miRNA display CGI


Results 1 - 20 of 38 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
25541 3' -53.5 NC_005337.1 + 6246 0.66 0.952874
Target:  5'- cGCgagUCAGCGUCgCUGacgcuggcgccGGCGuccAGGAGCAg -3'
miRNA:   3'- aUGa--AGUUGCAG-GAC-----------CUGC---UCCUCGU- -5'
25541 3' -53.5 NC_005337.1 + 96581 0.66 0.952874
Target:  5'- aGC-UCGGCGUCCUGGACGccGccGCc -3'
miRNA:   3'- aUGaAGUUGCAGGACCUGCucCu-CGu -5'
25541 3' -53.5 NC_005337.1 + 54504 0.66 0.944095
Target:  5'- -uCUgggaGACGUCC-GG-CGAGGAGCu -3'
miRNA:   3'- auGAag--UUGCAGGaCCuGCUCCUCGu -5'
25541 3' -53.5 NC_005337.1 + 64128 0.66 0.944095
Target:  5'- cGCggcgCAugGCGUCCUGGAaGGGGAuGUAc -3'
miRNA:   3'- aUGaa--GU--UGCAGGACCUgCUCCU-CGU- -5'
25541 3' -53.5 NC_005337.1 + 51835 0.66 0.944095
Target:  5'- gUGCUcguccaUC-AUGUCC--GACGAGGAGCAg -3'
miRNA:   3'- -AUGA------AGuUGCAGGacCUGCUCCUCGU- -5'
25541 3' -53.5 NC_005337.1 + 70471 0.66 0.944095
Target:  5'- gGCUgaaCAAC-UCCUGGcgcuucagcaGCGAGGAGUc -3'
miRNA:   3'- aUGAa--GUUGcAGGACC----------UGCUCCUCGu -5'
25541 3' -53.5 NC_005337.1 + 116959 0.66 0.944095
Target:  5'- aGCUaCGugGUgCUgcaGGACGAGGAGg- -3'
miRNA:   3'- aUGAaGUugCAgGA---CCUGCUCCUCgu -5'
25541 3' -53.5 NC_005337.1 + 8577 0.66 0.939331
Target:  5'- gACgUCGACGuUCCUGGACuucAGGAagGCGa -3'
miRNA:   3'- aUGaAGUUGC-AGGACCUGc--UCCU--CGU- -5'
25541 3' -53.5 NC_005337.1 + 38314 0.66 0.93635
Target:  5'- cGCgcgUCGagcgcaacgaccgacGCGUCuggCUGGACGuGGAGCGc -3'
miRNA:   3'- aUGa--AGU---------------UGCAG---GACCUGCuCCUCGU- -5'
25541 3' -53.5 NC_005337.1 + 133754 0.66 0.934312
Target:  5'- aGCUggAGCG-CCUGcGccGCGAGGAGCu -3'
miRNA:   3'- aUGAagUUGCaGGAC-C--UGCUCCUCGu -5'
25541 3' -53.5 NC_005337.1 + 133754 0.66 0.934312
Target:  5'- aGCUggAGCG-CCUGcGccGCGAGGAGCu -3'
miRNA:   3'- aUGAagUUGCaGGAC-C--UGCUCCUCGu -5'
25541 3' -53.5 NC_005337.1 + 120623 0.66 0.934312
Target:  5'- -uCUUCAugcccaucccgcGCGUCCUGcuuccaGACGAGGuGCu -3'
miRNA:   3'- auGAAGU------------UGCAGGAC------CUGCUCCuCGu -5'
25541 3' -53.5 NC_005337.1 + 9352 0.67 0.929039
Target:  5'- cUGCUgUCGGgGUCCagGGGC-AGGGGCAu -3'
miRNA:   3'- -AUGA-AGUUgCAGGa-CCUGcUCCUCGU- -5'
25541 3' -53.5 NC_005337.1 + 47467 0.67 0.928498
Target:  5'- -cCUUCAA-GUCCUGcgucuacGACGAGGAGg- -3'
miRNA:   3'- auGAAGUUgCAGGAC-------CUGCUCCUCgu -5'
25541 3' -53.5 NC_005337.1 + 84567 0.67 0.92351
Target:  5'- cGCggCAGCGcgugaCCgcgagGGugGAGGAGCu -3'
miRNA:   3'- aUGaaGUUGCa----GGa----CCugCUCCUCGu -5'
25541 3' -53.5 NC_005337.1 + 103691 0.67 0.911687
Target:  5'- aGCUgCAAUGccUCCUGGcgcacggccuccACGGGGAGCu -3'
miRNA:   3'- aUGAaGUUGC--AGGACC------------UGCUCCUCGu -5'
25541 3' -53.5 NC_005337.1 + 96645 0.67 0.911687
Target:  5'- gACcgCGGCG-CCUGGAUGAGcaacguGAGCAu -3'
miRNA:   3'- aUGaaGUUGCaGGACCUGCUC------CUCGU- -5'
25541 3' -53.5 NC_005337.1 + 43471 0.67 0.905394
Target:  5'- gGgUUCAGCGUCCUGauGACGAuGGcGUAc -3'
miRNA:   3'- aUgAAGUUGCAGGAC--CUGCU-CCuCGU- -5'
25541 3' -53.5 NC_005337.1 + 86465 0.67 0.905394
Target:  5'- cACgUCGugcACGaucUCCUGGAUGAGGAuGCGc -3'
miRNA:   3'- aUGaAGU---UGC---AGGACCUGCUCCU-CGU- -5'
25541 3' -53.5 NC_005337.1 + 131360 0.67 0.905394
Target:  5'- cACUccggCGACGccgcUCCUGGACGuGGucuGCAg -3'
miRNA:   3'- aUGAa---GUUGC----AGGACCUGCuCCu--CGU- -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.