miRNA display CGI


Results 1 - 18 of 18 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
28399 3' -60.9 NC_005946.1 + 49619 0.66 0.635883
Target:  5'- cCCgGgGCCUCGAACCUGG-GGUUAa -3'
miRNA:   3'- cGGaCgCGGAGCUUGGGCUgCCGGUg -5'
28399 3' -60.9 NC_005946.1 + 65066 0.66 0.635883
Target:  5'- cGCCUcCGuCCUCGGACUCGAgcaGGUC-Cg -3'
miRNA:   3'- -CGGAcGC-GGAGCUUGGGCUg--CCGGuG- -5'
28399 3' -60.9 NC_005946.1 + 12912 0.66 0.615647
Target:  5'- cCCUGCccGCUuugUUGGGCgCGuCGGCCGCg -3'
miRNA:   3'- cGGACG--CGG---AGCUUGgGCuGCCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 79039 0.66 0.58239
Target:  5'- aCCUGCagccgugggggcccGCCguaaagaCGuAgCCGGCGGCCACg -3'
miRNA:   3'- cGGACG--------------CGGa------GCuUgGGCUGCCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 34790 0.67 0.565391
Target:  5'- uCCgGCGUCaUGGGCuuGGCGGCgGCg -3'
miRNA:   3'- cGGaCGCGGaGCUUGggCUGCCGgUG- -5'
28399 3' -60.9 NC_005946.1 + 47434 0.67 0.565391
Target:  5'- -aCUGCGCCUUcGGCgUGAgcggucugcgcCGGCCACu -3'
miRNA:   3'- cgGACGCGGAGcUUGgGCU-----------GCCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 9605 0.67 0.555451
Target:  5'- cGCCUcCGCCUCcagGAucuuggagcacACCgCGuCGGCCACc -3'
miRNA:   3'- -CGGAcGCGGAG---CU-----------UGG-GCuGCCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 2882 0.67 0.555451
Target:  5'- aCCUGU-CCUCGcagGACgCCGGCugGGCCACu -3'
miRNA:   3'- cGGACGcGGAGC---UUG-GGCUG--CCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 10700 0.67 0.545563
Target:  5'- uGgCUGUGCU--GggUCUGACGGCCAg -3'
miRNA:   3'- -CgGACGCGGagCuuGGGCUGCCGGUg -5'
28399 3' -60.9 NC_005946.1 + 9723 0.67 0.525964
Target:  5'- -aCUGgGCCcUGGACauGACGGCCAUc -3'
miRNA:   3'- cgGACgCGGaGCUUGggCUGCCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 74529 0.67 0.525964
Target:  5'- aCCgaggGUGCCUC---CCUGACGGCgGCg -3'
miRNA:   3'- cGGa---CGCGGAGcuuGGGCUGCCGgUG- -5'
28399 3' -60.9 NC_005946.1 + 64389 0.68 0.487618
Target:  5'- aGCCUGCaCCUCuuugcgaugGGGCCCGugGucCCACc -3'
miRNA:   3'- -CGGACGcGGAG---------CUUGGGCugCc-GGUG- -5'
28399 3' -60.9 NC_005946.1 + 20712 0.68 0.478235
Target:  5'- aGCCUGgccgGCCUCGAgGCCC--UGGUCGCa -3'
miRNA:   3'- -CGGACg---CGGAGCU-UGGGcuGCCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 59833 0.68 0.478235
Target:  5'- ---aGCGUCUCcugGAGCuuGACGGCCGu -3'
miRNA:   3'- cggaCGCGGAG---CUUGggCUGCCGGUg -5'
28399 3' -60.9 NC_005946.1 + 55022 0.7 0.36551
Target:  5'- aGCCUGaacaGCCUgaGAGCCUGAaCGGCaGCa -3'
miRNA:   3'- -CGGACg---CGGAg-CUUGGGCU-GCCGgUG- -5'
28399 3' -60.9 NC_005946.1 + 93894 0.71 0.334706
Target:  5'- uCCUGgGUgaUGAACCCG-UGGCCGCa -3'
miRNA:   3'- cGGACgCGgaGCUUGGGCuGCCGGUG- -5'
28399 3' -60.9 NC_005946.1 + 79503 0.72 0.305845
Target:  5'- ---aGUGCCUgGAggGCCUGACGGCCGa -3'
miRNA:   3'- cggaCGCGGAgCU--UGGGCUGCCGGUg -5'
28399 3' -60.9 NC_005946.1 + 61015 1 0.003392
Target:  5'- aGCCUGCGCCUCGAACCCGACG-CCACa -3'
miRNA:   3'- -CGGACGCGGAGCUUGGGCUGCcGGUG- -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.