miRNA display CGI


Results 1 - 20 of 24 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
17216 5' -53.2 NC_004333.2 + 6663 0.66 0.819313
Target:  5'- uGGGcGG-CGCGCCGUGGcggcgaugcgggcuuUCGCGCGu- -3'
miRNA:   3'- gCUC-CUaGUGCGGCACU---------------AGCGUGUuc -5'
17216 5' -53.2 NC_004333.2 + 19510 0.66 0.815528
Target:  5'- gGAGGcgcuggCACGCgCGUGAaCGuCGCGGGu -3'
miRNA:   3'- gCUCCua----GUGCG-GCACUaGC-GUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 2777 0.66 0.815528
Target:  5'- gCGuucGUCACGaCCGUGAagcggUUGCGCAGGg -3'
miRNA:   3'- -GCuccUAGUGC-GGCACU-----AGCGUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 41784 0.66 0.80593
Target:  5'- uCGuuGAUCGCGCCGUGc-CGCcCGAa -3'
miRNA:   3'- -GCucCUAGUGCGGCACuaGCGuGUUc -5'
17216 5' -53.2 NC_004333.2 + 31492 0.66 0.794163
Target:  5'- uGAGGAUCGCGaagcaaaaCGUcgccacgcggCGCGCAAGa -3'
miRNA:   3'- gCUCCUAGUGCg-------GCAcua-------GCGUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 33418 0.67 0.755331
Target:  5'- aCGAcGG-CGCGCCGUucUCGCGCAAc -3'
miRNA:   3'- -GCUcCUaGUGCGGCAcuAGCGUGUUc -5'
17216 5' -53.2 NC_004333.2 + 17323 0.67 0.723311
Target:  5'- cCGAGGAugaucugaUCGCGCUGUauagCGCACGc- -3'
miRNA:   3'- -GCUCCU--------AGUGCGGCAcua-GCGUGUuc -5'
17216 5' -53.2 NC_004333.2 + 41748 0.67 0.723311
Target:  5'- gCGGGcGAcucgCGCGCCGggcuaugGGUCuGCACGAGc -3'
miRNA:   3'- -GCUC-CUa---GUGCGGCa------CUAG-CGUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 47017 0.67 0.723311
Target:  5'- --cGGcgCGCGCCGccuUGGcugCGCGCGAGg -3'
miRNA:   3'- gcuCCuaGUGCGGC---ACUa--GCGUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 25041 0.68 0.701475
Target:  5'- uCGGGuaguucGUCGCGCCGUaguuGAUCGCGCu-- -3'
miRNA:   3'- -GCUCc-----UAGUGCGGCA----CUAGCGUGuuc -5'
17216 5' -53.2 NC_004333.2 + 1321 0.68 0.668224
Target:  5'- gGAGcacGUCAUGCCGuUGAUCGaagGCAAGa -3'
miRNA:   3'- gCUCc--UAGUGCGGC-ACUAGCg--UGUUC- -5'
17216 5' -53.2 NC_004333.2 + 27241 0.69 0.645861
Target:  5'- uCGGGGG-CACGCauggcUGAUCGCGCGc- -3'
miRNA:   3'- -GCUCCUaGUGCGgc---ACUAGCGUGUuc -5'
17216 5' -53.2 NC_004333.2 + 20580 0.7 0.556699
Target:  5'- --cGGGUCGCGCCGUGGU-GUuucuGCAGGc -3'
miRNA:   3'- gcuCCUAGUGCGGCACUAgCG----UGUUC- -5'
17216 5' -53.2 NC_004333.2 + 24782 0.71 0.534858
Target:  5'- aCGGGaaGAUCACGCUGUcGcgCGCGCGGa -3'
miRNA:   3'- -GCUC--CUAGUGCGGCA-CuaGCGUGUUc -5'
17216 5' -53.2 NC_004333.2 + 8228 0.71 0.534858
Target:  5'- -cAGGAUgACGCCGgcc-CGCGCGAGg -3'
miRNA:   3'- gcUCCUAgUGCGGCacuaGCGUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 40845 0.71 0.531607
Target:  5'- aGAGGcgCGCGCCuucuggucgccggcGaUGGUCGCGCGAc -3'
miRNA:   3'- gCUCCuaGUGCGG--------------C-ACUAGCGUGUUc -5'
17216 5' -53.2 NC_004333.2 + 36214 0.71 0.481725
Target:  5'- aCGAGGcguugaagGUUGCGCCG--GUCGCGCAGGc -3'
miRNA:   3'- -GCUCC--------UAGUGCGGCacUAGCGUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 5522 0.71 0.481725
Target:  5'- gCGGGGAuauaggUCAUGCCGUGGccggcgacggcuUgGCGCGAGu -3'
miRNA:   3'- -GCUCCU------AGUGCGGCACU------------AgCGUGUUC- -5'
17216 5' -53.2 NC_004333.2 + 46190 0.72 0.471401
Target:  5'- cCGAGGGcugggcgcgucUCGCGCCG-GAUCaGCGCcAGg -3'
miRNA:   3'- -GCUCCU-----------AGUGCGGCaCUAG-CGUGuUC- -5'
17216 5' -53.2 NC_004333.2 + 27803 0.72 0.46119
Target:  5'- cCGAccaGAuUCGCGCCGcGAUCGCGCAAu -3'
miRNA:   3'- -GCUc--CU-AGUGCGGCaCUAGCGUGUUc -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.