miRNA display CGI


Results 1 - 11 of 11 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
18310 3' -61.1 NC_004681.1 + 34606 0.66 0.534434
Target:  5'- cUCCa-CCUCGAUGGGGAugcgGCCCuUGGg -3'
miRNA:   3'- -AGGcaGGGGCUACUCCU----CGGGcACCa -5'
18310 3' -61.1 NC_004681.1 + 7900 0.66 0.504827
Target:  5'- gCCGcCUCCGAggaagccgccGAGGAGCCggaagaaGUGGUg -3'
miRNA:   3'- aGGCaGGGGCUa---------CUCCUCGGg------CACCA- -5'
18310 3' -61.1 NC_004681.1 + 49556 0.66 0.485486
Target:  5'- gCCGUCCuuGuagcGGGGgCCGUGGa -3'
miRNA:   3'- aGGCAGGggCuacuCCUCgGGCACCa -5'
18310 3' -61.1 NC_004681.1 + 44358 0.67 0.466505
Target:  5'- cUUCGUCCCCGAgaccUGAcccuacGGGcGCCCGUccGGg -3'
miRNA:   3'- -AGGCAGGGGCU----ACU------CCU-CGGGCA--CCa -5'
18310 3' -61.1 NC_004681.1 + 63832 0.67 0.45716
Target:  5'- gUUCGUCCCCGGUucaaauccGGGcGGGCcuugccucgcgCCGUGGUc -3'
miRNA:   3'- -AGGCAGGGGCUA--------CUC-CUCG-----------GGCACCA- -5'
18310 3' -61.1 NC_004681.1 + 29582 0.67 0.451601
Target:  5'- aCCGagguggUCCCGGUGAGGgacaGggugaccgacucaccGCCCGUGGUg -3'
miRNA:   3'- aGGCa-----GGGGCUACUCC----U---------------CGGGCACCA- -5'
18310 3' -61.1 NC_004681.1 + 71944 0.67 0.429745
Target:  5'- -aCG-CCCCGAUGAGGAaGCUCGcaaGGc -3'
miRNA:   3'- agGCaGGGGCUACUCCU-CGGGCa--CCa -5'
18310 3' -61.1 NC_004681.1 + 4018 0.68 0.392194
Target:  5'- cUUCGUCUacaugcggaacacuCCGAUgGAGGAGgaCCCGUGGa -3'
miRNA:   3'- -AGGCAGG--------------GGCUA-CUCCUC--GGGCACCa -5'
18310 3' -61.1 NC_004681.1 + 1240 0.7 0.323051
Target:  5'- gCCGaUCCCCaccGAUGGGGAaCUCGUGGc -3'
miRNA:   3'- aGGC-AGGGG---CUACUCCUcGGGCACCa -5'
18310 3' -61.1 NC_004681.1 + 48205 0.72 0.220548
Target:  5'- cUCGaugCCCaccggGGUGAGGGGCUCGUGGUg -3'
miRNA:   3'- aGGCa--GGGg----CUACUCCUCGGGCACCA- -5'
18310 3' -61.1 NC_004681.1 + 36790 1.07 0.000602
Target:  5'- cUCCGUCCCCGAUGAGGAGCCCGUGGUg -3'
miRNA:   3'- -AGGCAGGGGCUACUCCUCGGGCACCA- -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.