miRNA display CGI


Results 1 - 20 of 29 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
30405 3' -57.6 NC_006548.1 + 1538 1.04 0.000806
Target:  5'- aGCGCUACCACUCCACUGCCGGCGAc- -3'
miRNA:   3'- -CGCGAUGGUGAGGUGACGGCCGCUag -5'
30405 3' -57.6 NC_006548.1 + 7253 0.77 0.09272
Target:  5'- uGCGCUGCCccugaccggcGCUCUguaGCUGCCGGUcgaGGUCa -3'
miRNA:   3'- -CGCGAUGG----------UGAGG---UGACGGCCG---CUAG- -5'
30405 3' -57.6 NC_006548.1 + 12085 0.73 0.163483
Target:  5'- uGCGCUGauGCUCCugcuGCUgGCCGGCGGUUu -3'
miRNA:   3'- -CGCGAUggUGAGG----UGA-CGGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 4460 0.71 0.220598
Target:  5'- gGCGa-ACCGCUCguCACUGCCGauGUGAUCa -3'
miRNA:   3'- -CGCgaUGGUGAG--GUGACGGC--CGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 17049 0.71 0.225957
Target:  5'- aGCGCccgGCUuccagcaGCUCCGCcugcaUGCCGGCGggCa -3'
miRNA:   3'- -CGCGa--UGG-------UGAGGUG-----ACGGCCGCuaG- -5'
30405 3' -57.6 NC_006548.1 + 16322 0.71 0.23889
Target:  5'- uCGCgGCCGucgCCACUGgUGGCGAUCu -3'
miRNA:   3'- cGCGaUGGUga-GGUGACgGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 20800 0.7 0.258433
Target:  5'- cUGCUGCCGCgCCagaagGCU-CCGGUGAUCg -3'
miRNA:   3'- cGCGAUGGUGaGG-----UGAcGGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 1135 0.7 0.279263
Target:  5'- uGCGCgGCCAgcaacgCCugUG-CGGCGAUCa -3'
miRNA:   3'- -CGCGaUGGUga----GGugACgGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 16549 0.69 0.316118
Target:  5'- uGCaGCUGCUGCUCCAggugcuCUGCCgcagccuGGuCGAUCg -3'
miRNA:   3'- -CG-CGAUGGUGAGGU------GACGG-------CC-GCUAG- -5'
30405 3' -57.6 NC_006548.1 + 6034 0.68 0.341271
Target:  5'- aCGCgACCACUUCA---CCGGUGAUCg -3'
miRNA:   3'- cGCGaUGGUGAGGUgacGGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 32776 0.68 0.341271
Target:  5'- gGCGCUGCCgguguggccggACaUCCAgCUGCUGGCaagcGUCa -3'
miRNA:   3'- -CGCGAUGG-----------UG-AGGU-GACGGCCGc---UAG- -5'
30405 3' -57.6 NC_006548.1 + 36010 0.68 0.349687
Target:  5'- cGCGC-GCCGCcaCC-CUGCCGGCcaacucgccGGUCg -3'
miRNA:   3'- -CGCGaUGGUGa-GGuGACGGCCG---------CUAG- -5'
30405 3' -57.6 NC_006548.1 + 32560 0.68 0.349687
Target:  5'- uGCaGUUGCCagacgaugcgcGCgUCCACUaCCGGCGGUCc -3'
miRNA:   3'- -CG-CGAUGG-----------UG-AGGUGAcGGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 13769 0.68 0.366082
Target:  5'- cGCGCUGCCACUgguugguuucuucCCGCgcgGCCugcucgauGGCG-UCc -3'
miRNA:   3'- -CGCGAUGGUGA-------------GGUGa--CGG--------CCGCuAG- -5'
30405 3' -57.6 NC_006548.1 + 21492 0.67 0.392109
Target:  5'- aGCGCUccaugagcaaugcACCAUUUCccaucgaucccgaACUGaCGGCGAUCg -3'
miRNA:   3'- -CGCGA-------------UGGUGAGG-------------UGACgGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 22707 0.67 0.393028
Target:  5'- uCGCUGCCAUUCaggcgcagaaggUGCUcgugccgGCCGGCGAUg -3'
miRNA:   3'- cGCGAUGGUGAG------------GUGA-------CGGCCGCUAg -5'
30405 3' -57.6 NC_006548.1 + 35950 0.67 0.41264
Target:  5'- uCGUUAUCACgCCGCcgGCCGcGCgGAUCg -3'
miRNA:   3'- cGCGAUGGUGaGGUGa-CGGC-CG-CUAG- -5'
30405 3' -57.6 NC_006548.1 + 2356 0.67 0.41264
Target:  5'- aGCGagGCgCAC-CCGCcagGCCGGCGGUUu -3'
miRNA:   3'- -CGCgaUG-GUGaGGUGa--CGGCCGCUAG- -5'
30405 3' -57.6 NC_006548.1 + 27400 0.67 0.422189
Target:  5'- --aCUGCCGCUCCuGCUcgGCCaGGCGAg- -3'
miRNA:   3'- cgcGAUGGUGAGG-UGA--CGG-CCGCUag -5'
30405 3' -57.6 NC_006548.1 + 22604 0.67 0.43187
Target:  5'- gGCGCUAUCGUUCCGCUcGCCGaacugccggaaGCGGa- -3'
miRNA:   3'- -CGCGAUGGUGAGGUGA-CGGC-----------CGCUag -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.