miRNA display CGI


Results 1 - 20 of 28 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
7287 3' -55.9 NC_001900.1 + 36023 0.66 0.698514
Target:  5'- --gGCUGcgCGACGaGUACCUCuacgaGCCg -3'
miRNA:   3'- cugCGACaaGCUGCgCAUGGAG-----CGGg -5'
7287 3' -55.9 NC_001900.1 + 47847 0.66 0.698514
Target:  5'- cGCGUgccgUGACGCGaACCUCGCg- -3'
miRNA:   3'- cUGCGacaaGCUGCGCaUGGAGCGgg -5'
7287 3' -55.9 NC_001900.1 + 11937 0.66 0.687723
Target:  5'- cGGCGaucgagUCGGCGU---CCUCGCCCu -3'
miRNA:   3'- -CUGCgaca--AGCUGCGcauGGAGCGGG- -5'
7287 3' -55.9 NC_001900.1 + 51 0.66 0.687723
Target:  5'- --aGCacgGgcCGACGCuagagcGCCUCGCCCa -3'
miRNA:   3'- cugCGa--CaaGCUGCGca----UGGAGCGGG- -5'
7287 3' -55.9 NC_001900.1 + 14296 0.66 0.681222
Target:  5'- cGACGUgccuggccgcgaccuUGUUCGcguuCGCGUagACCUuCGCCa -3'
miRNA:   3'- -CUGCG---------------ACAAGCu---GCGCA--UGGA-GCGGg -5'
7287 3' -55.9 NC_001900.1 + 1703 0.66 0.676879
Target:  5'- cGCGCUggaGUUCGACgGCGU-Caa-GCCCa -3'
miRNA:   3'- cUGCGA---CAAGCUG-CGCAuGgagCGGG- -5'
7287 3' -55.9 NC_001900.1 + 23831 0.66 0.670352
Target:  5'- cGGCGCUGgcuucCGGCGCuggggcugggaagGCCagGCCCg -3'
miRNA:   3'- -CUGCGACaa---GCUGCGca-----------UGGagCGGG- -5'
7287 3' -55.9 NC_001900.1 + 15004 0.66 0.665993
Target:  5'- uGACuGCUGcggUCGGguaUGUGUACgUCGCCg -3'
miRNA:   3'- -CUG-CGACa--AGCU---GCGCAUGgAGCGGg -5'
7287 3' -55.9 NC_001900.1 + 9066 0.66 0.655076
Target:  5'- cGACGCUGcagUCuGCGCuGU-CCUCGCg- -3'
miRNA:   3'- -CUGCGACa--AGcUGCG-CAuGGAGCGgg -5'
7287 3' -55.9 NC_001900.1 + 36341 0.66 0.655076
Target:  5'- uGACGUUGUcCGACGaguaGUGgCUgCGCUCc -3'
miRNA:   3'- -CUGCGACAaGCUGCg---CAUgGA-GCGGG- -5'
7287 3' -55.9 NC_001900.1 + 3135 0.67 0.62224
Target:  5'- -cCGCcgGUcgggUCGGCGgGUGCC-CGCUCg -3'
miRNA:   3'- cuGCGa-CA----AGCUGCgCAUGGaGCGGG- -5'
7287 3' -55.9 NC_001900.1 + 28195 0.67 0.622239
Target:  5'- --aGCUGgccuugugCGAUGuCGUugGCCUCGUCCu -3'
miRNA:   3'- cugCGACaa------GCUGC-GCA--UGGAGCGGG- -5'
7287 3' -55.9 NC_001900.1 + 49059 0.67 0.618956
Target:  5'- aACGCUca-CGgcACGCGUGCCUCgaggggcacacgauGCCCa -3'
miRNA:   3'- cUGCGAcaaGC--UGCGCAUGGAG--------------CGGG- -5'
7287 3' -55.9 NC_001900.1 + 21266 0.67 0.600375
Target:  5'- cGGCGCgGUcggUGGCGCGaucgACCU-GCCCc -3'
miRNA:   3'- -CUGCGaCAa--GCUGCGCa---UGGAgCGGG- -5'
7287 3' -55.9 NC_001900.1 + 7885 0.67 0.589478
Target:  5'- cACGCUGcggGGCGCGgcuUGCCgaUCGCCUg -3'
miRNA:   3'- cUGCGACaagCUGCGC---AUGG--AGCGGG- -5'
7287 3' -55.9 NC_001900.1 + 32441 0.67 0.578618
Target:  5'- gGACGUUcagucGUUCGcccaggaggcguACGaGUACCUCGUCCa -3'
miRNA:   3'- -CUGCGA-----CAAGC------------UGCgCAUGGAGCGGG- -5'
7287 3' -55.9 NC_001900.1 + 42519 0.67 0.575367
Target:  5'- cGACGCUGUacuucucggcggacUcCGACGCGUucacccagAUCUCGCg- -3'
miRNA:   3'- -CUGCGACA--------------A-GCUGCGCA--------UGGAGCGgg -5'
7287 3' -55.9 NC_001900.1 + 1599 0.68 0.5678
Target:  5'- -uCGCUGUUCGAgGuCGgcuUCUCGgCCg -3'
miRNA:   3'- cuGCGACAAGCUgC-GCau-GGAGCgGG- -5'
7287 3' -55.9 NC_001900.1 + 3582 0.68 0.550603
Target:  5'- -uCGCUGUUCccCGCGUggacgcugaacuucaACCUgaaCGCCCg -3'
miRNA:   3'- cuGCGACAAGcuGCGCA---------------UGGA---GCGGG- -5'
7287 3' -55.9 NC_001900.1 + 5224 0.68 0.546328
Target:  5'- cGACGCaGagugUCGACGCugccgaaauCCUCGCUCg -3'
miRNA:   3'- -CUGCGaCa---AGCUGCGcau------GGAGCGGG- -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.