miRNA display CGI


Results 1 - 20 of 69 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
30560 3' -60.8 NC_006548.1 + 203 0.69 0.204628
Target:  5'- cGCCG-AACCgauCAGuuGGGCcuuuuUGACCCg -3'
miRNA:   3'- cCGGCgUUGG---GUCggCCCGu----ACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 1069 0.74 0.100842
Target:  5'- uGUCGaCGACCCAGCCGGcGCAgcucagcaucgcUGACgCCc -3'
miRNA:   3'- cCGGC-GUUGGGUCGGCC-CGU------------ACUG-GG- -5'
30560 3' -60.8 NC_006548.1 + 1254 0.67 0.292531
Target:  5'- cGGCUuuGCAGC-CGGCUccuGGCGUGaACCCg -3'
miRNA:   3'- -CCGG--CGUUGgGUCGGc--CCGUAC-UGGG- -5'
30560 3' -60.8 NC_006548.1 + 1957 0.72 0.125935
Target:  5'- aGGCCGUGGCUCGGCUuacucaggGGGUGUGACg- -3'
miRNA:   3'- -CCGGCGUUGGGUCGG--------CCCGUACUGgg -5'
30560 3' -60.8 NC_006548.1 + 3585 0.69 0.210063
Target:  5'- --aCGCAACUgGuGCCGGGCugGUGGCCg -3'
miRNA:   3'- ccgGCGUUGGgU-CGGCCCG--UACUGGg -5'
30560 3' -60.8 NC_006548.1 + 4359 0.68 0.244705
Target:  5'- uGCCGCucuGCaCCGugcugacGCCGGaGC-UGGCCCg -3'
miRNA:   3'- cCGGCGu--UG-GGU-------CGGCC-CGuACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 4688 0.68 0.264741
Target:  5'- aGCuUGguGCCCAGuUCGGGC-UGGCCg -3'
miRNA:   3'- cCG-GCguUGGGUC-GGCCCGuACUGGg -5'
30560 3' -60.8 NC_006548.1 + 5634 0.69 0.227118
Target:  5'- --gCGCAAgCCGGCCcGGCcUGGCCUg -3'
miRNA:   3'- ccgGCGUUgGGUCGGcCCGuACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 6460 0.66 0.354808
Target:  5'- cGCCGC-GCCUGGCgCGuGCAcgaUGACCUc -3'
miRNA:   3'- cCGGCGuUGGGUCG-GCcCGU---ACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 7274 0.66 0.3384
Target:  5'- aGCCGCGGCagAGCUGGGCcUGucGCUg -3'
miRNA:   3'- cCGGCGUUGggUCGGCCCGuAC--UGGg -5'
30560 3' -60.8 NC_006548.1 + 7381 0.7 0.194123
Target:  5'- cGGCCcCcACCCAGUCGGGU---GCCUg -3'
miRNA:   3'- -CCGGcGuUGGGUCGGCCCGuacUGGG- -5'
30560 3' -60.8 NC_006548.1 + 9303 0.69 0.204628
Target:  5'- uGGCgGauGCUCAGCCGGGCGauauguggcaaaUGcCCCa -3'
miRNA:   3'- -CCGgCguUGGGUCGGCCCGU------------ACuGGG- -5'
30560 3' -60.8 NC_006548.1 + 11678 0.76 0.068685
Target:  5'- cGCCGCAACCCcggcgccgccgcgcGCCGcGCAUGACCa -3'
miRNA:   3'- cCGGCGUUGGGu-------------CGGCcCGUACUGGg -5'
30560 3' -60.8 NC_006548.1 + 12377 0.7 0.184093
Target:  5'- aGGCCgGCGAUCCAcucagcgguaCCGGGCAUaaacugcgccaGGCCCu -3'
miRNA:   3'- -CCGG-CGUUGGGUc---------GGCCCGUA-----------CUGGG- -5'
30560 3' -60.8 NC_006548.1 + 14245 0.67 0.292531
Target:  5'- gGGCCuacaucgagggGC-GCCUGGCCGauGGCcggAUGACCCu -3'
miRNA:   3'- -CCGG-----------CGuUGGGUCGGC--CCG---UACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 14339 0.66 0.322549
Target:  5'- cGGCgaGCuGCCCAGCCGuGCA--GCCg -3'
miRNA:   3'- -CCGg-CGuUGGGUCGGCcCGUacUGGg -5'
30560 3' -60.8 NC_006548.1 + 14418 0.68 0.254238
Target:  5'- uGGCCGUAGCgaugcacggcugcaCGGCUGGGCA--GCUCg -3'
miRNA:   3'- -CCGGCGUUGg-------------GUCGGCCCGUacUGGG- -5'
30560 3' -60.8 NC_006548.1 + 14689 0.69 0.215622
Target:  5'- aGGCCaagcuggauGCGauGCCCAGCaaGGGCGgagUGACCg -3'
miRNA:   3'- -CCGG---------CGU--UGGGUCGg-CCCGU---ACUGGg -5'
30560 3' -60.8 NC_006548.1 + 15223 0.69 0.233059
Target:  5'- uGGUCGauuGCCUAuCCGGGCAUcACCUg -3'
miRNA:   3'- -CCGGCgu-UGGGUcGGCCCGUAcUGGG- -5'
30560 3' -60.8 NC_006548.1 + 16526 0.69 0.227118
Target:  5'- uGCCGCAGCCUGGUcgauCGGGCGaucACCg -3'
miRNA:   3'- cCGGCGUUGGGUCG----GCCCGUac-UGGg -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.