020 0.66 0.891045
Target:  5'- aACACCc---CC-CCGCCCCUC-GAGGa -3'
miRNA:   3'- -UGUGGcacaGGuGGUGGGGAGcCUCC- -5'
1572 3' -59.5 NC_001347.2 + 541 0.66 0.891045
Target:  5'- aACACCc---CC-CCGCCCCUC-GAGGa -3'
miRNA:   3'- -UGUGGcacaGGuGGUGGGGAGcCUCC- -5'
1572 3' -59.5 NC_001347.2 + 108584 0.66 0.878019
Target:  5'- aGCAUcaaCGUGcaCCACUACCCgUCGGcGGc -3'
miRNA:   3'- -UGUG---GCACa-GGUGGUGGGgAGCCuCC- -5'
1572 3' -59.5 NC_001347.2 + 83570 0.66 0.878019
Target:  5'- cCACCGUGguagCCAUgGCCCUgugcuacggcuUCGGAa- -3'
miRNA:   3'- uGUGGCACa---GGUGgUGGGG-----------AGCCUcc -5'
1572 3' -59.5 NC_001347.2 + 2279 0.66 0.857041
Target:  5'- gGCGCCGUGUUCggguACUGCCCgCU-GGAcGGg -3'
miRNA:   3'- -UGUGGCACAGG----UGGUGGG-GAgCCU-CC- -5'
1572 3' -59.5 NC_001347.2 + 88124 0.66 0.857041
Target:  5'- aGCACCGcGUCCacACCGCCCacacgacgUCGGcacagcGGGg -3'
miRNA:   3'- -UGUGGCaCAGG--UGGUGGGg-------AGCC------UCC- -5'
1572 3' -59.5 NC_001347.2 + 80936 0.67 0.84215
Target:  5'- cCGCCGcgaaaccacCCACCACCCCgUGGAGcGg -3'
miRNA:   3'- uGUGGCaca------GGUGGUGGGGaGCCUC-C- -5'
1572 3' -59.5 NC_001347.2 + 109647 0.67 0.84215
Target:  5'- -gGCCGUGUUCACCugGCCgCCcUGGcAGGc -3'
miRNA:   3'- ugUGGCACAGGUGG--UGG-GGaGCC-UCC- -5'
1572 3' -59.5 NC_001347.2 + 898 0.67 0.826585
Target:  5'- uCGCCGcGcCCcCCGCCCCUUGGucgcggccgcGGGg -3'
miRNA:   3'- uGUGGCaCaGGuGGUGGGGAGCC----------UCC- -5'
1572 3' -59.5 NC_001347.2 + 73711 0.67 0.826585
Target:  5'- -gGCCGggGUCCGCgggCACCgCCgcCGGAGGc -3'
miRNA:   3'- ugUGGCa-CAGGUG---GUGG-GGa-GCCUCC- -5'
1572 3' -59.5 NC_001347.2 + 135738 0.67 0.810395
Target:  5'- -aACCGggGUCCGCgacccaGCCCCccgUGGGGGg -3'
miRNA:   3'- ugUGGCa-CAGGUGg-----UGGGGa--GCCUCC- -5'
1572 3' -59.5 NC_001347.2 + 208900 0.68 0.801244
Target:  5'- cGCugCGUgcGUCCACCACCagcgaacgcacgaUCUCGGGc- -3'
miRNA:   3'- -UGugGCA--CAGGUGGUGG-------------GGAGCCUcc -5'
1572 3' -59.5 NC_001347.2 + 67359 0.68 0.776361
Target:  5'- cCGCCGccgUCGCCGCCgCCUCGGAc- -3'
miRNA:   3'- uGUGGCacaGGUGGUGG-GGAGCCUcc -5'
1572 3' -59.5 NC_001347.2 + 183127 0.68 0.766661
Target:  5'- cGCACCagcGUgacgaaaGUCUGCCGCgUCUCGGGGGc -3'
miRNA:   3'- -UGUGG---CA-------CAGGUGGUGgGGAGCCUCC- -5'
1572 3' -59.5 NC_001347.2 + 78642 0.69 0.740505
Target:  5'- gACGCCGaacucuaCCACCugCCCgugUUGGAGGc -3'
miRNA:   3'- -UGUGGCaca----GGUGGugGGG---AGCCUCC- -5'
1572 3' -59.5 NC_001347.2 + 25155 0.7 0.674836
Target:  5'- gACGCCGuUGUCCACCcucucGCCCUagauuuucguUCGGAa- -3'
miRNA:   3'- -UGUGGC-ACAGGUGG-----UGGGG----------AGCCUcc -5'
1572 3' -59.5 NC_001347.2 + 68239 0.71 0.588482
Target:  5'- gGCGCCGcaaCCACCGCCUCcgcUGGAGGa -3'
miRNA:   3'- -UGUGGCacaGGUGGUGGGGa--GCCUCC- -5'
1572 3' -59.5 NC_001347.2 + 5507 0.75 0.417439
Target:  5'- uCGCCGUucccGUcgacugcaaaaCCGCCAgCCCUCGGAGGc -3'
miRNA:   3'- uGUGGCA----CA-----------GGUGGUgGGGAGCCUCC- -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.