miRNA display CGI


Results 1 - 20 of 33 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
12845 5' -58.2 NC_003387.1 + 3106 0.66 0.504728
Target:  5'- cUGcAGCACGUggc-GAuGGUCGCGCAGa -3'
miRNA:   3'- aAC-UCGUGCGggaaCU-CCAGCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 10911 0.66 0.494351
Target:  5'- --cGGCgACGCgCUgcagGAcauGGUCGCGCAGg -3'
miRNA:   3'- aacUCG-UGCGgGAa---CU---CCAGCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 7809 0.66 0.493319
Target:  5'- -cGAGCugcaACGCCUggcggccGAGGUcgcccggCGCGCAGg -3'
miRNA:   3'- aaCUCG----UGCGGGaa-----CUCCA-------GCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 9457 0.66 0.483051
Target:  5'- aUGAGCACGCUCUUGccGUUggacccgGCGCc- -3'
miRNA:   3'- aACUCGUGCGGGAACucCAG-------CGCGuc -5'
12845 5' -58.2 NC_003387.1 + 6973 0.67 0.463833
Target:  5'- --cAGCGCGCCCUcggccacuugUGcAGGcgccgcagaaugUCGCGCAGc -3'
miRNA:   3'- aacUCGUGCGGGA----------AC-UCC------------AGCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 50282 0.67 0.463833
Target:  5'- cUGGcGCGCGUCCaUGcGGUUGCGCu- -3'
miRNA:   3'- aACU-CGUGCGGGaACuCCAGCGCGuc -5'
12845 5' -58.2 NC_003387.1 + 18574 0.67 0.45388
Target:  5'- -aGGGCgACGCCCUggugcucgucGAGuUCGCGCAc -3'
miRNA:   3'- aaCUCG-UGCGGGAa---------CUCcAGCGCGUc -5'
12845 5' -58.2 NC_003387.1 + 15622 0.67 0.45388
Target:  5'- -cGAGCACGUC---GAGGgCGCGCAc -3'
miRNA:   3'- aaCUCGUGCGGgaaCUCCaGCGCGUc -5'
12845 5' -58.2 NC_003387.1 + 48856 0.67 0.434328
Target:  5'- -cGuGCACGCCCU---GGU-GCGCAGc -3'
miRNA:   3'- aaCuCGUGCGGGAacuCCAgCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 24628 0.67 0.433364
Target:  5'- cUGGGCGacccgacgcaccuCGCCCUgcugcgcGAGGUCGC-CAGc -3'
miRNA:   3'- aACUCGU-------------GCGGGAa------CUCCAGCGcGUC- -5'
12845 5' -58.2 NC_003387.1 + 21533 0.67 0.433364
Target:  5'- cUGAGUaucagcaccggcgACGCCCgcGucGUCGUGCAGa -3'
miRNA:   3'- aACUCG-------------UGCGGGaaCucCAGCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 12186 0.67 0.424738
Target:  5'- -gGGGuCACGCCCUcggGcAGGUCGCuGCu- -3'
miRNA:   3'- aaCUC-GUGCGGGAa--C-UCCAGCG-CGuc -5'
12845 5' -58.2 NC_003387.1 + 32522 0.67 0.424738
Target:  5'- -cGuGCACGCCCggccgugcGAGG-CGCaGCAGc -3'
miRNA:   3'- aaCuCGUGCGGGaa------CUCCaGCG-CGUC- -5'
12845 5' -58.2 NC_003387.1 + 42421 0.67 0.424738
Target:  5'- -cGAGCAgGCCCgcaAGGUCGUcaccgaGCGGu -3'
miRNA:   3'- aaCUCGUgCGGGaacUCCAGCG------CGUC- -5'
12845 5' -58.2 NC_003387.1 + 52488 0.67 0.415274
Target:  5'- cUGAGCAUGUCg--GGGG-CGCGCAu -3'
miRNA:   3'- aACUCGUGCGGgaaCUCCaGCGCGUc -5'
12845 5' -58.2 NC_003387.1 + 11402 0.67 0.413397
Target:  5'- ---cGCACGCCUggcacauggcgaUGAGGUUGCGCu- -3'
miRNA:   3'- aacuCGUGCGGGa-----------ACUCCAGCGCGuc -5'
12845 5' -58.2 NC_003387.1 + 18669 0.68 0.396742
Target:  5'- cUGGGCGCuuaggccGCCCcacacgccgaccaggUGcGGGUCGCGCAGc -3'
miRNA:   3'- aACUCGUG-------CGGGa--------------AC-UCCAGCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 49167 0.68 0.387678
Target:  5'- --cAGCGCGCag--GcGGUCGCGCAGg -3'
miRNA:   3'- aacUCGUGCGggaaCuCCAGCGCGUC- -5'
12845 5' -58.2 NC_003387.1 + 11825 0.68 0.386778
Target:  5'- -cGAGCcgcgaucGCGgCCUUGAuuaGGUCGcCGCGGa -3'
miRNA:   3'- aaCUCG-------UGCgGGAACU---CCAGC-GCGUC- -5'
12845 5' -58.2 NC_003387.1 + 14719 0.68 0.37875
Target:  5'- -gGuGCACGgCUUgcUGcGGUCGCGCAGc -3'
miRNA:   3'- aaCuCGUGCgGGA--ACuCCAGCGCGUC- -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.