miRNA display CGI


Results 1 - 15 of 15 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
12517 3' -59.5 NC_003345.1 + 54119 0.66 0.647557
Target:  5'- gGGGCUAacuCGAuuACGGCUC-UCCCGguuccgcuggcUGGAa -3'
miRNA:   3'- -CCCGGU---GCU--UGCCGAGcAGGGU-----------GCCU- -5'
12517 3' -59.5 NC_003345.1 + 49186 0.66 0.647557
Target:  5'- aGGCCGCGAGCuGUaCG-CCCACuacgaGGAc -3'
miRNA:   3'- cCCGGUGCUUGcCGaGCaGGGUG-----CCU- -5'
12517 3' -59.5 NC_003345.1 + 42616 0.66 0.606319
Target:  5'- cGGcGUCucuggUGAGCGGCUaauugaccCGUCCUGCGGGu -3'
miRNA:   3'- -CC-CGGu----GCUUGCCGA--------GCAGGGUGCCU- -5'
12517 3' -59.5 NC_003345.1 + 61354 0.66 0.606319
Target:  5'- gGGGCCGCGAGCGuaaucUUCGgCCUcaaguCGGAa -3'
miRNA:   3'- -CCCGGUGCUUGCc----GAGCaGGGu----GCCU- -5'
12517 3' -59.5 NC_003345.1 + 55146 0.67 0.585786
Target:  5'- cGGCUuguACGAGCuaUUCGUCCCACGa- -3'
miRNA:   3'- cCCGG---UGCUUGccGAGCAGGGUGCcu -5'
12517 3' -59.5 NC_003345.1 + 32932 0.67 0.565388
Target:  5'- gGGGUCaACGAcGCGGCgaaCGUCCuCGCGu- -3'
miRNA:   3'- -CCCGG-UGCU-UGCCGa--GCAGG-GUGCcu -5'
12517 3' -59.5 NC_003345.1 + 14790 0.67 0.565388
Target:  5'- aGGCUAUGucCGGCUUGcCgUCGCGGAg -3'
miRNA:   3'- cCCGGUGCuuGCCGAGCaG-GGUGCCU- -5'
12517 3' -59.5 NC_003345.1 + 68864 0.67 0.535163
Target:  5'- -cGCCGCuGACGaGCuUCGUCaCCACGGc -3'
miRNA:   3'- ccCGGUGcUUGC-CG-AGCAG-GGUGCCu -5'
12517 3' -59.5 NC_003345.1 + 55746 0.68 0.52224
Target:  5'- cGGUCACGGaaguauucACGGCcgaaucaacgauacUCGUCCgGCGGu -3'
miRNA:   3'- cCCGGUGCU--------UGCCG--------------AGCAGGgUGCCu -5'
12517 3' -59.5 NC_003345.1 + 21080 0.68 0.486164
Target:  5'- uGGCCGucucggUGAAuacacCGGgUCGUCCUACGGGc -3'
miRNA:   3'- cCCGGU------GCUU-----GCCgAGCAGGGUGCCU- -5'
12517 3' -59.5 NC_003345.1 + 55552 0.68 0.486164
Target:  5'- cGGCC-CGAACGG-UCGUUCUcuCGGAg -3'
miRNA:   3'- cCCGGuGCUUGCCgAGCAGGGu-GCCU- -5'
12517 3' -59.5 NC_003345.1 + 75407 0.68 0.486164
Target:  5'- gGGGCCGCGAggucgGCGGUUCaGcCCUGCuGGu -3'
miRNA:   3'- -CCCGGUGCU-----UGCCGAG-CaGGGUG-CCu -5'
12517 3' -59.5 NC_003345.1 + 16023 0.69 0.439397
Target:  5'- cGGcGCuCACGAACGGUU-GUUCCaccaGCGGAg -3'
miRNA:   3'- -CC-CG-GUGCUUGCCGAgCAGGG----UGCCU- -5'
12517 3' -59.5 NC_003345.1 + 887 0.71 0.362153
Target:  5'- cGGGCCG-GAaaGCGGCcCGUCCUucACGGu -3'
miRNA:   3'- -CCCGGUgCU--UGCCGaGCAGGG--UGCCu -5'
12517 3' -59.5 NC_003345.1 + 12082 1.1 0.000601
Target:  5'- cGGGCCACGAACGGCUCGUCCCACGGAc -3'
miRNA:   3'- -CCCGGUGCUUGCCGAGCAGGGUGCCU- -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.