miRNA display CGI


Results 1 - 20 of 33 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
27630 3' -60.2 NC_005882.1 + 633 1.1 0.000178
Target:  5'- uGGUCGGCGCCGAUGUCGGCCAGCUCGa -3'
miRNA:   3'- -CCAGCCGCGGCUACAGCCGGUCGAGC- -5'
27630 3' -60.2 NC_005882.1 + 682 0.71 0.176546
Target:  5'- -aUCGGCGCCGAcca-GGCgaacCAGCUCGg -3'
miRNA:   3'- ccAGCCGCGGCUacagCCG----GUCGAGC- -5'
27630 3' -60.2 NC_005882.1 + 3247 0.72 0.145734
Target:  5'- aGGUaCGG-GCCGAUcuggaucGUCGGCCGGC-CGc -3'
miRNA:   3'- -CCA-GCCgCGGCUA-------CAGCCGGUCGaGC- -5'
27630 3' -60.2 NC_005882.1 + 3281 0.67 0.326015
Target:  5'- cGUCGcGCGgCGAgaucucuUCGGCCAGCacgCGg -3'
miRNA:   3'- cCAGC-CGCgGCUac-----AGCCGGUCGa--GC- -5'
27630 3' -60.2 NC_005882.1 + 3690 0.69 0.235693
Target:  5'- cGUCcaGGCGCgGGccGUCgagcggGGCCAGCUCGa -3'
miRNA:   3'- cCAG--CCGCGgCUa-CAG------CCGGUCGAGC- -5'
27630 3' -60.2 NC_005882.1 + 5321 0.71 0.176546
Target:  5'- cGUCGGUGCCGGgcgucaugGUCGGCgagaAGCUg- -3'
miRNA:   3'- cCAGCCGCGGCUa-------CAGCCGg---UCGAgc -5'
27630 3' -60.2 NC_005882.1 + 7241 0.69 0.241824
Target:  5'- gGGUCGGUGCaa---UCGGCCGGCa-- -3'
miRNA:   3'- -CCAGCCGCGgcuacAGCCGGUCGagc -5'
27630 3' -60.2 NC_005882.1 + 8891 0.69 0.254485
Target:  5'- gGGUCGGCGCaGAUuUCG-CCAGcCUUGa -3'
miRNA:   3'- -CCAGCCGCGgCUAcAGCcGGUC-GAGC- -5'
27630 3' -60.2 NC_005882.1 + 11112 0.67 0.310594
Target:  5'- aGGUCGGCuucuggcaGCgGAUGUUcucCCAGCUCu -3'
miRNA:   3'- -CCAGCCG--------CGgCUACAGcc-GGUCGAGc -5'
27630 3' -60.2 NC_005882.1 + 12342 0.71 0.181325
Target:  5'- cGG-CGGCGCCGA--UCGGCaacgcuGGUUCGg -3'
miRNA:   3'- -CCaGCCGCGGCUacAGCCGg-----UCGAGC- -5'
27630 3' -60.2 NC_005882.1 + 12872 0.68 0.274489
Target:  5'- --cCGGCGCCGGg--CGGUauuGGCUCGu -3'
miRNA:   3'- ccaGCCGCGGCUacaGCCGg--UCGAGC- -5'
27630 3' -60.2 NC_005882.1 + 16197 0.68 0.260357
Target:  5'- aGGUCGGCaacuacaucguGCCGAUcgacgucGUCGGCaAGC-CGg -3'
miRNA:   3'- -CCAGCCG-----------CGGCUA-------CAGCCGgUCGaGC- -5'
27630 3' -60.2 NC_005882.1 + 16661 0.66 0.393267
Target:  5'- cGUCGGCGCUaccgGUCuuGCCGGCUg- -3'
miRNA:   3'- cCAGCCGCGGcua-CAGc-CGGUCGAgc -5'
27630 3' -60.2 NC_005882.1 + 17248 0.68 0.281432
Target:  5'- cGUCcGCGUCGAggcUCGGauaCAGCUCGg -3'
miRNA:   3'- cCAGcCGCGGCUac-AGCCg--GUCGAGC- -5'
27630 3' -60.2 NC_005882.1 + 19094 0.66 0.367873
Target:  5'- cGUCGGCGCCGGgcgcuacaagaagaUCaGcGCCAGCUUc -3'
miRNA:   3'- cCAGCCGCGGCUac------------AG-C-CGGUCGAGc -5'
27630 3' -60.2 NC_005882.1 + 19877 0.69 0.254485
Target:  5'- uGUCGGCGCCcGUcGUCGucacGCCGGCgCGc -3'
miRNA:   3'- cCAGCCGCGGcUA-CAGC----CGGUCGaGC- -5'
27630 3' -60.2 NC_005882.1 + 21114 0.72 0.151806
Target:  5'- -cUCGGCguugccgaaacgaccGCCGAUGUCGGCgAGCa-- -3'
miRNA:   3'- ccAGCCG---------------CGGCUACAGCCGgUCGagc -5'
27630 3' -60.2 NC_005882.1 + 21477 0.76 0.075684
Target:  5'- cGUCGGCGCCGGUgcgccguaGUCGGUggucgugucguucguCAGCUCa -3'
miRNA:   3'- cCAGCCGCGGCUA--------CAGCCG---------------GUCGAGc -5'
27630 3' -60.2 NC_005882.1 + 21737 0.69 0.241824
Target:  5'- aGGUCcGCGCgCGccGUC-GCCAGUUCGa -3'
miRNA:   3'- -CCAGcCGCG-GCuaCAGcCGGUCGAGC- -5'
27630 3' -60.2 NC_005882.1 + 22456 0.66 0.358539
Target:  5'- uGGUcgaCGGCGCUG----CGGCCGGCUUc -3'
miRNA:   3'- -CCA---GCCGCGGCuacaGCCGGUCGAGc -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.